Mercurial > repos > ebi-gxa > score_genes_aucell
changeset 11:60ca413621a8 draft default tip
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit b581a5b4ba88c5bf06f6223ba9aec51a8564796c
author | ebi-gxa |
---|---|
date | Fri, 29 Nov 2024 11:34:02 +0000 |
parents | 5c6d29c3a141 |
children | |
files | decoupler_pathway_inference.py test-data/diff_exp_result.tab |
diffstat | 2 files changed, 16501 insertions(+), 38 deletions(-) [+] |
line wrap: on
line diff
--- a/decoupler_pathway_inference.py Wed Oct 30 14:01:13 2024 +0000 +++ b/decoupler_pathway_inference.py Fri Nov 29 11:34:02 2024 +0000 @@ -10,9 +10,13 @@ # add AnnData input file option parser.add_argument( - "-i", "--input_anndata", help="AnnData input file", required=True + "-i", "--input", + help=( + "AnnData or table input file. Table input is meant for a single " + "comparison, not gene x cells" + ), + required=True ) - # add network input file option parser.add_argument( "-n", "--input_network", help="Network input file", required=True @@ -34,6 +38,28 @@ default=None, ) +# Column for stat to use when providing a table +parser.add_argument( + "--stat", + help="Stat to use when providing a table. Default is 'log2FC'.", + default="log2FC", +) +# Optional column for p-value or FDR in the table +parser.add_argument( + "--p_value_column", + required=False, + help="Column name in the table with p-values or FDRs.", + default=None, +) +# Optional column for FDR threshold when given a table +parser.add_argument( + "--p_value_threshold", + required=False, + type=float, + help="Column name in the table with FDRs.", + default=0.05 +) + # Column name in net with source nodes parser.add_argument( "-s", @@ -93,8 +119,15 @@ if args.output is None: raise ValueError("Please specify either -o or --output") -# read in the AnnData input file -adata = ad.read_h5ad(args.input_anndata) +# detect based on input file extension if the input file is AnnData or matrix +if args.input.endswith(".h5ad"): + input_type = "AnnData" +elif args.input.endswith(".tsv") or args.input.endswith(".csv"): + input_type = "matrix" +else: + raise ValueError( + "Invalid input file. Please provide a valid AnnData or matrix file." + ) # read in the input file network input file network = pd.read_csv(args.input_network, sep="\t") @@ -108,17 +141,32 @@ "Source, target, and weight columns are not present in the network" ) - print(type(args.min_n)) -if args.var_gene_symbols_field and args.var_gene_symbols_field in adata.var.columns: - # Storing index in a column called 'index_bak' - adata.var['index_bak'] = adata.var.index - adata.var.set_index(args.var_gene_symbols_field, inplace=True) +if input_type == "AnnData": + # read in the AnnData input file + adata = ad.read_h5ad(args.input) + if args.var_gene_symbols_field and args.var_gene_symbols_field in adata.var.columns: + # Storing index in a column called 'index_bak' + adata.var['index_bak'] = adata.var.index + adata.var.set_index(args.var_gene_symbols_field, inplace=True) +else: + # read in the matrix input file, genes in rows and columns for stats + adata = pd.read_csv(args.input, sep="\t", index_col=0) + if args.stat not in adata.columns: + raise ValueError(f"Stat column {args.stat} not found in input table header.") + if args.p_value_column and args.p_value_column not in adata.columns: + raise ValueError( + f"P-value column {args.p_value_column} not found in input table header." + ) + if args.p_value_column and args.p_value_threshold is not None: + adata = adata[adata[args.p_value_column] <= args.p_value_threshold] + + adata = adata[[args.stat]].T if args.method == "mlm": - dc.run_mlm( + res = dc.run_mlm( mat=adata, net=network, source=args.source, @@ -129,24 +177,19 @@ use_raw=args.use_raw, ) - if args.output is not None: - # write adata.obsm[mlm_key] and adata.obsm[mlm_pvals_key] to the - # output network files - combined_df = pd.concat( - [adata.obsm["mlm_estimate"], adata.obsm["mlm_pvals"]], axis=1 - ) - - # Save the combined dataframe to a file - combined_df.to_csv(args.output + ".tsv", sep="\t") - - # if args.activities_path is specified, generate the activities AnnData - # and save the AnnData object to the specified path - if args.activities_path is not None: - acts = dc.get_acts(adata, obsm_key="mlm_estimate") - acts.write_h5ad(args.activities_path) - elif args.method == "ulm": - dc.run_ulm( + res = dc.run_ulm( + mat=adata, + net=network, + source=args.source, + target=args.target, + weight=args.weight, + verbose=True, + min_n=args.min_n, + use_raw=args.use_raw, + ) +elif args.method == "consensus": + res = dc.run_consensus( mat=adata, net=network, source=args.source, @@ -157,18 +200,31 @@ use_raw=args.use_raw, ) - if args.output is not None: - # write adata.obsm[mlm_key] and adata.obsm[mlm_pvals_key] to the - # output network files +if args.output is not None: + # write adata.obsm[mlm_key] and adata.obsm[mlm_pvals_key] to the + # output network files + if input_type == "AnnData": combined_df = pd.concat( - [adata.obsm["ulm_estimate"], adata.obsm["ulm_pvals"]], axis=1 + [adata.obsm[f"{args.method}_estimate"], + adata.obsm[f"{args.method}_pvals"]], axis=1 ) + else: + tf_est, tf_pvals = res + combined_df = pd.DataFrame( + { + # index is written, so no need for the set names + f"{args.method}_estimate": tf_est.iloc[0], + f"{args.method}_pvals": tf_pvals.iloc[0], + } + ) + # sort ascending on the p-values + combined_df.sort_values(by=f"{args.method}_pvals", inplace=True) - # Save the combined dataframe to a file - combined_df.to_csv(args.output + ".tsv", sep="\t") + # Save the combined dataframe to a file + combined_df.to_csv(args.output + ".tsv", sep="\t") - # if args.activities_path is specified, generate the activities AnnData - # and save the AnnData object to the specified path - if args.activities_path is not None: - acts = dc.get_acts(adata, obsm_key="ulm_estimate") - acts.write_h5ad(args.activities_path) +# if args.activities_path is specified, generate the activities AnnData +# and save the AnnData object to the specified path +if args.activities_path is not None and input_type == "AnnData": + acts = dc.get_acts(adata, obsm_key=f"{args.method}_estimate") + acts.write_h5ad(args.activities_path)
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/diff_exp_result.tab Fri Nov 29 11:34:02 2024 +0000 @@ -0,0 +1,16407 @@ +Gene log2FoldChange pvalue padj +DOK6 0.51 1.861e-08 0.0003053 +TBX5 -2.129 5.655e-08 0.0004191 +SLC32A1 0.9003 7.664e-08 0.0004191 +IFITM1 -1.687 3.735e-06 0.006809 +NUP93 0.3659 3.373e-06 0.006809 +EMILIN2 1.534 2.976e-06 0.006809 +TPX2 -0.9974 2.097e-06 0.006809 +LAMA2 -1.425 2.39e-06 0.006809 +CAV2 -1.052 3.213e-06 0.006809 +TNN -1.658 8.973e-06 0.01472 +POU3F4 1.181 1.062e-05 0.01584 +COL13A1 -1.647 1.394e-05 0.01592 +IFITM3 -1.61 1.202e-05 0.01592 +SHISA3 -1.477 1.31e-05 0.01592 +LOC285954 1.05 1.456e-05 0.01592 +VEPH1 1.137 2.211e-05 0.02267 +ARHGAP29 -1.526 3.675e-05 0.03547 +KIAA1755 -1.562 3.972e-05 0.0362 +LAMC3 -1.563 4.29e-05 0.03704 +ITM2A -1.398 4.972e-05 0.04078 +DTHD1 1.54 5.594e-05 0.04371 +RBMS1 -0.9139 6.688e-05 0.04988 +CEBPD -1.202 7.859e-05 0.05606 +DMBX1 -1.425 9.529e-05 0.06486 +PAPLN -1.253 9.883e-05 0.06486 +ADM -1.357 0.0001089 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0.01146 0.5896 +FREM2 -0.9473 0.01154 0.5914 +PDIA3P -0.3457 0.01185 0.5983 +GAS2L2 0.9302 0.01185 0.5983 +FERMT1 -0.9868 0.01187 0.5983 +SEC14L6 -0.9848 0.01193 0.5983 +CSPG5 0.6937 0.01186 0.5983 +C7orf41 0.3768 0.0119 0.5983 +MYBL1 -0.5962 0.01188 0.5983 +HJURP -0.8059 0.01202 0.6014 +SH3BP5L 0.2129 0.01241 0.6059 +DDN 0.7147 0.01244 0.6059 +RAB35 0.2403 0.0124 0.6059 +RBPMS2 -0.6679 0.01232 0.6059 +MYLK3 0.8447 0.01234 0.6059 +ZFYVE20 0.2118 0.01226 0.6059 +ACSL6 0.6116 0.01224 0.6059 +PCDHGB1 -0.8347 0.01224 0.6059 +SYNPO -0.9788 0.01241 0.6059 +ARHGAP17 -0.3736 0.01264 0.6065 +ETFB 0.505 0.01264 0.6065 +CRYBA4 -0.9657 0.01264 0.6065 +F2RL2 -0.9768 0.01251 0.6065 +STOM -0.743 0.01264 0.6065 +C15orf59 0.6647 0.01277 0.6072 +NCAN 0.5804 0.01274 0.6072 +GPC4 -0.7703 0.01277 0.6072 +DES -0.9714 0.01286 0.6096 +LEPREL2 -0.7969 0.01293 0.6112 +GRIN2A 0.6614 0.01302 0.6122 +FAM84B 0.6649 0.01301 0.6122 +CCND1 -0.5753 0.01313 0.6154 +SEPN1 -0.3657 0.01325 0.6177 +CGN -0.7533 0.01333 0.6177 +BAG5 0.2349 0.01328 0.6177 +WWC2 -0.4373 0.01333 0.6177 +ANO6 -0.5992 0.01349 0.6233 +FZD4 -0.8521 0.01357 0.6255 +DIAPH3 -0.7778 0.01367 0.6284 +RUNX1 -0.9599 0.01374 0.6298 +NTS 0.8462 0.01385 0.631 +TBC1D8B -0.9647 0.01381 0.631 +GP5 -0.9553 0.01392 0.6324 +ZNF547 0.5118 0.01398 0.6336 +B2M -0.7496 0.01412 0.6364 +GPANK1 0.3544 0.01412 0.6364 +MYCL1 0.564 0.01419 0.6377 +C15orf42 -0.7478 0.01427 0.6397 +PTP4A3 -0.6072 0.01435 0.6417 +TGFB1I1 -0.8773 0.01443 0.6434 +PTGDR2 -0.9554 0.0147 0.6467 +RARG -0.9358 0.01459 0.6467 +RAB34 -0.8674 0.01459 0.6467 +DSC2 -0.6871 0.0147 0.6467 +FZD5 -0.654 0.01478 0.6467 +KLHL18 0.249 0.01466 0.6467 +PCDHGB5 -0.956 0.01477 0.6467 +EFNA1 -0.7949 0.01488 0.6476 +KIAA0087 0.9528 0.01488 0.6476 +AURKA -0.652 0.01506 0.6535 +GAL3ST3 0.4134 0.01511 0.654 +WNT7A 0.7548 0.01515 0.6543 +C10orf105 0.8882 0.01528 0.6553 +TUBA1C -0.6215 0.01531 0.6553 +ADAMTS9 -0.8947 0.01534 0.6553 +PNMA2 0.4278 0.01524 0.6553 +MAN1C1 -0.5596 0.01579 0.6597 +CDC20 -0.7767 0.01562 0.6597 +PACSIN3 -0.8907 0.01553 0.6597 +PTHLH -0.9265 0.01572 0.6597 +DAZL -0.9135 0.01572 0.6597 +SRA1 0.3041 0.01559 0.6597 +ARPC1B -0.6737 0.0158 0.6597 +IMMP2L -0.4426 0.01559 0.6597 +ROR2 -0.9148 0.01578 0.6597 +PIEZO1 -0.7733 0.0159 0.6621 +SOCS3 -0.9404 0.01601 0.6634 +LOC150568 0.8026 0.01601 0.6634 +RASL12 -0.8837 0.01609 0.665 +SATL1 0.8447 0.01618 0.6671 +C1orf27 -0.3158 0.01624 0.6679 +TMEM198 0.4547 0.01647 0.6739 +MYOT -0.928 0.01645 0.6739 +PLAU -0.8276 0.01655 0.6749 +GPC6 -0.5345 0.01662 0.6749 +COPZ2 -0.9194 0.01661 0.6749 +MTHFR 0.2998 0.01729 0.6753 +PARD3 -0.3704 0.01726 0.6753 +PDIA3 -0.3509 0.01708 0.6753 +TPM1 -0.7177 0.01711 0.6753 +PRC1 -0.5474 0.01718 0.6753 +PLK1 -0.6854 0.01672 0.6753 +PIEZO2 -0.8503 0.01699 0.6753 +ZNF90 -0.7327 0.0169 0.6753 +GALP 0.8155 0.01693 0.6753 +LOC440905 -0.8935 0.01671 0.6753 +RFTN1 -0.8999 0.01677 0.6753 +TMEM196 0.7006 0.01701 0.6753 +NOD1 -0.5152 0.01707 0.6753 +GLI3 -0.8242 0.01696 0.6753 +WBSCR27 -0.9343 0.01718 0.6753 +C7orf34 0.9318 0.01721 0.6753 +FRRS1 -0.8998 0.01774 0.676 +FAM19A3 -0.8923 0.01788 0.676 +CNIH3 -0.4817 0.01784 0.676 +MDK -0.7156 0.01749 0.676 +GXYLT1 -0.6944 0.01783 0.676 +CTDSP2 -0.5123 0.01765 0.676 +SIX4 -0.8657 0.01784 0.676 +SLCO3A1 0.4415 0.01784 0.676 +PTBP1 -0.4376 0.0178 0.676 +ZNF324 0.3139 0.01754 0.676 +COLEC11 -0.9194 0.01776 0.676 +APOBEC3B -0.9292 0.01771 0.676 +MAGEF1 0.3826 0.01768 0.676 +SHROOM2 0.5668 0.01763 0.676 +KIAA1217 -0.7442 0.01871 0.69 +ST8SIA1 0.3806 0.01869 0.69 +LOC338758 0.6997 0.01834 0.69 +LOC283731 -0.4064 0.01872 0.69 +LYSMD4 0.4181 0.01859 0.69 +CYP1B1 -0.9248 0.01834 0.69 +PDGFRB -0.9184 0.01853 0.69 +FKBP5 -0.7347 0.01841 0.69 +AGBL3 0.5843 0.01861 0.69 +MNX1 0.921 0.01864 0.69 +PHKA2 -0.4551 0.01855 0.69 +CCBL2 -0.3365 0.01892 0.6925 +CLIC5 -0.9123 0.01883 0.6925 +WDR67 -0.3832 0.01887 0.6925 +SLC38A5 -0.7194 0.01895 0.6925 +KLF4 -0.8767 0.01907 0.6951 +HSD17B11 -0.6032 0.0192 0.6985 +SLC2A3 -0.5111 0.0193 0.7005 +CSDAP1 -0.7114 0.01946 0.7046 +SBNO2 -0.3452 0.01955 0.7064 +LRRC4C 0.5704 0.01962 0.7074 +ATL3 -0.5278 0.01975 0.7074 +C1S -0.9056 0.01966 0.7074 +PLAUR -0.8162 0.01974 0.7074 +LOC256021 0.6774 0.01988 0.709 +EID2B 0.4332 0.01987 0.709 +MTA3 -0.4227 0.02009 0.7151 +BSG -0.2869 0.02023 0.7167 +LAMP2 -0.2974 0.02022 0.7167 +ATHL1 -0.9069 0.02033 0.7179 +AHNAK -0.7987 0.02044 0.7179 +IGFBP5 -0.9055 0.02035 0.7179 +MBOAT1 -0.7067 0.02044 0.7179 +EGFR -0.6912 0.02048 0.7179 +FRAT1 0.4904 0.02073 0.7201 +TBX10 -0.9015 0.02084 0.7201 +KCNA6 0.4245 0.02068 0.7201 +MATN3 -0.8883 0.02079 0.7201 +LTBP1 -0.8212 0.02081 0.7201 +SCARF2 -0.7426 0.02064 0.7201 +BAI3 0.3512 0.02085 0.7201 +LOC654433 0.828 0.02096 0.7226 +GTSE1 -0.5797 0.02106 0.7229 +SCRG1 -0.9048 0.02106 0.7229 +AHCY -0.5073 0.02111 0.7231 +LRRTM3 0.609 0.02122 0.7239 +MYO1C -0.7078 0.02121 0.7239 +AKR1E2 0.7441 0.02134 0.7264 +PCDHGB4 -0.8844 0.02142 0.7277 +P2RX4 -0.3807 0.02159 0.7309 +LINC00574 0.7267 0.02161 0.7309 +BPI -0.8613 0.02171 0.7313 +ATP2B2 0.751 0.02167 0.7313 +CDCA2 -0.6352 0.0218 0.7328 +FGF8 -0.8835 0.02191 0.7338 +FAM198A -0.8977 0.02192 0.7338 +FMO2 -0.8029 0.0222 0.7401 +LOC642852 0.5471 0.02215 0.7401 +IGF2R -0.5322 0.02227 0.741 +TIGD3 0.6643 0.02236 0.7426 +GFPT2 -0.6006 0.02241 0.7429 +BCAS2 0.3073 0.02266 0.7431 +IQGAP3 -0.7145 0.02274 0.7431 +ZDHHC20 -0.3828 0.02266 0.7431 +ARID4A 0.2039 0.02278 0.7431 +SPHK1 -0.8455 0.02253 0.7431 +FAM110C -0.7952 0.02259 0.7431 +PXDN -0.7352 0.02275 0.7431 +THSD7B -0.5467 0.02268 0.7431 +PRUNE 0.2438 0.02292 0.7459 +ECE1 -0.7102 0.02311 0.7477 +CECR7 0.8781 0.02308 0.7477 +HTRA3 -0.8843 0.02303 0.7477 +WDR47 0.4054 0.0234 0.7537 +SLITRK5 0.4093 0.02345 0.7537 +AURKB -0.6811 0.02349 0.7537 +IGFBP4 -0.8858 0.02352 0.7537 +CDC25C -0.6363 0.02348 0.7537 +GPM6A 0.649 0.02357 0.7538 +BTBD19 -0.7584 0.02376 0.755 +GPR26 0.7615 0.02388 0.755 +SIAH3 0.7351 0.02393 0.755 +PLCB2 -0.8363 0.02385 0.755 +DNM1P35 0.6404 0.02389 0.755 +RRBP1 -0.8115 0.0238 0.755 +ACOT8 0.3293 0.02375 0.755 +OLFML2B -0.8708 0.02414 0.7572 +TROAP -0.7143 0.02411 0.7572 +WIPI1 -0.6362 0.02411 0.7572 +VOPP1 0.2574 0.02422 0.7584 +HES1 -0.5633 0.02436 0.7611 +FIBIN -0.8826 0.02444 0.7624 +KDELC2 -0.8298 0.02449 0.7625 +ERRFI1 -0.5181 0.02486 0.767 +ZNF26 0.2525 0.0249 0.767 +RAB20 -0.7225 0.02495 0.767 +CEP112 -0.5528 0.02496 0.767 +PDYN 0.8461 0.02487 0.767 +SEL1L3 -0.794 0.0249 0.767 +CENPE -0.581 0.02474 0.767 +LOC100505695 -0.8418 0.02506 0.7684 +ST3GAL6 0.3335 0.02515 0.7698 +PPPDE1 -0.3884 0.02552 0.7705 +CYFIP1 -0.4708 0.02549 0.7705 +SPAG5 -0.6341 0.02525 0.7705 +FSTL3 -0.3936 0.02544 0.7705 +DKKL1 -0.5961 0.02555 0.7705 +PLA2R1 -0.8383 0.02533 0.7705 +SH3RF2 -0.8594 0.02543 0.7705 +NEDD9 -0.5615 0.02537 0.7705 +LOC400940 0.7406 0.02573 0.7737 +NPR2 -0.6064 0.02575 0.7737 +CKS1B -0.6537 0.02617 0.778 +RNASEL 0.8586 0.02631 0.778 +KIAA1462 -0.8624 0.02641 0.778 +C10orf2 0.3805 0.02618 0.778 +PRKCDBP -0.8186 0.02624 0.778 +ZNF564 0.3025 0.02598 0.778 +LOC100506421 0.6526 0.02601 0.778 +SNED1 -0.8004 0.02611 0.778 +SGMS2 -0.8683 0.02638 0.778 +TMEM151B 0.4716 0.02635 0.778 +LOC100507341 0.6623 0.02622 0.778 +KIF2C -0.6374 0.02666 0.7837 +PRX -0.6445 0.02676 0.7854 +LOXL4 -0.8597 0.02686 0.7864 +STXBP6 0.6668 0.02689 0.7864 +FAM13A -0.4611 0.02712 0.7917 +IFITM10 0.6685 0.02744 0.7925 +CBFB -0.3576 0.02735 0.7925 +DKFZp566F0947 -0.8205 0.02736 0.7925 +MAGI2 0.4314 0.02741 0.7925 +NIPAL2 -0.7441 0.0274 0.7925 +GPRASP2 0.4453 0.02732 0.7925 +DPH3P1 -0.5664 0.02774 0.7999 +C1orf54 -0.5484 0.02801 0.8025 +LIG4 0.3168 0.02811 0.8025 +GREM1 -0.8574 0.02807 0.8025 +TPM4 -0.6659 0.028 0.8025 +OSBPL10 -0.7943 0.02789 0.8025 +HPS3 -0.3542 0.02812 0.8025 +ANP32B -0.4906 0.02825 0.8047 +FAM176B -0.6818 0.02966 0.8067 +HPCAL4 0.5034 0.02927 0.8067 +LEPRE1 -0.7027 0.03137 0.8067 +MCOLN3 -0.7816 0.02861 0.8067 +GBP3 -0.8426 0.03082 0.8067 +SELENBP1 -0.7428 0.03013 0.8067 +LMNA -0.499 0.03161 0.8067 +KCNJ9 0.7358 0.02904 0.8067 +CENPL -0.3831 0.02874 0.8067 +KIF14 -0.6281 0.0329 0.8067 +EIF2D -0.4348 0.02953 0.8067 +CAPN2 -0.3726 0.02973 0.8067 +RGR 0.8449 0.03118 0.8067 +EFCAB4A -0.6655 0.03031 0.8067 +TPP1 -0.3513 0.03121 0.8067 +MICAL2 -0.85 0.02966 0.8067 +C11orf94 0.8245 0.03271 0.8067 +NADSYN1 -0.3401 0.03253 0.8067 +FOXM1 -0.5518 0.02937 0.8067 +SLC38A1 0.3146 0.03036 0.8067 +ANKS1B 0.6226 0.03231 0.8067 +GJB6 -0.7271 0.03074 0.8067 +ANG -0.7201 0.02984 0.8067 +DLGAP5 -0.6065 0.03271 0.8067 +FAM161B 0.3957 0.02968 0.8067 +SERPINA5 -0.831 0.03008 0.8067 +RASGRP1 -0.4108 0.02946 0.8067 +THBS1 -0.85 0.0302 0.8067 +ST8SIA2 0.4492 0.03147 0.8067 +RPS2 -0.4238 0.03074 0.8067 +ITPRIPL2 -0.854 0.02869 0.8067 +NFATC3 -0.4057 0.02928 0.8067 +PLD2 -0.669 0.03252 0.8067 +SMCR7 0.3445 0.02996 0.8067 +SMARCD2 -0.6611 0.03159 0.8067 +TUBB6 -0.7194 0.0311 0.8067 +DSG2 -0.6812 0.03226 0.8067 +ACAA2 -0.446 0.0318 0.8067 +GADD45B -0.8334 0.0328 0.8067 +CELF5 0.4393 0.03193 0.8067 +TMEM221 -0.7671 0.03202 0.8067 +WDR62 -0.5769 0.02965 0.8067 +ZNF570 0.2708 0.02949 0.8067 +SPRED3 0.6054 0.03154 0.8067 +RPL13A -0.6422 0.03157 0.8067 +BCL2L12 -0.4817 0.02883 0.8067 +CENPA -0.6156 0.03213 0.8067 +MTHFD2 -0.7685 0.03077 0.8067 +FAM176A -0.8313 0.03045 0.8067 +GCFC2 -0.344 0.02982 0.8067 +CAPG -0.8383 0.0296 0.8067 +EDAR -0.846 0.03099 0.8067 +BUB1 -0.5945 0.02946 0.8067 +ZRANB3 -0.5034 0.03047 0.8067 +SLC4A10 0.725 0.03287 0.8067 +WIPF1 -0.555 0.02846 0.8067 +CCDC141 -0.8347 0.02951 0.8067 +CCDC150 -0.5535 0.03183 0.8067 +ASXL1 -0.4027 0.03086 0.8067 +SS18L1 0.3675 0.03085 0.8067 +C22orf29 0.2474 0.03243 0.8067 +SMCR7L 0.1929 0.03016 0.8067 +GRIP2 0.8047 0.03072 0.8067 +GPR62 0.808 0.03283 0.8067 +MITF -0.7604 0.03019 0.8067 +FDCSP -0.8326 0.03137 0.8067 +ANXA2P1 -0.6149 0.0322 0.8067 +LHFPL2 -0.7202 0.03111 0.8067 +ERAP1 -0.4938 0.03164 0.8067 +MXD3 -0.6781 0.02998 0.8067 +TEAD3 -0.7435 0.02893 0.8067 +SP4 0.3326 0.03284 0.8067 +TRIL -0.7788 0.0308 0.8067 +STK17A -0.3401 0.02899 0.8067 +RARRES2 -0.844 0.02997 0.8067 +CHMP7 0.283 0.03105 0.8067 +ZNF703 -0.6856 0.03162 0.8067 +ST18 0.5283 0.03123 0.8067 +LOC100132891 -0.7824 0.03111 0.8067 +C8orf84 -0.7652 0.03183 0.8067 +ZFHX4 0.4288 0.03044 0.8067 +GDF6 -0.8041 0.03241 0.8067 +RANBP6 0.3012 0.03171 0.8067 +FAM189A2 -0.8114 0.0328 0.8067 +TNC -0.8197 0.03225 0.8067 +ZBTB6 0.3295 0.02968 0.8067 +RPL12 -0.5342 0.02943 0.8067 +GBGT1 -0.8343 0.03067 0.8067 +ARHGAP6 -0.8167 0.03244 0.8067 +SHROOM4 -0.645 0.03263 0.8067 +HDX 0.4208 0.03269 0.8067 +COL4A5 -0.7708 0.03259 0.8067 +GAB3 -0.7788 0.03107 0.8067 +B3GALNT2 -0.5213 0.03322 0.809 +ZNF142 0.2381 0.03314 0.809 +HEXB -0.4081 0.03323 0.809 +PPP1R3G -0.8344 0.03314 0.809 +MDFIC -0.6575 0.03324 0.809 +RXFP3 0.832 0.03336 0.8098 +PTTG3P -0.6051 0.03333 0.8098 +C1orf133 -0.7152 0.03375 0.8176 +TP53I13 -0.422 0.03379 0.8176 +SLC44A3 -0.7081 0.03438 0.8264 +C1orf115 -0.6315 0.03446 0.8264 +ANO4 -0.7486 0.03437 0.8264 +FNIP2 0.2913 0.03444 0.8264 +CRHBP -0.8231 0.03437 0.8264 +KIAA0368 -0.3228 0.0344 0.8264 +PLCE1 -0.7467 0.03491 0.8277 +PARPBP -0.5436 0.0348 0.8277 +FRMD6 -0.7527 0.03488 0.8277 +LIN7B 0.5171 0.03464 0.8277 +COL4A3BP -0.5851 0.03462 0.8277 +SCML4 0.7487 0.03473 0.8277 +ZNF815 0.3814 0.03489 0.8277 +DIRAS2 0.4271 0.03474 0.8277 +SULT1A1 -0.7929 0.03504 0.8292 +ADAMTS9-AS2 -0.7074 0.03508 0.8292 +CHTOP 0.2474 0.03521 0.8311 +DKK2 -0.8042 0.03534 0.8331 +HIST1H1D -0.8219 0.03541 0.8335 +CDK1 -0.5524 0.03609 0.8345 +SHISA2 -0.8216 0.03606 0.8345 +GJD2 0.6358 0.03608 0.8345 +CCNB2 -0.6054 0.0358 0.8345 +OMG 0.805 0.03565 0.8345 +MYL4 -0.7755 0.03625 0.8345 +LOC100131096 -0.7581 0.03632 0.8345 +HSPB6 -0.8208 0.03557 0.8345 +STEAP3 -0.5503 0.0359 0.8345 +OSGEPL1 0.2775 0.03631 0.8345 +APOL4 -0.8187 0.03588 0.8345 +BAP1 0.1786 0.03614 0.8345 +PHLDB2 -0.8077 0.03626 0.8345 +NAP1L5 0.4839 0.03554 0.8345 +CFI -0.7104 0.0361 0.8345 +SORBS3 -0.6631 0.03587 0.8345 +TOP1MT -0.4407 0.03585 0.8345 +OPLAH -0.4763 0.03653 0.8383 +ASAP3 -0.2714 0.03787 0.8394 +TSG101 0.2283 0.03752 0.8394 +CPT1A 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0.9251 +PRR7 0.1904 0.06493 0.9251 +LOC729678 0.6278 0.06551 0.9251 +HIST1H3J -0.6119 0.06763 0.9251 +ZBTB22 0.2669 0.06404 0.9251 +KIFC1 -0.549 0.06264 0.9251 +TBP 0.2407 0.0661 0.9251 +PMS2CL 0.3408 0.06648 0.9251 +FKBP14 -0.6002 0.06604 0.9251 +FKBP9 -0.4174 0.06186 0.9251 +GRM3 0.6129 0.06304 0.9251 +EPHB4 -0.6453 0.06787 0.9251 +LRRN3 0.5473 0.068 0.9251 +KIAA1147 0.257 0.06708 0.9251 +FAM115A 0.2185 0.06468 0.9251 +PDIA4 -0.4169 0.06375 0.9251 +ZNF775 0.2417 0.06198 0.9251 +FAM110B 0.2576 0.0615 0.9251 +DMRT3 0.7178 0.06674 0.9251 +CDKN2B -0.7039 0.06592 0.9251 +TSTD2 0.2954 0.06597 0.9251 +PTGES -0.7016 0.06267 0.9251 +FIBCD1 -0.6829 0.06516 0.9251 +STARD8 -0.7074 0.06244 0.9251 +KLHL4 -0.6903 0.0657 0.9251 +SH2D1A -0.6782 0.06569 0.9251 +HLX -0.6728 0.06837 0.927 +FOSB -0.6318 0.06832 0.927 +AKR1C3 -0.7137 0.06854 0.9278 +NFE2L2 -0.3512 0.06853 0.9278 +TRIP10 -0.5324 0.06872 0.9279 +ZNF14 0.3806 0.06869 0.9279 +DAB2 -0.5142 0.06862 0.9279 +CCNE1 -0.4662 0.06905 0.9309 +CRTAP 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0.9322 +CABLES2 0.1954 0.07108 0.9322 +PALMD -0.7062 0.07154 0.933 +ARHGAP30 0.4733 0.07142 0.933 +SLC6A12 -0.6354 0.0716 0.933 +FBXL8 -0.669 0.0716 0.933 +MPP4 -0.6609 0.07149 0.933 +FAM169A 0.2892 0.07155 0.933 +POPDC3 -0.6543 0.07148 0.933 +PRKDC -0.3408 0.07144 0.933 +MTCP1NB -0.3672 0.07166 0.9331 +KLHL35 0.547 0.07195 0.9361 +LOC388630 -0.6851 0.07216 0.9373 +TERF2 0.2403 0.07216 0.9373 +PDIK1L 0.3225 0.07438 0.9393 +CDKN2C -0.5881 0.07417 0.9393 +STAM 0.2146 0.07258 0.9393 +CEP55 -0.5626 0.07374 0.9393 +OAT -0.3282 0.07472 0.9393 +DPYSL4 0.3403 0.07368 0.9393 +INCENP -0.4533 0.07294 0.9393 +FLJ39051 0.4429 0.07465 0.9393 +TNFRSF1A -0.5017 0.07441 0.9393 +EMP1 -0.6983 0.07371 0.9393 +LRRK2 -0.638 0.07436 0.9393 +HMGA2 -0.6418 0.07437 0.9393 +PAWR -0.4633 0.07481 0.9393 +KDELC1 -0.4797 0.07463 0.9393 +STOML1 0.44 0.073 0.9393 +CPLX3 0.5793 0.07442 0.9393 +IQGAP1 -0.5202 0.07443 0.9393 +UNC45A -0.399 0.07369 0.9393 +QPRT -0.459 0.07395 0.9393 +FHOD1 -0.5817 0.07342 0.9393 +PMFBP1 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-0.6824 0.07589 0.9417 +WDR37 0.2218 0.076 0.9417 +NPFFR1 0.6156 0.07579 0.9417 +GIPC3 -0.696 0.07581 0.9417 +ERBB4 0.5386 0.07567 0.9417 +GHR -0.6939 0.07599 0.9417 +VWDE -0.6838 0.07595 0.9417 +RPS4X -0.5797 0.0761 0.9423 +CDK2AP2 -0.3551 0.07631 0.9432 +LOC146336 0.693 0.07658 0.9432 +UBE2C -0.6278 0.07624 0.9432 +C22orf39 0.2448 0.07654 0.9432 +MFSD7 -0.6817 0.07645 0.9432 +CANX -0.2312 0.07664 0.9432 +VIPR2 0.6908 0.07663 0.9432 +PPP1R3B -0.5682 0.07643 0.9432 +TMEM229B 0.5479 0.0767 0.9433 +PCDH17 0.2916 0.07683 0.9434 +HOXA10 -0.6931 0.0768 0.9434 +SYT12 0.5719 0.077 0.9434 +FLJ44054 -0.6519 0.07698 0.9434 +BASP1 0.4201 0.07695 0.9434 +NCAPH2 0.2371 0.07719 0.9445 +PLA1A -0.5791 0.07721 0.9445 +EGFLAM -0.6643 0.07726 0.9445 +CD151 -0.3897 0.0774 0.9449 +STX11 -0.677 0.07738 0.9449 +APRT -0.3698 0.07756 0.9456 +PTPN2 -0.342 0.07763 0.9456 +PRRT4 0.5432 0.07763 0.9456 +ARRDC2 -0.5913 0.0778 0.9469 +POLD4 -0.613 0.07788 0.9471 +LDLRAP1 -0.6823 0.07828 0.9475 +SYDE2 -0.558 0.07807 0.9475 +TP53BP2 -0.3194 0.07848 0.9475 +ADAM12 -0.5572 0.07815 0.9475 +GAL3ST2 0.6873 0.07821 0.9475 +CTNND2 0.2648 0.07819 0.9475 +TSPAN13 0.4076 0.0783 0.9475 +RPS2P32 0.6489 0.0784 0.9475 +SLC26A7 -0.6902 0.07843 0.9475 +C9orf7 0.2083 0.07848 0.9475 +CDCA8 -0.5135 0.0788 0.9479 +MKNK1 -0.2483 0.07956 0.9479 +TOMM40L 0.3821 0.0791 0.9479 +PTGS2 -0.6878 0.07897 0.9479 +DNAJC1 -0.4755 0.07904 0.9479 +TLL2 0.5684 0.07932 0.9479 +PSD 0.5206 0.07953 0.9479 +LIMA1 -0.4947 0.07919 0.9479 +RBMS2 -0.4759 0.07932 0.9479 +CKAP4 -0.3698 0.07866 0.9479 +EEF1DP3 0.6545 0.07897 0.9479 +TAX1BP3 -0.4054 0.07874 0.9479 +LOC653653 -0.4477 0.0791 0.9479 +ZNF512 0.2908 0.07935 0.9479 +SNHG11 0.2322 0.07955 0.9479 +CDH22 0.6411 0.07954 0.9479 +PTK7 -0.5221 0.07951 0.9479 +ZP3 -0.6679 0.07931 0.9479 +TMEM53 0.3107 0.08059 0.9479 +LRRC7 0.3219 0.08033 0.9479 +GSTM2 -0.5028 0.08061 0.9479 +CASP7 -0.4341 0.08068 0.9479 +PPFIBP2 -0.6376 0.08024 0.9479 +THAP2 0.2884 0.07976 0.9479 +HSP90AB4P -0.6784 0.08068 0.9479 +DET1 0.2051 0.08049 0.9479 +CYLD 0.319 0.08012 0.9479 +BCL3 -0.6233 0.0806 0.9479 +VWC2L 0.6372 0.07974 0.9479 +RNF25 0.1676 0.08019 0.9479 +CNTN4 0.504 0.07976 0.9479 +CISH -0.5241 0.08075 0.9479 +HADH -0.4319 0.08056 0.9479 +PCDHB11 0.4955 0.07996 0.9479 +GSR -0.1539 0.08022 0.9479 +GAS1 -0.6786 0.08036 0.9479 +RALGPS1 0.3386 0.08055 0.9479 +ASS1 -0.5933 0.07979 0.9479 +MAGT1 -0.483 0.08078 0.9479 +FOXRED1 0.2663 0.08087 0.9484 +APOBEC3F -0.6398 0.08099 0.9486 +PNMA6C 0.6833 0.08101 0.9486 +NYNRIN -0.5606 0.08159 0.9534 +PAFAH1B1 0.2687 0.08149 0.9534 +HLA-DPB1 -0.6257 0.08158 0.9534 +ACADL -0.6423 0.08166 0.9535 +TMCO4 -0.68 0.08216 0.9575 +STX12 0.2526 0.08372 0.9575 +LPPR5 0.4957 0.08319 0.9575 +SLC16A1 -0.3904 0.08384 0.9575 +HIST2H2AC -0.6177 0.08331 0.9575 +UNC5B -0.655 0.08316 0.9575 +DLG2 0.4321 0.08343 0.9575 +EPS8 -0.5223 0.0829 0.9575 +TMED10 -0.2748 0.08272 0.9575 +ZNF668 0.2764 0.08363 0.9575 +CDH5 -0.6796 0.08264 0.9575 +SERPINF2 -0.6734 0.08263 0.9575 +CCL2 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