Mercurial > repos > iuc > pysradb_search
changeset 1:f63cf0adfd87 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pysradb commit ce41250f1a9525090296ce9351b8a38a521af6b1
| author | iuc |
|---|---|
| date | Wed, 30 Nov 2022 13:19:36 +0000 |
| parents | 1005ffbccd86 |
| children | b91e1e70f3a1 |
| files | macros.xml pysradb.xml test-data/test_01.tabular test-data/test_01_histogram1.jpg test-data/test_01_histogram2.jpg test-data/test_01_stats.txt test-data/test_02_stats.txt test-data/test_06.tabular |
| diffstat | 8 files changed, 146 insertions(+), 141 deletions(-) [+] |
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--- a/macros.xml Fri Nov 11 07:35:39 2022 +0000 +++ b/macros.xml Wed Nov 30 13:19:36 2022 +0000 @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">1.4.2</token> - <token name="@SUFFIX_VERSION@">0</token> + <token name="@SUFFIX_VERSION@">1</token> <xml name="bio_tools"> <xrefs> <xref type="bio.tools">pysradb</xref>
--- a/pysradb.xml Fri Nov 11 07:35:39 2022 +0000 +++ b/pysradb.xml Wed Nov 30 13:19:36 2022 +0000 @@ -78,8 +78,8 @@ <option value="sra">SRA: Sequence Read Archive</option> <option value="ena">ENA: European Nucleotide Archive</option> </param> - <param argument="--query" type="text" value="" - label="Query keywords" help="Multiple keywords should be separated by spaces. Example: colorectal cancer"> + <param argument="--query" type="text" value="" optional="true" + label="Query keywords/BioProject ID" help="Multiple keywords should be separated by spaces. Example: colorectal cancer"> <sanitizer invalid_char=""> <valid initial="string.letters,string.digits"> <add value="_" /> @@ -90,7 +90,7 @@ <validator type="regex">[0-9a-zA-Z_ -]+</validator> </param> <conditional name="conditional_mode"> - <param name="selector" type="select" label="Genetic material recovered directly from environmental or clinical samples" help="Enable this option if you are interested in metagenomic data. Default: disabled"> + <param name="selector" type="select" label="Metagenomic data" help="Enable this option if you are interested in genetic material recovered directly from environmental or clinical samples. Default: disabled"> <option value="false" selected="true">Disabled</option> <option value="true">Enabled</option> </param> @@ -299,7 +299,6 @@ <!-- Test 02: Specific search options--> <test expect_num_outputs="2"> <param name="database" value="sra"/> - <param name="query" value="colorectal cancer"/> <conditional name="conditional_platform"> <param name="platform" value="illumina"/> <param name="instrument" value="NovaSeq 6000"/> @@ -332,7 +331,7 @@ <conditional name="conditional_mode"> <param name="selector" value="false"/> <param name="source" value="genomic"/> - <param name="organism" value="homo sapiens"/> + <param name="organism" value="Homo sapiens"/> </conditional> <output name="metadata_file" file="test_03.tabular" ftype="tsv"/> <output name="stats" file="test_03.txt" ftype="txt"/>
--- a/test-data/test_01.tabular Fri Nov 11 07:35:39 2022 +0000 +++ b/test-data/test_01.tabular Wed Nov 30 13:19:36 2022 +0000 @@ -1,101 +1,101 @@ study_accession experiment_accession experiment_title sample_taxon_id sample_scientific_name experiment_library_strategy experiment_library_source experiment_library_selection sample_accession sample_alias experiment_instrument_model pool_member_spots run_1_size run_1_accession run_1_total_spots run_1_total_bases -SRP406950 SRX18219478 J17-72p-3 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716255 J17-72p-3 Illumina NovaSeq 6000 21865805 2011682291 SRR22242707 21865805 6559741500 -SRP406950 SRX18219477 J17-72p-2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716254 J17-72p-2 Illumina NovaSeq 6000 19102337 1762557173 SRR22242708 19102337 5730701100 -SRP406950 SRX18219476 J17-72p-1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716253 J17-72p-1 Illumina NovaSeq 6000 20134870 1863354901 SRR22242709 20134870 6040461000 -SRP406950 SRX18219475 hep3b-72p-3 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716252 hep3b-72p-3 Illumina NovaSeq 6000 20032029 1887623947 SRR22242710 20032029 6009608700 -SRP406950 SRX18219474 hep3b-72p-2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716251 hep3b-72p-2 Illumina NovaSeq 6000 18954951 1743547228 SRR22242711 18954951 5686485300 -SRP406950 SRX18219473 hep3b-72p-1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716250 hep3b-72p-1 Illumina NovaSeq 6000 19553325 1800573666 SRR22242712 19553325 5865997500 -SRP406950 SRX18219472 hep3b-vec-3 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716249 hep3b-vec-3 Illumina NovaSeq 6000 19039145 1749393677 SRR22242713 19039145 5711743500 -SRP406950 SRX18219471 hep3b-vec-2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716248 hep3b-vec-2 Illumina NovaSeq 6000 19819809 1821641085 SRR22242714 19819809 5945942700 -SRP406950 SRX18219470 hep3b-vec-1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15716247 hep3b-vec-1 Illumina NovaSeq 6000 29311538 2787642513 SRR22242715 29311538 8793461400 -SRP406776 SRX18202826 GSM6720851: HepG2 cells, f-RCP+660 nm [B 3]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699868 GSM6720851 Illumina HiSeq 2500 22452313 2016448266 SRR22225215 22452313 6347800899 -SRP406776 SRX18202825 GSM6720850: HepG2 cells, f-RCP+660 nm [B 2]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699867 GSM6720850 Illumina HiSeq 2500 23301966 2101800167 SRR22225216 23301966 6618465928 -SRP406776 SRX18202824 GSM6720849: HepG2 cells, f-RCP+660 nm [B 1]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699866 GSM6720849 Illumina HiSeq 2500 23150509 2101691173 SRR22225217 23150509 6613318643 -SRP406776 SRX18202823 GSM6720848: HepG2 cells, RCP+660 nm [A 3]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699865 GSM6720848 Illumina HiSeq 2500 23012674 2084577587 SRR22225218 23012674 6543146264 -SRP406776 SRX18202822 GSM6720847: HepG2 cells, RCP+660 nm [A 2]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699864 GSM6720847 Illumina HiSeq 2500 21058391 1876834984 SRR22225219 21058391 5941999670 -SRP406776 SRX18202821 GSM6720846: HepG2 cells, RCP+660 nm [A 1]; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15699863 GSM6720846 Illumina HiSeq 2500 23091493 2082180756 SRR22225220 23091493 6587272891 -SRP406643 SRX18193585 GSM6718890: PC3_NC3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691692 GSM6718890 Illumina NovaSeq 6000 23459231 2048517451 SRR22215651 23459231 6634962611 -SRP406643 SRX18193584 GSM6718889: PC3_NC2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691691 GSM6718889 Illumina NovaSeq 6000 23447723 2043917226 SRR22215652 23447723 6632304770 -SRP406643 SRX18193583 GSM6718888: PC3_NC1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691690 GSM6718888 Illumina NovaSeq 6000 24333381 2134599968 SRR22215653 24333381 6885056225 -SRP406643 SRX18193582 GSM6718887: DU145_R3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691689 GSM6718887 Illumina NovaSeq 6000 24414110 2129635530 SRR22215654 24414110 6902065985 -SRP406643 SRX18193581 GSM6718886: DU145_R2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691688 GSM6718886 Illumina NovaSeq 6000 24206817 2139012987 SRR22215655 24206817 6854276087 -SRP406643 SRX18193580 GSM6718885: DU145_R1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691687 GSM6718885 Illumina NovaSeq 6000 24759866 2201510118 SRR22215656 24759866 7015759429 -SRP406643 SRX18193579 GSM6718884: DU145_NC3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691686 GSM6718884 Illumina NovaSeq 6000 23413490 2052300610 SRR22215657 23413490 6622496209 -SRP406643 SRX18193578 GSM6718883: DU145_NC2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691685 GSM6718883 Illumina NovaSeq 6000 23098910 2017150275 SRR22215658 23098910 6533106894 -SRP406643 SRX18193577 GSM6718893: PC3_R3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691684 GSM6718893 Illumina NovaSeq 6000 25275572 2231454551 SRR22215659 25275572 7158981428 -SRP406643 SRX18193576 GSM6718892: PC3_R2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691683 GSM6718892 Illumina NovaSeq 6000 23324148 2038273567 SRR22215660 23324148 6600455016 -SRP406643 SRX18193575 GSM6718891: PC3_R1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691682 GSM6718891 Illumina NovaSeq 6000 24343398 2154463398 SRR22215661 24343398 6897255997 -SRP406643 SRX18193574 GSM6718882: DU145_NC1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15691681 GSM6718882 Illumina NovaSeq 6000 23499672 2054821041 SRR22215662 23499672 6647491555 -SRP405996 SRX18142633 RNA-Seq of GPD1-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644089 GPD1-3 Illumina NovaSeq 6000 20925798 1914833857 SRR22163747 20925798 6207163796 -SRP405996 SRX18142632 RNA-Seq of GPD1-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644088 GPD1-2 Illumina NovaSeq 6000 23860665 2188219511 SRR22163748 23860665 7100176962 -SRP405996 SRX18142631 RNA-Seq of GPD1-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644087 GPD1-1 Illumina NovaSeq 6000 21427274 1956307538 SRR22163749 21427274 6382445460 -SRP405996 SRX18142630 RNA-Seq of GPD1-mut-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644086 K120A-3 Illumina NovaSeq 6000 23974893 2199388419 SRR22163750 23974893 7142011070 -SRP405996 SRX18142629 RNA-Seq of GPD1-mut-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644085 K120A-2 Illumina NovaSeq 6000 34212538 3102446211 SRR22163751 34212538 10168388248 -SRP405996 SRX18142628 RNA-Seq of GPD1-mut-OE 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644084 K120A-1 Illumina NovaSeq 6000 22781183 2056285283 SRR22163752 22781183 6764866900 -SRP405996 SRX18142627 RNA-Seq of 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644083 Con-3 Illumina NovaSeq 6000 23325722 2097939888 SRR22163753 23325722 6941714338 -SRP405996 SRX18142626 RNA-Seq of 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644082 Con-2 Illumina NovaSeq 6000 22103936 2020280158 SRR22163754 22103936 6574686904 -SRP405996 SRX18142625 RNA-Seq of 5637 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR SRS15644081 Con-1 Illumina NovaSeq 6000 22883975 2079148433 SRR22163755 22883975 6800103580 -SRP405518 SRX18093653 GSM6700937: RC77 T/E; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15618824 GSM6700937 Illumina HiSeq 2500 113241775 14027009073 SRR22113916 113241775 34199016050 -SRP405518 SRX18093652 GSM6700936: MDA PCa 2b; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15596651 GSM6700936 Illumina HiSeq 2500 92541233 11725686132 SRR22113917 92541233 27503968067 -ERP131546 ERX6235633 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286434 SAMEA9563694 Illumina HiSeq 2500 ERR6609153 -ERP131546 ERX6235632 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286433 SAMEA9563693 Illumina HiSeq 2500 ERR6609152 -ERP131546 ERX6235631 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286432 SAMEA9563692 Illumina HiSeq 2500 ERR6609151 -ERP131546 ERX6235630 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286431 SAMEA9563691 Illumina HiSeq 2500 ERR6609150 -ERP131546 ERX6235629 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286430 SAMEA9563690 Illumina HiSeq 2500 ERR6609149 -ERP131546 ERX6235628 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286429 SAMEA9563689 Illumina HiSeq 2500 ERR6609148 -ERP131546 ERX6235627 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286428 SAMEA9563688 Illumina HiSeq 2500 ERR6609147 -ERP131546 ERX6235626 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286427 SAMEA9563687 Illumina HiSeq 2500 ERR6609146 -ERP131546 ERX6235625 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286426 SAMEA9563686 Illumina HiSeq 2500 ERR6609145 -ERP131546 ERX6235624 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286425 SAMEA9563685 Illumina HiSeq 2500 ERR6609144 -ERP131546 ERX6235623 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286424 SAMEA9563684 Illumina HiSeq 2500 ERR6609143 -ERP131546 ERX6235622 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286423 SAMEA9563683 Illumina HiSeq 2500 ERR6609142 -ERP131546 ERX6235621 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286422 SAMEA9563682 Illumina HiSeq 2500 ERR6609141 -ERP131546 ERX6235620 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286421 SAMEA9563681 Illumina HiSeq 2500 ERR6609140 -ERP131546 ERX6235619 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286420 SAMEA9563680 Illumina HiSeq 2500 ERR6609139 -ERP131546 ERX6235618 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286419 SAMEA9563679 Illumina HiSeq 2500 ERR6609138 -ERP131546 ERX6235617 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286418 SAMEA9563678 Illumina HiSeq 2500 ERR6609137 -ERP131546 ERX6235616 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286417 SAMEA9563677 Illumina HiSeq 2500 ERR6609136 -ERP131546 ERX6235615 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286416 SAMEA9563676 Illumina HiSeq 2500 ERR6609135 -ERP131546 ERX6235614 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286415 SAMEA9563675 Illumina HiSeq 2500 ERR6609134 -ERP131546 ERX6235613 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286414 SAMEA9563674 Illumina HiSeq 2500 ERR6609133 -ERP131546 ERX6235612 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286413 SAMEA9563673 Illumina HiSeq 2500 ERR6609132 -ERP131546 ERX6235611 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286412 SAMEA9563672 Illumina HiSeq 2500 ERR6609131 -ERP131546 ERX6235610 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286411 SAMEA9563671 Illumina HiSeq 2500 ERR6609130 -ERP131546 ERX6235609 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286410 SAMEA9563670 Illumina HiSeq 2500 ERR6609129 -ERP131546 ERX6235608 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286409 SAMEA9563669 Illumina HiSeq 2500 ERR6609128 -ERP131546 ERX6235607 Illumina HiSeq 2500 sequencing 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC PCR ERS7286408 SAMEA9563667 Illumina HiSeq 2500 ERR6609127 -SRP405359 SRX18082254 GSM6697086: Patient61; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586208 GSM6697086 Illumina HiSeq 4000 31947164 4047815431 SRR22102209 31947164 9648043528 -SRP405359 SRX18082253 GSM6697085: Patient60; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586207 GSM6697085 Illumina HiSeq 4000 38555712 4842551626 SRR22102210 38555712 11643825024 -SRP405359 SRX18082252 GSM6697084: Patient59; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586206 GSM6697084 Illumina HiSeq 4000 42085416 5272334669 SRR22102211 42085416 12709795632 -SRP405359 SRX18082251 GSM6697083: Patient58; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586205 GSM6697083 Illumina HiSeq 4000 34410281 4332064189 SRR22102212 34410281 10391904862 -SRP405359 SRX18082250 GSM6697082: Patient57; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586204 GSM6697082 Illumina HiSeq 4000 44202589 5772115042 SRR22102213 44202589 13349181878 -SRP405359 SRX18082249 GSM6697081: Patient56; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586203 GSM6697081 Illumina HiSeq 4000 56761858 7188373175 SRR22102214 56761858 17142081116 -SRP405359 SRX18082248 GSM6697080: Patient55; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586202 GSM6697080 Illumina HiSeq 4000 43007557 5497362360 SRR22102215 43007557 12988282214 -SRP405359 SRX18082247 GSM6697079: Patient54; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586201 GSM6697079 Illumina HiSeq 4000 28729299 3849047462 SRR22102216 28729299 8676248298 -SRP405359 SRX18082246 GSM6697078: Patient53; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586200 GSM6697078 Illumina HiSeq 4000 27758639 3690700827 SRR22102217 27758639 8383108978 -SRP405359 SRX18082245 GSM6697077: Patient52; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586199 GSM6697077 Illumina HiSeq 4000 31064684 3939177209 SRR22102218 31064684 9381534568 -SRP405359 SRX18082244 GSM6697076: Patient51; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586198 GSM6697076 Illumina HiSeq 4000 31505467 3987918246 SRR22102219 31505467 9514651034 -SRP405359 SRX18082243 GSM6697075: Patient50; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586197 GSM6697075 Illumina HiSeq 4000 34426584 4334042951 SRR22102220 34426584 10396828368 -SRP405359 SRX18082242 GSM6697074: Patient49; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586196 GSM6697074 Illumina HiSeq 4000 26673393 3340287227 SRR22102221 26673393 8055364686 -SRP405359 SRX18082241 GSM6697073: Patient48; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586195 GSM6697073 Illumina HiSeq 4000 30867031 3993026607 SRR22102222 30867031 9321843362 -SRP405359 SRX18082240 GSM6697072: Patient47; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586194 GSM6697072 Illumina HiSeq 4000 35322031 4433071306 SRR22102223 35322031 10667253362 -SRP405359 SRX18082239 GSM6697071: Patient46; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586193 GSM6697071 Illumina HiSeq 4000 33009330 4158400585 SRR22102224 33009330 9968817660 -SRP405359 SRX18082238 GSM6697070: Patient45; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586192 GSM6697070 Illumina HiSeq 4000 28983658 3897067912 SRR22102225 28983658 8753064716 -SRP405359 SRX18082237 GSM6697069: Patient44; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586191 GSM6697069 Illumina HiSeq 4000 40190178 5163897011 SRR22102226 40190178 12137433756 -SRP405359 SRX18082236 GSM6697068: Patient43; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586190 GSM6697068 Illumina HiSeq 4000 35262046 4493047289 SRR22102227 35262046 10649137892 -SRP405359 SRX18082235 GSM6697067: Patient42; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586189 GSM6697067 Illumina HiSeq 4000 40585471 5143646051 SRR22102228 40585471 12256812242 -SRP405359 SRX18082234 GSM6697066: Patient41; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586188 GSM6697066 Illumina HiSeq 4000 33942412 4490395870 SRR22102229 33942412 10250608424 -SRP405359 SRX18082233 GSM6697065: Patient40; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586187 GSM6697065 Illumina HiSeq 4000 32781382 4058331783 SRR22102230 32781382 9899977364 -SRP405359 SRX18082232 GSM6697064: Patient39; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586186 GSM6697064 Illumina HiSeq 4000 40942797 5093355659 SRR22102231 40942797 12364724694 -SRP405359 SRX18082231 GSM6697063: Patient38; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586185 GSM6697063 Illumina HiSeq 4000 38192324 4768475078 SRR22102232 38192324 11534081848 -SRP405359 SRX18082230 GSM6697062: Patient37; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586184 GSM6697062 Illumina HiSeq 4000 36365508 4568980294 SRR22102233 36365508 10982383416 -SRP405359 SRX18082229 GSM6697061: Patient36; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586183 GSM6697061 Illumina HiSeq 4000 30158877 3917819621 SRR22102234 30158877 9107980854 -SRP405359 SRX18082228 GSM6697060: Patient35; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586182 GSM6697060 Illumina HiSeq 4000 34297360 4265438881 SRR22102235 34297360 10357802720 -SRP405359 SRX18082227 GSM6697059: Patient34; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586181 GSM6697059 Illumina HiSeq 4000 37925806 4699958650 SRR22102236 37925806 11453593412 -SRP405359 SRX18082226 GSM6697058: Patient33; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586180 GSM6697058 Illumina HiSeq 4000 33308463 4383553950 SRR22102237 33308463 10059155826 -SRP405359 SRX18082225 GSM6697057: Patient32; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586179 GSM6697057 Illumina HiSeq 4000 34658814 4360066537 SRR22102238 34658814 10466961828 -SRP405359 SRX18082224 GSM6697056: Patient31; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586178 GSM6697056 Illumina HiSeq 4000 16274738 2021803534 SRR22102239 16274738 4914970876 -SRP405359 SRX18082223 GSM6697055: Patient30; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586177 GSM6697055 Illumina HiSeq 4000 39401509 4920729499 SRR22102240 39401509 11899255718 -SRP405359 SRX18082222 GSM6697054: Patient29; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586176 GSM6697054 Illumina HiSeq 4000 39659987 5262172617 SRR22102241 39659987 11977316074 -SRP405359 SRX18082221 GSM6697053: Patient28; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586175 GSM6697053 Illumina HiSeq 4000 32460742 4035027222 SRR22102242 32460742 9803144084 -SRP405359 SRX18082220 GSM6697052: Patient27; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15586174 GSM6697052 Illumina HiSeq 4000 39137332 4888152280 SRR22102243 39137332 11819474264 +SRP410072 SRX18392441 RNAseq of Homo Sapiens: gastric cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876555 LST1 NextSeq 550 38695273 345268738 SRR22422946 38695273 1916686097 +SRP410072 SRX18392440 RNAseq of Homo Sapiens: gastric cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876554 LET1 NextSeq 550 38939248 395787865 SRR22422947 38939248 1929190959 +SRP410072 SRX18392433 RNAseq of Homo Sapiens: colon cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876547 CC102 NextSeq 550 48692092 725233955 SRR22422954 48692092 3672865478 +SRP410072 SRX18392432 RNAseq of Homo Sapiens: colon cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876546 CC86 NextSeq 550 35645786 487240987 SRR22422955 35645786 1766620685 +SRP410072 SRX18392431 RNAseq of Homo Sapiens: urothelial cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876545 BLC1 NextSeq 550 21446733 183106366 SRR22422956 21446733 1059212738 +SRP410072 SRX18392430 RNAseq of Homo Sapiens: colon cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876544 CC89 NextSeq 550 30244954 351063682 SRR22422957 30244954 1497301752 +SRP410072 SRX18392429 RNAseq of Homo Sapiens: colon cancer 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15876543 CC76 NextSeq 550 30955620 355418256 SRR22422958 30955620 1532890915 +SRP409548 SRX18369025 GSM6755011: BT474.F.hand.72hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855457 GSM6755011 Illumina NovaSeq 6000 54657341 2488903938 SRR22399318 27449042 7451954013 +SRP409548 SRX18369024 GSM6755010: BT474.E.print.72hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855456 GSM6755010 Illumina NovaSeq 6000 40290093 1817229960 SRR22399320 20231478 5498476460 +SRP409548 SRX18369023 GSM6755009: BT474.D.hand.24hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855455 GSM6755009 Illumina NovaSeq 6000 37645842 1686613884 SRR22399322 18895035 5064959758 +SRP409548 SRX18369022 GSM6755008: BT474.C.print.24hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855454 GSM6755008 Illumina NovaSeq 6000 42730064 1951990096 SRR22399324 21430063 5838220284 +SRP409548 SRX18369021 GSM6755007: BT474.B.hand.1hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855453 GSM6755007 Illumina NovaSeq 6000 64955526 2982091712 SRR22399326 32607072 8881051651 +SRP409548 SRX18369020 GSM6755006: BT474.A.print.1hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855452 GSM6755006 Illumina NovaSeq 6000 30138739 1292900468 SRR22399328 15153574 3950782486 +SRP409548 SRX18369019 GSM6755005: MCF7.F.hand.72hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855451 GSM6755005 Illumina NovaSeq 6000 58927255 2623809213 SRR22399330 29594180 7893390358 +SRP409548 SRX18369018 GSM6755004: MCF7.E.print.72hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855450 GSM6755004 Illumina NovaSeq 6000 48925847 2232507875 SRR22399332 24576417 6746264388 +SRP409548 SRX18369017 GSM6755003: MCF7.D.hand.24hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855449 GSM6755003 Illumina NovaSeq 6000 38694756 1742096832 SRR22399334 19397787 5207165461 +SRP409548 SRX18369016 GSM6755002: MCF7.C.print.24hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855448 GSM6755002 Illumina NovaSeq 6000 40416603 1814017558 SRR22399336 20295472 5427103600 +SRP409548 SRX18369015 GSM6755001: MCF7.B.hand.1.hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855447 GSM6755001 Illumina NovaSeq 6000 29613366 1342195585 SRR22399338 14897585 4009554602 +SRP409548 SRX18369014 GSM6755000: MCF7.A.print.1hr; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15855446 GSM6755000 Illumina NovaSeq 6000 40661730 1837853357 SRR22399340 20413083 5559364008 +SRP408991 SRX18330342 GSM6745556: MDA-MB-231 cells, OE-YWHAB; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15819529 GSM6745556 Illumina NovaSeq 6000 23077362 2244316187 SRR22359478 23077362 6923208600 +SRP408991 SRX18330341 GSM6745555: MDA-MB-231 cells, Vector Control; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15819528 GSM6745555 Illumina NovaSeq 6000 20900395 2047201792 SRR22359479 20900395 6270118500 +SRP408888 SRX18326041 GSM6744353: MDAMB231 cells, siRNF31-3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815406 GSM6744353 Illumina HiSeq 2500 23829209 1004163155 SRR22355074 23829209 1191460450 +SRP408888 SRX18326040 GSM6744352: MDAMB231 cells, siRNF31-2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815405 GSM6744352 Illumina HiSeq 2500 23846123 995457257 SRR22355075 23846123 1192306150 +SRP408888 SRX18326039 GSM6744351: MDAMB231 cells, siRNF31-1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815403 GSM6744351 Illumina HiSeq 2500 23847447 996527320 SRR22355076 23847447 1192372350 +SRP408888 SRX18326038 GSM6744350: MDAMB231 cells, siControl-3; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815402 GSM6744350 Illumina HiSeq 2500 23836238 996486446 SRR22355077 23836238 1191811900 +SRP408888 SRX18326037 GSM6744349: MDAMB231 cells, siControl-2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815404 GSM6744349 Illumina HiSeq 2500 23852614 998645972 SRR22355078 23852614 1192630700 +SRP408888 SRX18326036 GSM6744348: MDAMB231 cells, siControl-1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15815401 GSM6744348 Illumina HiSeq 2500 23827102 995610104 SRR22355079 23827102 1191355100 +SRP408833 SRX18323238 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813268 P39 Illumina NovaSeq 6000 25341979 2513178560 SRR22352265 25341979 7602593700 +SRP408833 SRX18323237 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813267 P30 Illumina NovaSeq 6000 21776549 2141796872 SRR22352266 21776549 6532964700 +SRP408833 SRX18323236 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813266 P24 Illumina NovaSeq 6000 21643539 2157913695 SRR22352267 21643539 6493061700 +SRP408833 SRX18323235 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813265 P7 Illumina NovaSeq 6000 20460130 2045597710 SRR22352268 20460130 6138039000 +SRP408833 SRX18323234 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813264 P9 Illumina NovaSeq 6000 21406005 2055388382 SRR22352269 21406005 6421801500 +SRP408833 SRX18323233 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813263 P5 Illumina NovaSeq 6000 24128081 2356284512 SRR22352270 24128081 7238424300 +SRP408833 SRX18323232 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813262 P4 Illumina NovaSeq 6000 22323001 2387187610 SRR22352271 22323001 6696900300 +SRP408833 SRX18323231 RNA-Seq of Homo sapiens CRC organoid 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15813261 P1 Illumina NovaSeq 6000 23801340 2330724568 SRR22352272 23801340 7140402000 +ERP021251 ERX1877814 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532455 SAMEA70755418 Illumina HiSeq 2000 14439188 1984175679 ERR1815302 14439188 2887837600 +ERP021251 ERX1877815 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532456 SAMEA70756168 Illumina HiSeq 2000 12679859 1748831662 ERR1815303 12679859 2535971800 +ERP021251 ERX1877813 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532454 SAMEA70754668 Illumina HiSeq 2000 10272804 1406223913 ERR1815301 10272804 2054560800 +ERP021251 ERX1877812 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532453 SAMEA70753918 Illumina HiSeq 2000 11611497 1588179875 ERR1815300 11611497 2322299400 +ERP021251 ERX1877811 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532452 SAMEA70753168 Illumina HiSeq 2000 14052584 1919296954 ERR1815299 14052584 2810516800 +ERP021251 ERX1877810 Illumina HiSeq 2000 paired end sequencing; Muscle to cancer crosstalk: Myokines released from contracting myotubes of postmenopausal women reduce breast cancer cell growth 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC Inverse rRNA ERS1532451 SAMEA70752418 Illumina HiSeq 2000 14039766 1925115500 ERR1815298 14039766 2807953200 +SRP408494 SRX18299494 GSM6738160: 6-2PA1_NP_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790461 GSM6738160 Illumina NovaSeq 6000 44587439 2895345355 SRR22326455 44587439 9006662678 +SRP408494 SRX18299493 GSM6738159: 6PA1_NP_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790460 GSM6738159 Illumina NovaSeq 6000 36436891 2331543805 SRR22326456 36436891 7360251982 +SRP408494 SRX18299492 GSM6738158: 5-2PA1_TAP_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790459 GSM6738158 Illumina NovaSeq 6000 41868418 2684881937 SRR22326457 41868418 8457420436 +SRP408494 SRX18299491 GSM6738157: 5PA1_TAP_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790458 GSM6738157 Illumina NovaSeq 6000 44466023 2836877395 SRR22326458 44466023 8982136646 +SRP408494 SRX18299490 GSM6738156: 4-2PA1_Mock_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790457 GSM6738156 Illumina NovaSeq 6000 44730889 2864467864 SRR22326459 44730889 9035639578 +SRP408494 SRX18299489 GSM6738155: 4PA1_Mock_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790456 GSM6738155 Illumina NovaSeq 6000 38409511 2455052059 SRR22326460 38409511 7758721222 +SRP408494 SRX18299488 GSM6738154: 3-2AS1_NP_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790455 GSM6738154 Illumina NovaSeq 6000 40198418 2581416299 SRR22326461 40198418 8120080436 +SRP408494 SRX18299487 GSM6738153: 3AS1_NP_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790454 GSM6738153 Illumina NovaSeq 6000 41345661 2647677421 SRR22326462 41345661 8351823522 +SRP408494 SRX18299486 GSM6738152: 2-2AS1_TAP_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790453 GSM6738152 Illumina NovaSeq 6000 39858247 2551705751 SRR22326463 39858247 8051365894 +SRP408494 SRX18299485 GSM6738151: 2AS1_TAP_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790452 GSM6738151 Illumina NovaSeq 6000 39192401 2514153484 SRR22326464 39192401 7916865002 +SRP408494 SRX18299484 GSM6738150: 1-2AS1_Mock_n2; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790451 GSM6738150 Illumina NovaSeq 6000 41100992 2610855889 SRR22326465 41100992 8302400384 +SRP408494 SRX18299483 GSM6738149: 1AS1_Mock_n1; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15790450 GSM6738149 Illumina NovaSeq 6000 34455185 2210877656 SRR22326466 34455185 6959947370 +SRP408485 SRX18298790 GSM6738033: Hashtagged_scVDJ_sample_2; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15789759 GSM6738033 Illumina NovaSeq 6000 21390946 3232595879 SRR22325731 21390946 9861226106 +SRP408485 SRX18298789 GSM6738032: Hashtagged_scVDJ_sample_1; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15789758 GSM6738032 Illumina NovaSeq 6000 21075444 3180834816 SRR22325732 21075444 9715779684 +SRP408403 SRX18292849 GSM6736158: RC_j; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784263 GSM6736158 Illumina MiSeq 14681222 4082806845 SRR22319585 14681222 7369973444 +SRP408403 SRX18292848 GSM6736157: RC_i; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784262 GSM6736157 Illumina MiSeq 13774413 3977557176 SRR22319586 13774413 6914755326 +SRP408403 SRX18292847 GSM6736156: RC_h; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784261 GSM6736156 Illumina MiSeq 14043696 4110521736 SRR22319587 14043696 7049935392 +SRP408403 SRX18292846 GSM6736155: RC_g; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784260 GSM6736155 Illumina MiSeq 12192519 3316867161 SRR22319588 12192519 6120644538 +SRP408403 SRX18292845 GSM6736154: RC_f; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784259 GSM6736154 Illumina MiSeq 14455270 4035467899 SRR22319589 14455270 7256545540 +SRP408403 SRX18292844 GSM6736153: RC_e; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784258 GSM6736153 Illumina MiSeq 12983855 3293183917 SRR22319590 12983855 6517895210 +SRP408403 SRX18292843 GSM6736152: RC_d; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784257 GSM6736152 Illumina MiSeq 11509633 3083082225 SRR22319591 11509633 5777835766 +SRP408403 SRX18292842 GSM6736151: RC_c; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784256 GSM6736151 Illumina MiSeq 12885539 3512469452 SRR22319592 12885539 6468540578 +SRP408403 SRX18292841 GSM6736150: RC_b; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784255 GSM6736150 Illumina MiSeq 11139511 2765032112 SRR22319593 11139511 5592034522 +SRP408403 SRX18292840 GSM6736149: RC_a; Homo sapiens; OTHER 9606 Homo sapiens OTHER TRANSCRIPTOMIC other SRS15784254 GSM6736149 Illumina MiSeq 12321401 3260439508 SRR22319594 12321401 6185343302 +SRP408275 SRX18287695 GSM6735086: Sample_Anaerobic_CRS_006_A09; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779451 GSM6735086 Illumina NovaSeq 6000 29085510 2626384710 SRR22314242 29085510 8783824020 +SRP408275 SRX18287694 GSM6735085: Sample_Anaerobic_CRS_006_A08; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779450 GSM6735085 Illumina NovaSeq 6000 29039377 2615837661 SRR22314243 29039377 8769891854 +SRP408275 SRX18287693 GSM6735084: Sample_Anaerobic_CRS_005_A09; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779449 GSM6735084 Illumina NovaSeq 6000 33863103 3052764520 SRR22314244 33863103 10226657106 +SRP408275 SRX18287692 GSM6735083: Sample_Anaerobic_CRS_005_A08; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779448 GSM6735083 Illumina NovaSeq 6000 28545795 2583781182 SRR22314245 28545795 8620830090 +SRP408275 SRX18287691 GSM6735082: Sample_Anaerobic_CRS_005_A07; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779447 GSM6735082 Illumina NovaSeq 6000 27744898 2498417257 SRR22314246 27744898 8378959196 +SRP408275 SRX18287690 GSM6735081: Sample_Anaerobic_006_A07; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779446 GSM6735081 Illumina NovaSeq 6000 25736047 2332319317 SRR22314247 25736047 7772286194 +SRP408275 SRX18287689 GSM6735080: Sample_Anaerobic_006_A06; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779445 GSM6735080 Illumina NovaSeq 6000 28977475 2650126292 SRR22314248 28977475 8751197450 +SRP408275 SRX18287688 GSM6735079: Sample_Anaerobic_006_A05; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779444 GSM6735079 Illumina NovaSeq 6000 31369992 2825445760 SRR22314249 31369992 9473737584 +SRP408275 SRX18287687 GSM6735078: Sample_Anaerobic_006_A04; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779443 GSM6735078 Illumina NovaSeq 6000 28725226 2604615760 SRR22314250 28725226 8675018252 +SRP408275 SRX18287686 GSM6735077: Sample_Anaerobic_006_A03; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779442 GSM6735077 Illumina NovaSeq 6000 27883463 2530016685 SRR22314251 27883463 8420805826 +SRP408275 SRX18287685 GSM6735076: Sample_Anaerobic; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779441 GSM6735076 Illumina NovaSeq 6000 26941491 2448949773 SRR22314252 26941491 8136330282 +SRP408275 SRX18287684 GSM6735075: Sample_Aerobic_006_A02; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779440 GSM6735075 Illumina NovaSeq 6000 27791914 2504363853 SRR22314253 27791914 8393158028 +SRP408275 SRX18287683 GSM6735074: Sample_Aerobic_006_A01; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779439 GSM6735074 Illumina NovaSeq 6000 28427058 2558553956 SRR22314254 28427058 8584971516 +SRP408275 SRX18287682 GSM6735073: Sample_Aerobic_005_A03; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779438 GSM6735073 Illumina NovaSeq 6000 25802689 2341335991 SRR22314255 25802689 7792412078 +SRP408275 SRX18287681 GSM6735072: Sample_Aerobic_005_A02; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779437 GSM6735072 Illumina NovaSeq 6000 31207884 2843313856 SRR22314256 31207884 9424780968 +SRP408275 SRX18287680 GSM6735071: Sample_Aerobic_005_A01; Homo sapiens; RNA-Seq 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC cDNA SRS15779436 GSM6735071 Illumina NovaSeq 6000 24557588 2225432236 SRR22314257 24557588 7416391576 +SRP296872 SRX18280591 HupT4_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772928 HupT4_2 Illumina HiSeq 4000 5757600 287084861 SRR22306978 5757600 568280566 +SRP296872 SRX18280590 HupT4_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772927 HupT4_1 Illumina HiSeq 4000 5300331 265525417 SRR22306979 5300331 524458844 +SRP296872 SRX18280589 Hs766T_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772926 Hs766T_2 Illumina HiSeq 4000 3377702 170354914 SRR22306980 3377702 335016432 +SRP296872 SRX18280588 Hs766T_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772925 Hs766T_1 Illumina HiSeq 4000 5519712 279392682 SRR22306981 5519712 547325469 +SRP296872 SRX18280587 CAPAN2_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772924 CAPAN2_2 Illumina HiSeq 4000 5381543 269083199 SRR22306982 5381543 533076966 +SRP296872 SRX18280586 CAPAN2_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772923 CAPAN2_1 Illumina HiSeq 4000 4201648 209428495 SRR22306983 4201648 416162878 +SRP296872 SRX18280585 MIAPaCa2_HNRNPF_SEdel_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772922 MIAPaCa2_HNRNPF_SEdel_2 Illumina HiSeq 4000 28231792 706274390 SRR22306984 28231792 2117384400 +SRP296872 SRX18280584 MIAPaCa2_HNRNPF_SEdel_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772921 MIAPaCa2_HNRNPF_SEdel_1 Illumina HiSeq 4000 29933403 748854658 SRR22306985 29933403 2245005225 +SRP296872 SRX18280583 MIAPaca2_Parental_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772920 MIAPaca2_Parental_2 Illumina HiSeq 4000 31077260 767261609 SRR22306986 31077260 2330794500 +SRP296872 SRX18280582 MIAPaca2_Parental_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772919 MIAPaca2_Parental_1 Illumina HiSeq 4000 30578371 759273365 SRR22306987 30578371 2293377825 +SRP296872 SRX18280581 MIAPaCa2_HNRNPF_KO5_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772918 MIAPaCa2_HNRNPF_KO5_2 Illumina HiSeq 4000 17526074 550031747 SRR22306988 17526074 1733705702 +SRP296872 SRX18280580 MIAPaCa2_HNRNPF_KO5_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772917 MIAPaCa2_HNRNPF_KO5_1 Illumina HiSeq 4000 14512269 455410832 SRR22306989 14512269 1445978757 +SRP296872 SRX18280579 MIAPaca2_WT_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772916 MIAPaca2_WT_2 Illumina HiSeq 4000 19251676 601142916 SRR22306990 19251676 1918361956 +SRP296872 SRX18280578 MIAPaca2_WT_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772915 MIAPaca2_WT_1 Illumina HiSeq 4000 18294850 572389714 SRR22306991 18294850 1816322930 +SRP296872 SRX18280577 YAPC_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772914 YAPC_2 Illumina HiSeq 4000 5832937 291586955 SRR22306992 5832937 578923280 +SRP296872 SRX18280576 YAPC_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772913 YAPC_1 Illumina HiSeq 4000 9511112 475803185 SRR22306993 9511112 943419455 +SRP296872 SRX18280575 CAPAN1_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772912 CAPAN1_2 Illumina HiSeq 4000 7161336 360000653 SRR22306994 7161336 709587782 +SRP296872 SRX18280574 Su8686_2 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772910 Su8686_2 Illumina HiSeq 4000 5237585 263155000 SRR22306995 5237585 517956746 +SRP296872 SRX18280573 Su8686_1 9606 Homo sapiens RNA-Seq TRANSCRIPTOMIC RANDOM SRS15772911 Su8686_1 Illumina HiSeq 4000 5686219 284393282 SRR22306996 5686219 563282085
--- a/test-data/test_01_stats.txt Fri Nov 11 07:35:39 2022 +0000 +++ b/test-data/test_01_stats.txt Wed Nov 30 13:19:36 2022 +0000 @@ -1,13 +1,13 @@ Statistics for the search query: ================================= - Number of unique studies: 7 + Number of unique studies: 11 Number of unique experiments: 100 - Number of unique runs: 100 + Number of unique runs: 112 Number of unique samples: 100 - Mean base count of samples: 9247829385.671 - Median base count of samples: 8383108978.000 - Sample base count standard deviation: 4445810003.504 + Mean base count of samples: 5256601253.884 + Median base count of samples: 5979432411.000 + Sample base count standard deviation: 2991739423.009 Date range: 2022-11: 100 @@ -18,24 +18,30 @@ ILLUMINA: 100 Library strategy: - RNA-Seq: 100 + OTHER: 12 + RNA-Seq: 88 Library source: TRANSCRIPTOMIC: 100 Library selection: - PCR: 36 - cDNA: 64 + Inverse rRNA: 6 + RANDOM: 19 + cDNA: 63 + other: 12 Library layout: - PAIRED: 73 - SINGLE: 27 + PAIRED: 68 + SINGLE: 32 Sequencing instrument: - 35 Illumina HiSeq 2500 - 35 Illumina HiSeq 4000 - 30 Illumina NovaSeq 6000 + 6 Illumina HiSeq 2000 + 6 Illumina HiSeq 2500 + 19 Illumina HiSeq 4000 + 10 Illumina MiSeq + 52 Illumina NovaSeq 6000 + 7 NextSeq 550 Query keyworkds: cancer
--- a/test-data/test_02_stats.txt Fri Nov 11 07:35:39 2022 +0000 +++ b/test-data/test_02_stats.txt Wed Nov 30 13:19:36 2022 +0000 @@ -33,5 +33,5 @@ Sequencing instrument: 1 Illumina NovaSeq 6000 - Query keyworkds: colorectal cancer + Query keyworkds:
--- a/test-data/test_06.tabular Fri Nov 11 07:35:39 2022 +0000 +++ b/test-data/test_06.tabular Wed Nov 30 13:19:36 2022 +0000 @@ -1,21 +1,21 @@ -study_accession experiment_accession experiment_title sample_taxon_id sample_scientific_name experiment_library_strategy experiment_library_source experiment_library_selection sample_accession sample_alias experiment_instrument_model pool_member_spots run_1_size run_1_accession run_1_total_spots run_1_total_bases experiment_alias experiment_base_coord experiment_center_name experiment_external_id experiment_library_construction_protocol experiment_library_name experiment_platform experiment_read_class experiment_read_index experiment_read_type experiment_sample_descriptor_accession experiment_sample_descriptor_refcenter experiment_sample_descriptor_refname experiment_spot_length library_layout pool_external_id pool_member_accession pool_member_bases pool_member_member_name pool_member_organism pool_member_sample_name pool_member_sample_title pool_member_tax_id run_1_alias run_1_base_A_count run_1_base_C_count run_1_base_G_count run_1_base_N_count run_1_base_T_count run_1_center_name run_1_cloudfile_1_filetype run_1_cloudfile_1_location run_1_cloudfile_1_provider run_1_cloudfile_2_filetype run_1_cloudfile_2_location run_1_cloudfile_2_provider run_1_cluster_name run_1_database_1 run_1_has_taxanalysis run_1_is_public run_1_load_done run_1_published run_1_srafile_1_alternative_1_access_type run_1_srafile_1_alternative_1_free_egress run_1_srafile_1_alternative_1_org run_1_srafile_1_alternative_1_url run_1_srafile_1_alternative_2_access_type run_1_srafile_1_alternative_2_free_egress run_1_srafile_1_alternative_2_org run_1_srafile_1_alternative_2_url run_1_srafile_1_alternative_3_access_type run_1_srafile_1_alternative_3_free_egress run_1_srafile_1_alternative_3_org run_1_srafile_1_alternative_3_url run_1_srafile_1_cluster run_1_srafile_1_date run_1_srafile_1_filename run_1_srafile_1_md5 run_1_srafile_1_semantic_name run_1_srafile_1_size run_1_srafile_1_sratoolkit run_1_srafile_1_supertype run_1_srafile_1_url run_1_static_data_available run_1_total_base_count run_1_total_base_cs_native run_set_bases run_set_bytes run_set_runs run_set_spots sample_attributes_1_tag sample_attributes_1_value sample_attributes_2_tag sample_attributes_2_value sample_attributes_3_tag sample_attributes_3_value sample_attributes_4_tag sample_attributes_4_value sample_attributes_5_tag sample_attributes_5_value sample_attributes_6_tag sample_attributes_6_value sample_description sample_external_id_1 sample_external_id_1_namespace sample_title study_alias study_center_name study_center_project_name study_external_id_1 study_external_id_1_namespace study_study_abstract study_study_title study_study_type_existing_study_type submission_accession submission_alias submission_center_name submission_lab_name -DRP008863 DRX234163 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 10077080 321156005 DRR244366 10077080 841466642 DRX234163 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r3 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 841466642 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244366 217241699 205753833 200326567 2134 218142409 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10077080"" /><Elements count=""841466642"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244366/DRR244366 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244366/DRR244366.1 public 2022-08-10 12:33:09 DRR244366 e53a7eb58a9113079018a4305e449613 run 321157826 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244366/DRR244366 1 841466642 false 841466642 321156005 1 10077080 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234162 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 12707941 417558824 DRR244365 12707941 1061050593 DRX234162 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r3 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 1061050593 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244365 272077671 262904885 253228390 4518 272835129 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12707941"" /><Elements count=""1061050593"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244365/DRR244365 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244365/DRR244365 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244365/DRR244365.1 public 2022-08-10 12:33:30 DRR244365 322190ad0855f3a4a4060ff3d1a41f5a run 417560652 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244365/DRR244365 1 1061050593 false 1061050593 417558824 1 12707941 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234161 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 10833863 353509516 DRR244364 10833863 904596684 DRX234161 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r3 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 904596684 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244364 232350490 223066154 214906934 3709 234269397 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10833863"" /><Elements count=""904596684"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244364/DRR244364 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244364/DRR244364 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244364/DRR244364.1 public 2022-08-10 12:34:37 DRR244364 2dca09477e6e5ca21d0edb28096b342b run 353511343 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244364/DRR244364 1 904596684 false 904596684 353509516 1 10833863 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234160 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 15198010 496240398 DRR244363 15198010 1269137186 DRX234160 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r3 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1269137186 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244363 319500778 318763054 309759268 5446 321108640 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15198010"" /><Elements count=""1269137186"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244363/DRR244363 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244363/DRR244363 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244363/DRR244363.1 public 2022-08-10 12:34:15 DRR244363 62954dc65f8f20d1091d4e493f636ee7 run 496242221 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244363/DRR244363 1 1269137186 false 1269137186 496240398 1 15198010 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234155 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 8316950 266221232 DRR244358 8316950 694366365 DRX234155 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r2 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 694366365 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244358 178628363 169140625 166285876 1730 180309771 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""8316950"" /><Elements count=""694366365"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244358/DRR244358 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244358/DRR244358 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244358/DRR244358.1 public 2022-08-10 12:33:52 DRR244358 144b6585d95d517844b5f2227e724f49 run 266223052 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244358/DRR244358 1 694366365 false 694366365 266221232 1 8316950 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234154 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 9237421 304819387 DRR244357 9237421 771273641 DRX234154 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r2 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 771273641 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244357 196991668 190316147 186820462 3267 197142097 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""9237421"" /><Elements count=""771273641"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244357/DRR244357 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244357/DRR244357.1 public 2022-08-10 12:33:32 DRR244357 d75cdc1c24e24453c00df2eee6e33832 run 304821209 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244357/DRR244357 1 771273641 false 771273641 304819387 1 9237421 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234153 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 11552257 378668250 DRR244356 11552257 964591478 DRX234153 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r2 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 964591478 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244356 246840721 238746807 231296067 4233 247703650 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11552257"" /><Elements count=""964591478"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244356/DRR244356 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244356/DRR244356 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244356/DRR244356.1 public 2022-08-10 12:34:43 DRR244356 57bbcf263b0d81399b206a6e3f010175 run 378670075 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244356/DRR244356 1 964591478 false 964591478 378668250 1 11552257 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234152 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 12100266 394434917 DRR244355 12100266 1010182169 DRX234152 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r2 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1010182169 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244355 261049089 247945899 239968991 4319 261213871 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12100266"" /><Elements count=""1010182169"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244355/DRR244355 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244355/DRR244355 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244355/DRR244355.1 public 2022-08-10 12:34:17 DRR244355 5c7510fdd468ef678734557b15e783dc run 394436735 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244355/DRR244355 1 1010182169 false 1010182169 394434917 1 12100266 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234147 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 10997702 351845201 DRR244350 10997702 918306581 DRX234147 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r1 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 918306581 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244350 236270140 225720983 218070765 2310 238242383 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10997702"" /><Elements count=""918306581"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244350/DRR244350 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244350/DRR244350 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244350/DRR244350.1 public 2022-08-10 12:33:19 DRR244350 c90cca7fc022c2934d07262d4bf690bd run 351847021 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244350/DRR244350 1 918306581 false 918306581 351845201 1 10997702 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234146 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 12921662 427189150 DRR244349 12921662 1078936294 DRX234146 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r1 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 1078936294 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244349 278515666 265806252 254431285 4443 280178648 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12921662"" /><Elements count=""1078936294"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244349/DRR244349 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244349/DRR244349 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244349/DRR244349.1 public 2022-08-10 12:33:53 DRR244349 ec73564e4e4766c2540b267cd27f010d run 427190973 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244349/DRR244349 1 1078936294 false 1078936294 427189150 1 12921662 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234145 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 12585531 415962802 DRR244348 12585531 1051121271 DRX234145 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r1 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 1051121271 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244348 262635693 266188310 257327118 4369 264965781 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12585531"" /><Elements count=""1051121271"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244348/DRR244348 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244348/DRR244348 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244348/DRR244348.1 public 2022-08-10 12:34:44 DRR244348 659efbf7f61872ac6efc1a5cf8bde88f run 415964627 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244348/DRR244348 1 1051121271 false 1051121271 415962802 1 12585531 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008863 DRX234144 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 12814785 418969197 DRR244347 12814785 1070030618 DRX234144 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r1 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1070030618 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244347 276562745 262362352 253056511 5393 278043617 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12814785"" /><Elements count=""1070030618"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244347/DRR244347 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244347/DRR244347 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244347/DRR244347.1 public 2022-08-10 12:34:53 DRR244347 2404780abb312680ae9bfcc4bb7c6b02 run 418971020 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244347/DRR244347 1 1070030618 false 1070030618 418969197 1 12814785 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University -DRP008429 DRX218758 NextSeq 500 sequencing of SAMD00227985 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235491 SAMD00227985 NextSeq 500 11647755 416563035 DRR228494 11647755 1001706915 DRX218758 1 CHUBU SAMD00227985 NEBNext Ultra DNA Library Prep Kit for Illumina WT_12_3 ILLUMINA Application Read 0 Forward DRS235491 CHUBU DRS235491 86 SINGLE SAMD00227985 DRS235491 1001706915 Arabidopsis thaliana SAMD00227985 WT_12 3702 DRR228494 263477176 240385788 238894690 2782 258946479 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11647755"" /><Elements count=""1001706915"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228494/DRR228494 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228494/DRR228494 gcp identity gs.US GCP gs://sra-pub-run-9/DRR228494/DRR228494.1 public 2022-04-12 12:22:24 DRR228494 df1c218fb5016da9e2b40e598afa27c1 run 416564858 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228494/DRR228494 1 1001706915 false 1001706915 416563035 1 11647755 sample_name WT_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the cold stress conditions for 12 hour from ZT2 SAMD00227985 BioSample WT_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218757 NextSeq 500 sequencing of SAMD00227984 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235490 SAMD00227984 NextSeq 500 11660980 393314912 DRR228493 11660980 1002844280 DRX218757 1 CHUBU SAMD00227984 NEBNext Ultra DNA Library Prep Kit for Illumina WT_3_3 ILLUMINA Application Read 0 Forward DRS235490 CHUBU DRS235490 86 SINGLE SAMD00227984 DRS235490 1002844280 Arabidopsis thaliana SAMD00227984 WT_3 3702 DRR228493 276494020 229709012 226372617 3566 270265065 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11660980"" /><Elements count=""1002844280"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228493/DRR228493 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228493/DRR228493 gcp identity gs.US GCP gs://sra-pub-run-12/DRR228493/DRR228493.1 public 2022-04-12 12:21:46 DRR228493 7026f03462bd4be539d8b883238a201d run 393316143 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228493/DRR228493 1 1002844280 false 1002844280 393314912 1 11660980 sample_name WT_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the cold stress conditions for 3 hour from ZT2 SAMD00227984 BioSample WT_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218756 NextSeq 500 sequencing of SAMD00227983 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235489 SAMD00227983 NextSeq 500 13273886 446774784 DRR228492 13273886 1141554196 DRX218756 1 CHUBU SAMD00227983 NEBNext Ultra DNA Library Prep Kit for Illumina WT_0_3 ILLUMINA Application Read 0 Forward DRS235489 CHUBU DRS235489 86 SINGLE SAMD00227983 DRS235489 1141554196 Arabidopsis thaliana SAMD00227983 WT_0 3702 DRR228492 314772649 261248885 257960596 4002 307568064 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""13273886"" /><Elements count=""1141554196"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228492/DRR228492 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228492/DRR228492 gcp identity gs.US GCP gs://sra-pub-run-2/DRR228492/DRR228492.1 public 2022-04-12 12:22:55 DRR228492 353f78b468cdcdd42e512acf1f421059 run 446776014 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228492/DRR228492 1 1141554196 false 1141554196 446774784 1 13273886 sample_name WT_0 age 14-day-old cold_stress_hours 0 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the normal growth conditions at 2 hour after dawn (ZT2) SAMD00227983 BioSample WT_0 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218755 NextSeq 500 sequencing of SAMD00227982 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235488 SAMD00227982 NextSeq 500 8875819 320965496 DRR228491 8875819 763320418 DRX218755 1 CHUBU SAMD00227982 NEBNext Ultra DNA Library Prep Kit for Illumina r48_12_3 ILLUMINA Application Read 0 Forward DRS235488 CHUBU DRS235488 86 SINGLE SAMD00227982 DRS235488 763320418 Arabidopsis thaliana SAMD00227982 rve48_12 3702 DRR228491 210592983 174401463 173312581 1974 205011417 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""8875819"" /><Elements count=""763320418"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228491/DRR228491 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228491/DRR228491 gcp identity gs.US GCP gs://sra-pub-run-3/DRR228491/DRR228491.1 public 2022-04-12 12:21:09 DRR228491 73aeb463276c206aa41f12add4dac462 run 320967316 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228491/DRR228491 1 763320418 false 763320418 320965496 1 8875819 sample_name r48_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the cold stress conditions for 12 hour from ZT2 SAMD00227982 BioSample rve48_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218754 NextSeq 500 sequencing of SAMD00227981 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235487 SAMD00227981 NextSeq 500 15165885 502400983 DRR228490 15165885 1304266110 DRX218754 1 CHUBU SAMD00227981 NEBNext Ultra DNA Library Prep Kit for Illumina r48_3_3 ILLUMINA Application Read 0 Forward DRS235487 CHUBU DRS235487 86 SINGLE SAMD00227981 DRS235487 1304266110 Arabidopsis thaliana SAMD00227981 rve48_3 3702 DRR228490 359176604 297760568 295069565 4766 352254607 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15165885"" /><Elements count=""1304266110"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228490/DRR228490 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228490/DRR228490 gcp identity gs.US GCP gs://sra-pub-run-3/DRR228490/DRR228490.1 public 2022-04-12 12:21:14 DRR228490 8d53cbdb5ca069810a1e4c2af83b9c3c run 502402216 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228490/DRR228490 1 1304266110 false 1304266110 502400983 1 15165885 sample_name r48_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the cold stress conditions for 3 hour from ZT2 SAMD00227981 BioSample rve48_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218753 NextSeq 500 sequencing of SAMD00227980 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235486 SAMD00227980 NextSeq 500 15187212 501850106 DRR228489 15187212 1306100232 DRX218753 1 CHUBU SAMD00227980 NEBNext Ultra DNA Library Prep Kit for Illumina r48_0_3 ILLUMINA Application Read 0 Forward DRS235486 CHUBU DRS235486 86 SINGLE SAMD00227980 DRS235486 1306100232 Arabidopsis thaliana SAMD00227980 rve48_0 3702 DRR228489 358607812 298955729 297427715 4774 351104202 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15187212"" /><Elements count=""1306100232"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:24:40 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228489/DRR228489 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228489/DRR228489 gcp identity gs.US GCP gs://sra-pub-run-5/DRR228489/DRR228489.1 public 2022-04-12 12:22:11 DRR228489 660d223a0a0a89d1c8c21dec834162fe run 501851337 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228489/DRR228489 1 1306100232 false 1306100232 501850106 1 15187212 sample_name r48_0 age 14-day-old cold_stress_hours 0 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the normal growth conditions at 2 hour after dawn (ZT2) SAMD00227980 BioSample rve48_0 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218752 NextSeq 500 sequencing of SAMD00227979 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235485 SAMD00227979 NextSeq 500 13006006 464544238 DRR228488 13006006 1118516489 DRX218752 1 CHUBU SAMD00227979 NEBNext Ultra DNA Library Prep Kit for Illumina Clr48_12_3 ILLUMINA Application Read 0 Forward DRS235485 CHUBU DRS235485 86 SINGLE SAMD00227979 DRS235485 1118516489 Arabidopsis thaliana SAMD00227979 quad_12 3702 DRR228488 291308300 271620363 269869779 3179 285714868 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""13006006"" /><Elements count=""1118516489"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:13 anonymous worldwide NCBI https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228488/DRR228488 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228488/DRR228488 gcp identity gs.US GCP gs://sra-pub-run-10/DRR228488/DRR228488.1 public 2022-04-12 12:22:16 DRR228488 c4535e1ae353ca7b702c218f5dee501a run 464546063 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228488/DRR228488 1 1118516489 false 1118516489 464544238 1 13006006 sample_name Clr48_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype cca1 lhy rve4 rve8 tissue_type whole seedlings cca1 lhy rve4 rve8 mutant plants under the cold stress conditions for 12 hour from ZT2 SAMD00227979 BioSample quad_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University -DRP008429 DRX218751 NextSeq 500 sequencing of SAMD00227978 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235484 SAMD00227978 NextSeq 500 11941593 416101311 DRR228487 11941593 1003093742 DRX218751 1 CHUBU SAMD00227978 NEBNext Ultra DNA Library Prep Kit for Illumina Clr48_3_3 ILLUMINA Application Read 0 Forward DRS235484 CHUBU DRS235484 86 SINGLE SAMD00227978 DRS235484 1003093742 Arabidopsis thaliana SAMD00227978 quad_3 3702 DRR228487 274672358 229405455 229040046 3169 269972714 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11941593"" /><Elements count=""1003093742"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:13 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228487/DRR228487 gcp identity gs.US GCP gs://sra-pub-run-7/DRR228487/DRR228487.1 public 2022-04-12 12:22:39 DRR228487 00d3b8388e7320bd796e17ebb0d6e993 run 416103140 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228487/DRR228487 1 1003093742 false 1003093742 416101311 1 11941593 sample_name Clr48_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype cca1 lhy rve4 rve8 tissue_type whole seedlings cca1 lhy rve4 rve8 mutant plants under the cold stress conditions for 3 hour from ZT2 SAMD00227978 BioSample quad_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +study_accession experiment_accession experiment_title sample_taxon_id sample_scientific_name experiment_library_strategy experiment_library_source experiment_library_selection sample_accession sample_alias experiment_instrument_model pool_member_spots run_1_size run_1_accession run_1_total_spots run_1_total_bases experiment_alias experiment_base_coord experiment_center_name experiment_external_id experiment_library_construction_protocol experiment_library_name experiment_platform experiment_read_class experiment_read_index experiment_read_type experiment_sample_descriptor_accession experiment_sample_descriptor_refcenter experiment_sample_descriptor_refname experiment_spot_length library_layout pool_external_id pool_member_accession pool_member_bases pool_member_member_name pool_member_organism pool_member_sample_name pool_member_sample_title pool_member_tax_id run_1_alias run_1_base_A_count run_1_base_C_count run_1_base_G_count run_1_base_N_count run_1_base_T_count run_1_center_name run_1_cloudfile_1_filetype run_1_cloudfile_1_location run_1_cloudfile_1_provider run_1_cloudfile_2_filetype run_1_cloudfile_2_location run_1_cloudfile_2_provider run_1_cluster_name run_1_database_1 run_1_has_taxanalysis run_1_is_public run_1_load_done run_1_published run_1_srafile_1_alternative_1_access_type run_1_srafile_1_alternative_1_free_egress run_1_srafile_1_alternative_1_org run_1_srafile_1_alternative_1_url run_1_srafile_1_alternative_2_access_type run_1_srafile_1_alternative_2_free_egress run_1_srafile_1_alternative_2_org run_1_srafile_1_alternative_2_url run_1_srafile_1_cluster run_1_srafile_1_date run_1_srafile_1_filename run_1_srafile_1_md5 run_1_srafile_1_semantic_name run_1_srafile_1_size run_1_srafile_1_sratoolkit run_1_srafile_1_supertype run_1_srafile_1_url run_1_static_data_available run_1_total_base_count run_1_total_base_cs_native run_set_bases run_set_bytes run_set_runs run_set_spots sample_attributes_1_tag sample_attributes_1_value sample_attributes_2_tag sample_attributes_2_value sample_attributes_3_tag sample_attributes_3_value sample_attributes_4_tag sample_attributes_4_value sample_attributes_5_tag sample_attributes_5_value sample_attributes_6_tag sample_attributes_6_value sample_description sample_external_id_1 sample_external_id_1_namespace sample_title study_alias study_center_name study_center_project_name study_external_id_1 study_external_id_1_namespace study_study_abstract study_study_title study_study_type_existing_study_type submission_accession submission_alias submission_center_name submission_lab_name +DRP008863 DRX234163 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 10077080 321156005 DRR244366 10077080 841466642 DRX234163 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r3 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 841466642 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244366 217241699 205753833 200326567 2134 218142409 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10077080"" /><Elements count=""841466642"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244366/DRR244366 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244366/DRR244366.1 public 2022-08-10 12:33:09 DRR244366 e53a7eb58a9113079018a4305e449613 run 321157826 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244366/DRR244366 1 841466642 false 841466642 321156005 1 10077080 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234162 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 12707941 417558824 DRR244365 12707941 1061050593 DRX234162 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r3 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 1061050593 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244365 272077671 262904885 253228390 4518 272835129 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12707941"" /><Elements count=""1061050593"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244365/DRR244365 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244365/DRR244365.1 public 2022-08-10 12:33:30 DRR244365 322190ad0855f3a4a4060ff3d1a41f5a run 417560652 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244365/DRR244365 1 1061050593 false 1061050593 417558824 1 12707941 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234161 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 10833863 353509516 DRR244364 10833863 904596684 DRX234161 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r3 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 904596684 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244364 232350490 223066154 214906934 3709 234269397 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10833863"" /><Elements count=""904596684"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244364/DRR244364 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244364/DRR244364.1 public 2022-08-10 12:34:37 DRR244364 2dca09477e6e5ca21d0edb28096b342b run 353511343 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244364/DRR244364 1 904596684 false 904596684 353509516 1 10833863 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234160 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 15198010 496240398 DRR244363 15198010 1269137186 DRX234160 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r3 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1269137186 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244363 319500778 318763054 309759268 5446 321108640 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15198010"" /><Elements count=""1269137186"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244363/DRR244363 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244363/DRR244363.1 public 2022-08-10 12:34:15 DRR244363 62954dc65f8f20d1091d4e493f636ee7 run 496242221 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244363/DRR244363 1 1269137186 false 1269137186 496240398 1 15198010 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234155 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 8316950 266221232 DRR244358 8316950 694366365 DRX234155 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r2 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 694366365 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244358 178628363 169140625 166285876 1730 180309771 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""8316950"" /><Elements count=""694366365"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244358/DRR244358 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244358/DRR244358.1 public 2022-08-10 12:33:52 DRR244358 144b6585d95d517844b5f2227e724f49 run 266223052 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244358/DRR244358 1 694366365 false 694366365 266221232 1 8316950 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234154 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 9237421 304819387 DRR244357 9237421 771273641 DRX234154 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r2 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 771273641 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244357 196991668 190316147 186820462 3267 197142097 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""9237421"" /><Elements count=""771273641"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244357/DRR244357 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244357/DRR244357.1 public 2022-08-10 12:33:32 DRR244357 d75cdc1c24e24453c00df2eee6e33832 run 304821209 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244357/DRR244357 1 771273641 false 771273641 304819387 1 9237421 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234153 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 11552257 378668250 DRR244356 11552257 964591478 DRX234153 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r2 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 964591478 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244356 246840721 238746807 231296067 4233 247703650 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11552257"" /><Elements count=""964591478"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244356/DRR244356 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244356/DRR244356.1 public 2022-08-10 12:34:43 DRR244356 57bbcf263b0d81399b206a6e3f010175 run 378670075 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244356/DRR244356 1 964591478 false 964591478 378668250 1 11552257 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234152 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 12100266 394434917 DRR244355 12100266 1010182169 DRX234152 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r2 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1010182169 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244355 261049089 247945899 239968991 4319 261213871 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12100266"" /><Elements count=""1010182169"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244355/DRR244355 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244355/DRR244355.1 public 2022-08-10 12:34:17 DRR244355 5c7510fdd468ef678734557b15e783dc run 394436735 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244355/DRR244355 1 1010182169 false 1010182169 394434917 1 12100266 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234147 NextSeq 500 sequencing of SAMD00246673 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250781 SAMD00246673 NextSeq 500 10997702 351845201 DRR244350 10997702 918306581 DRX234147 1 CHUBU SAMD00246673 TruSeq RNA library prep kit v2 myb_Salt_r1 ILLUMINA Application Read 0 Forward DRS250781 CHUBU DRS250781 86 SINGLE SAMD00246673 DRS250781 918306581 Arabidopsis thaliana SAMD00246673 myb3r135_7DAG_24h salt treatment 3702 DRR244350 236270140 225720983 218070765 2310 238242383 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""10997702"" /><Elements count=""918306581"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244350/DRR244350 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244350/DRR244350.1 public 2022-08-10 12:33:19 DRR244350 c90cca7fc022c2934d07262d4bf690bd run 351847021 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244350/DRR244350 1 918306581 false 918306581 351845201 1 10997702 sample_name myb3r135_salt24h age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246673 BioSample myb3r135_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234146 NextSeq 500 sequencing of SAMD00246672 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250780 SAMD00246672 NextSeq 500 12921662 427189150 DRR244349 12921662 1078936294 DRX234146 1 CHUBU SAMD00246672 TruSeq RNA library prep kit v2 myb_Cont_r1 ILLUMINA Application Read 0 Forward DRS250780 CHUBU DRS250780 86 SINGLE SAMD00246672 DRS250780 1078936294 Arabidopsis thaliana SAMD00246672 myb3r135_7DAG_24h control treatment 3702 DRR244349 278515666 265806252 254431285 4443 280178648 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12921662"" /><Elements count=""1078936294"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244349/DRR244349 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244349/DRR244349.1 public 2022-08-10 12:33:53 DRR244349 ec73564e4e4766c2540b267cd27f010d run 427190973 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244349/DRR244349 1 1078936294 false 1078936294 427189150 1 12921662 sample_name myb3r135_mock age 8 day old genotype myb3r1 myb3r3 myb3r3 triple mutant tissue_type whole seedling treatment mock ecotype Columbia myb3r1 myb3r3 myb3r5 seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246672 BioSample myb3r135_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234145 NextSeq 500 sequencing of SAMD00246671 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250779 SAMD00246671 NextSeq 500 12585531 415962802 DRR244348 12585531 1051121271 DRX234145 1 CHUBU SAMD00246671 TruSeq RNA library prep kit v2 Col_Salt_r1 ILLUMINA Application Read 0 Forward DRS250779 CHUBU DRS250779 86 SINGLE SAMD00246671 DRS250779 1051121271 Arabidopsis thaliana SAMD00246671 Col_7DAG_24h salt treatment 3702 DRR244348 262635693 266188310 257327118 4369 264965781 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12585531"" /><Elements count=""1051121271"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244348/DRR244348 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244348/DRR244348.1 public 2022-08-10 12:34:44 DRR244348 659efbf7f61872ac6efc1a5cf8bde88f run 415964627 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244348/DRR244348 1 1051121271 false 1051121271 415962802 1 12585531 sample_name Col_salt24h age 8 day old genotype wild type tissue_type whole seedling treatment 150 mM NaCl for 24 hours ecotype Columbia Wild type Col seedlings were treated with 150 mM NaCl for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246671 BioSample Col_7DAG_24h salt treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008863 DRX234144 NextSeq 500 sequencing of SAMD00246670 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS250778 SAMD00246670 NextSeq 500 12814785 418969197 DRR244347 12814785 1070030618 DRX234144 1 CHUBU SAMD00246670 TruSeq RNA library prep kit v2 Col_Cont_r1 ILLUMINA Application Read 0 Forward DRS250778 CHUBU DRS250778 86 SINGLE SAMD00246670 DRS250778 1070030618 Arabidopsis thaliana SAMD00246670 Col_7DAG_24h control treatment 3702 DRR244347 276562745 262362352 253056511 5393 278043617 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""12814785"" /><Elements count=""1070030618"" /></Statistics></Table></Database>" 1 true true 2022-08-10 12:31:34 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244347/DRR244347 gcp identity gs.US GCP gs://sra-pub-run-2/sra/DRR244347/DRR244347.1 public 2022-08-10 12:34:53 DRR244347 2404780abb312680ae9bfcc4bb7c6b02 run 418971020 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR244347/DRR244347 1 1070030618 false 1070030618 418969197 1 12814785 sample_name Col_mock age 8 day old genotype wild type tissue_type whole seedling treatment mock ecotype Columbia Wild type Col seedlings were mock-treated for 24 hours after grwon for 7 days on half-strength MS medium containing 2% sucrose under continuous light condition SAMD00246670 BioSample Col_7DAG_24h control treatment DRP008863 CHUBU Arabidopsis thaliana PRJDB10553 BioProject Three MYB3R proteins, MYB3R1, MYB3R3 and MYB3R5, are responsible for transcriptional repression of G2/M-specific genes to maintain their proper expression levels during cell cycle and plant development. Importantly, MYB3R repressors were found to be required for active growth repression under salt stress conditions. To understand the mechanisms of the MYB3R-mediated growth repression under salt stress, transcriptome analysis was performed for Arabidopsis seedlings treated with high concentration of NaCl continuously or transiently. Roles of MYB3R repressors for gene expression changes under salt stress Other DRA010790 DRA010790 CHUBU Chubu University +DRP008429 DRX218758 NextSeq 500 sequencing of SAMD00227985 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235491 SAMD00227985 NextSeq 500 11647755 416563035 DRR228494 11647755 1001706915 DRX218758 1 CHUBU SAMD00227985 NEBNext Ultra DNA Library Prep Kit for Illumina WT_12_3 ILLUMINA Application Read 0 Forward DRS235491 CHUBU DRS235491 86 SINGLE SAMD00227985 DRS235491 1001706915 Arabidopsis thaliana SAMD00227985 WT_12 3702 DRR228494 263477176 240385788 238894690 2782 258946479 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11647755"" /><Elements count=""1001706915"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228494/DRR228494 gcp identity gs.US GCP gs://sra-pub-run-9/DRR228494/DRR228494.1 public 2022-04-12 12:22:24 DRR228494 df1c218fb5016da9e2b40e598afa27c1 run 416564858 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228494/DRR228494 1 1001706915 false 1001706915 416563035 1 11647755 sample_name WT_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the cold stress conditions for 12 hour from ZT2 SAMD00227985 BioSample WT_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218757 NextSeq 500 sequencing of SAMD00227984 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235490 SAMD00227984 NextSeq 500 11660980 393314912 DRR228493 11660980 1002844280 DRX218757 1 CHUBU SAMD00227984 NEBNext Ultra DNA Library Prep Kit for Illumina WT_3_3 ILLUMINA Application Read 0 Forward DRS235490 CHUBU DRS235490 86 SINGLE SAMD00227984 DRS235490 1002844280 Arabidopsis thaliana SAMD00227984 WT_3 3702 DRR228493 276494020 229709012 226372617 3566 270265065 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11660980"" /><Elements count=""1002844280"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228493/DRR228493 gcp identity gs.US GCP gs://sra-pub-run-12/DRR228493/DRR228493.1 public 2022-04-12 12:21:46 DRR228493 7026f03462bd4be539d8b883238a201d run 393316143 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228493/DRR228493 1 1002844280 false 1002844280 393314912 1 11660980 sample_name WT_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the cold stress conditions for 3 hour from ZT2 SAMD00227984 BioSample WT_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218756 NextSeq 500 sequencing of SAMD00227983 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235489 SAMD00227983 NextSeq 500 13273886 446774784 DRR228492 13273886 1141554196 DRX218756 1 CHUBU SAMD00227983 NEBNext Ultra DNA Library Prep Kit for Illumina WT_0_3 ILLUMINA Application Read 0 Forward DRS235489 CHUBU DRS235489 86 SINGLE SAMD00227983 DRS235489 1141554196 Arabidopsis thaliana SAMD00227983 WT_0 3702 DRR228492 314772649 261248885 257960596 4002 307568064 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""13273886"" /><Elements count=""1141554196"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228492/DRR228492 gcp identity gs.US GCP gs://sra-pub-run-2/DRR228492/DRR228492.1 public 2022-04-12 12:22:55 DRR228492 353f78b468cdcdd42e512acf1f421059 run 446776014 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228492/DRR228492 1 1141554196 false 1141554196 446774784 1 13273886 sample_name WT_0 age 14-day-old cold_stress_hours 0 collection_date 2019-06-24 genotype wild type tissue_type whole seedlings WT (Col-0) plants under the normal growth conditions at 2 hour after dawn (ZT2) SAMD00227983 BioSample WT_0 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218755 NextSeq 500 sequencing of SAMD00227982 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235488 SAMD00227982 NextSeq 500 8875819 320965496 DRR228491 8875819 763320418 DRX218755 1 CHUBU SAMD00227982 NEBNext Ultra DNA Library Prep Kit for Illumina r48_12_3 ILLUMINA Application Read 0 Forward DRS235488 CHUBU DRS235488 86 SINGLE SAMD00227982 DRS235488 763320418 Arabidopsis thaliana SAMD00227982 rve48_12 3702 DRR228491 210592983 174401463 173312581 1974 205011417 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""8875819"" /><Elements count=""763320418"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228491/DRR228491 gcp identity gs.US GCP gs://sra-pub-run-3/DRR228491/DRR228491.1 public 2022-04-12 12:21:09 DRR228491 73aeb463276c206aa41f12add4dac462 run 320967316 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228491/DRR228491 1 763320418 false 763320418 320965496 1 8875819 sample_name r48_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the cold stress conditions for 12 hour from ZT2 SAMD00227982 BioSample rve48_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218754 NextSeq 500 sequencing of SAMD00227981 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235487 SAMD00227981 NextSeq 500 15165885 502400983 DRR228490 15165885 1304266110 DRX218754 1 CHUBU SAMD00227981 NEBNext Ultra DNA Library Prep Kit for Illumina r48_3_3 ILLUMINA Application Read 0 Forward DRS235487 CHUBU DRS235487 86 SINGLE SAMD00227981 DRS235487 1304266110 Arabidopsis thaliana SAMD00227981 rve48_3 3702 DRR228490 359176604 297760568 295069565 4766 352254607 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15165885"" /><Elements count=""1304266110"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:14 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228490/DRR228490 gcp identity gs.US GCP gs://sra-pub-run-3/DRR228490/DRR228490.1 public 2022-04-12 12:21:14 DRR228490 8d53cbdb5ca069810a1e4c2af83b9c3c run 502402216 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228490/DRR228490 1 1304266110 false 1304266110 502400983 1 15165885 sample_name r48_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the cold stress conditions for 3 hour from ZT2 SAMD00227981 BioSample rve48_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218753 NextSeq 500 sequencing of SAMD00227980 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235486 SAMD00227980 NextSeq 500 15187212 501850106 DRR228489 15187212 1306100232 DRX218753 1 CHUBU SAMD00227980 NEBNext Ultra DNA Library Prep Kit for Illumina r48_0_3 ILLUMINA Application Read 0 Forward DRS235486 CHUBU DRS235486 86 SINGLE SAMD00227980 DRS235486 1306100232 Arabidopsis thaliana SAMD00227980 rve48_0 3702 DRR228489 358607812 298955729 297427715 4774 351104202 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""15187212"" /><Elements count=""1306100232"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:24:40 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228489/DRR228489 gcp identity gs.US GCP gs://sra-pub-run-5/DRR228489/DRR228489.1 public 2022-04-12 12:22:11 DRR228489 660d223a0a0a89d1c8c21dec834162fe run 501851337 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228489/DRR228489 1 1306100232 false 1306100232 501850106 1 15187212 sample_name r48_0 age 14-day-old cold_stress_hours 0 collection_date 2019-06-24 genotype rve4 rve8 tissue_type whole seedlings rve4 rve8 mutant plants under the normal growth conditions at 2 hour after dawn (ZT2) SAMD00227980 BioSample rve48_0 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218752 NextSeq 500 sequencing of SAMD00227979 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235485 SAMD00227979 NextSeq 500 13006006 464544238 DRR228488 13006006 1118516489 DRX218752 1 CHUBU SAMD00227979 NEBNext Ultra DNA Library Prep Kit for Illumina Clr48_12_3 ILLUMINA Application Read 0 Forward DRS235485 CHUBU DRS235485 86 SINGLE SAMD00227979 DRS235485 1118516489 Arabidopsis thaliana SAMD00227979 quad_12 3702 DRR228488 291308300 271620363 269869779 3179 285714868 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""13006006"" /><Elements count=""1118516489"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:13 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228488/DRR228488 gcp identity gs.US GCP gs://sra-pub-run-10/DRR228488/DRR228488.1 public 2022-04-12 12:22:16 DRR228488 c4535e1ae353ca7b702c218f5dee501a run 464546063 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228488/DRR228488 1 1118516489 false 1118516489 464544238 1 13006006 sample_name Clr48_12 age 14-day-old cold_stress_hours 12 collection_date 2019-06-24 genotype cca1 lhy rve4 rve8 tissue_type whole seedlings cca1 lhy rve4 rve8 mutant plants under the cold stress conditions for 12 hour from ZT2 SAMD00227979 BioSample quad_12 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University +DRP008429 DRX218751 NextSeq 500 sequencing of SAMD00227978 3702 Arabidopsis thaliana RNA-Seq TRANSCRIPTOMIC RANDOM DRS235484 SAMD00227978 NextSeq 500 11941593 416101311 DRR228487 11941593 1003093742 DRX218751 1 CHUBU SAMD00227978 NEBNext Ultra DNA Library Prep Kit for Illumina Clr48_3_3 ILLUMINA Application Read 0 Forward DRS235484 CHUBU DRS235484 86 SINGLE SAMD00227978 DRS235484 1003093742 Arabidopsis thaliana SAMD00227978 quad_3 3702 DRR228487 274672358 229405455 229040046 3169 269972714 CHUBU run gs.US gs run s3.us-east-1 s3 public "<Database><Table name=""SEQUENCE""><Statistics source=""meta""><Rows count=""11941593"" /><Elements count=""1003093742"" /></Statistics></Table></Database>" 1 true true 2022-04-12 12:22:13 anonymous worldwide AWS https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228487/DRR228487 gcp identity gs.US GCP gs://sra-pub-run-7/DRR228487/DRR228487.1 public 2022-04-12 12:22:39 DRR228487 00d3b8388e7320bd796e17ebb0d6e993 run 416103140 1 Primary ETL https://sra-pub-run-odp.s3.amazonaws.com/sra/DRR228487/DRR228487 1 1003093742 false 1003093742 416101311 1 11941593 sample_name Clr48_3 age 14-day-old cold_stress_hours 3 collection_date 2019-06-24 genotype cca1 lhy rve4 rve8 tissue_type whole seedlings cca1 lhy rve4 rve8 mutant plants under the cold stress conditions for 3 hour from ZT2 SAMD00227978 BioSample quad_3 DRP008429 CHUBU Arabidopsis thaliana PRJDB9852 BioProject It was reported that CCA1 and LHY positively regulated the gene expression of DREB1A and DREB1C. In addition, we revealed that RVE4 and RVE8 directly activated the cold-inducible DREB1A expression. The cca1 lhy double mutant, rve4 rve8 double mutant (rve48), and cca1 lhy rve4 rve8 quadruple mutant (quad) plants were sensitive to the freezing stress. In order to comprehensively analyze downstream genes of RVE4/RVE8 and CCA1/LHY in the cold response, we conducted RNA sequence analyses. We used 14-day-old whole seedlings of wild type (Col-0), cca1 lhy, rve48 and quad mutant plants grown on GM agar plates under the normal growth conditions at ZT2 (2 h after dawn) and the cold stress conditions treated at 4°C for 3 h and 12 h. We have three biological replicates for this analysis. RNAseq analyses of the multiple mutant plants of CCA1/LHY and RVE4/RVE8 under cold stresses Transcriptome Analysis DRA010211 DRA010211 CHUBU Chubu University