view test-data/test_out/rank_pathways/rank_pathways.tabular @ 28:184d14e4270d

Update to Miller Lab devshed revision 4ede22dd5500

3	0.25	1	cfa03450=Non-homologous end-joining
1	0.25	1	cfa00750=Vitamin B6 metabolism
2	0.2	3	cfa00290=Valine, leucine and isoleucine biosynthesis
3	0.18	4	cfa00770=Pantothenate and CoA biosynthesis
5	0.17	5	cfa05310=Asthma
4	0.16	6	cfa00760=Nicotinate and nicotinamide metabolism
2	0.12	7	cfa00450=Selenocompound metabolism
4	0.11	8	cfa05330=Allograft rejection
5	0.098	9	cfa04672=Intestinal immune network for IgA production
4	0.098	9	cfa02010=ABC transporters
2	0.095	11	cfa03430=Mismatch repair
4	0.089	12	cfa05320=Autoimmune thyroid disease
4	0.089	12	cfa00280=Valine, leucine and isoleucine degradation
3	0.088	14	cfa03410=Base excision repair
3	0.088	14	cfa03030=DNA replication
3	0.088	14	cfa00565=Ether lipid metabolism
6	0.087	17	cfa05140=Leishmaniasis
2	0.087	17	cfa04977=Vitamin digestion and absorption
1	0.083	19	cfa00740=Riboflavin metabolism
4	0.08	20	cfa05150=Staphylococcus aureus infection
2	0.08	20	cfa03060=Protein export
3	0.079	22	cfa05340=Primary immunodeficiency
3	0.079	22	cfa05143=African trypanosomiasis
6	0.078	24	cfa00564=Glycerophospholipid metabolism
2	0.077	25	cfa00410=beta-Alanine metabolism
2	0.071	26	cfa05332=Graft-versus-host disease
5	0.069	27	cfa03320=PPAR signaling pathway
6	0.066	28	cfa05323=Rheumatoid arthritis
5	0.063	29	cfa04664=Fc epsilon RI signaling pathway
3	0.062	30	cfa00561=Glycerolipid metabolism
2	0.062	30	cfa00350=Tyrosine metabolism
2	0.062	30	cfa00020=Citrate cycle (TCA cycle)
2	0.059	33	cfa00260=Glycine, serine and threonine metabolism
1	0.059	33	cfa04614=Renin-angiotensin system
1	0.059	33	cfa00360=Phenylalanine metabolism
9	0.058	36	cfa04145=Phagosome
3	0.058	36	cfa05213=Endometrial cancer
4	0.057	38	cfa05416=Viral myocarditis
2	0.057	38	cfa00500=Starch and sucrose metabolism
2	0.056	40	cfa04130=SNARE interactions in vesicular transport
1	0.056	40	cfa00592=alpha-Linolenic acid metabolism
1	0.053	42	cfa04964=Proximal tubule bicarbonate reclamation
1	0.053	42	cfa00630=Glyoxylate and dicarboxylate metabolism
3	0.052	44	cfa04621=NOD-like receptor signaling pathway
2	0.05	45	cfa05219=Bladder cancer
2	0.05	45	cfa04940=Type I diabetes mellitus
2	0.05	45	cfa00380=Tryptophan metabolism
2	0.047	48	cfa03420=Nucleotide excision repair
3	0.045	49	cfa04920=Adipocytokine signaling pathway
3	0.045	49	cfa00970=Aminoacyl-tRNA biosynthesis
2	0.045	49	cfa00071=Fatty acid metabolism
1	0.045	49	cfa00591=Linoleic acid metabolism
1	0.045	49	cfa00340=Histidine metabolism
4	0.043	54	cfa04972=Pancreatic secretion
2	0.043	54	cfa03022=Basal transcription factors
2	0.043	54	cfa00982=Drug metabolism - cytochrome P450
3	0.042	57	cfa05218=Melanoma
3	0.042	57	cfa05211=Renal cell carcinoma
4	0.041	59	cfa05414=Dilated cardiomyopathy
2	0.04	60	cfa00590=Arachidonic acid metabolism
1	0.04	60	cfa04320=Dorso-ventral axis formation
3	0.039	62	cfa04662=B cell receptor signaling pathway
2	0.039	62	cfa00310=Lysine degradation
3	0.038	64	cfa04512=ECM-receptor interaction
2	0.038	64	cfa05144=Malaria
2	0.038	64	cfa00270=Cysteine and methionine metabolism
1	0.038	64	cfa03440=Homologous recombination
1	0.038	64	cfa00052=Galactose metabolism
8	0.037	69	cfa04810=Regulation of actin cytoskeleton
4	0.037	69	cfa05146=Amoebiasis
4	0.037	69	cfa04666=Fc gamma R-mediated phagocytosis
2	0.037	69	cfa05223=Non-small cell lung cancer
6	0.036	73	cfa05168=Herpes simplex infection
6	0.036	73	cfa05152=Tuberculosis
3	0.036	73	cfa04640=Hematopoietic cell lineage
7	0.034	76	cfa04510=Focal adhesion
3	0.034	76	cfa00240=Pyrimidine metabolism
3	0.033	78	cfa03008=Ribosome biogenesis in eukaryotes
1	0.033	78	cfa00983=Drug metabolism - other enzymes
2	0.032	80	cfa04976=Bile secretion
6	0.031	81	cfa04060=Cytokine-cytokine receptor interaction
4	0.031	81	cfa04110=Cell cycle
1	0.031	81	cfa00250=Alanine, aspartate and glutamate metabolism
4	0.029	84	cfa05145=Toxoplasmosis
3	0.029	84	cfa04650=Natural killer cell mediated cytotoxicity
2	0.029	84	cfa05214=Glioma
4	0.028	87	cfa05162=Measles
2	0.028	87	cfa05412=Arrhythmogenic right ventricular cardiomyopathy (ARVC)
7	0.027	89	cfa05166=HTLV-I infection
4	0.027	89	cfa05322=Systemic lupus erythematosus
2	0.027	89	cfa05212=Pancreatic cancer
2	0.026	92	cfa04146=Peroxisome
2	0.026	92	cfa04070=Phosphatidylinositol signaling system
1	0.026	92	cfa04978=Mineral absorption
2	0.025	95	cfa05133=Pertussis
2	0.025	95	cfa04612=Antigen processing and presentation
2	0.025	95	cfa04350=TGF-beta signaling pathway
1	0.025	95	cfa00830=Retinol metabolism
3	0.024	99	cfa04514=Cell adhesion molecules (CAMs)
2	0.024	99	cfa05410=Hypertrophic cardiomyopathy (HCM)
2	0.024	99	cfa04012=ErbB signaling pathway
1	0.024	99	cfa00980=Metabolism of xenobiotics by cytochrome P450
1	0.024	99	cfa00640=Propanoate metabolism
3	0.023	104	cfa04360=Axon guidance
2	0.023	104	cfa04620=Toll-like receptor signaling pathway
1	0.023	104	cfa04975=Fat digestion and absorption
1	0.023	104	cfa04330=Notch signaling pathway
7	0.022	108	cfa05200=Pathways in cancer
3	0.022	108	cfa04910=Insulin signaling pathway
2	0.022	108	cfa05215=Prostate cancer
1	0.022	108	cfa03460=Fanconi anemia pathway
24	0.021	112	cfa01100=Metabolic pathways
3	0.021	112	cfa04630=Jak-STAT signaling pathway
1	0.021	112	cfa00480=Glutathione metabolism
3	0.020	115	cfa00230=Purine metabolism
2	0.020	115	cfa04540=Gap junction
1	0.02	115	cfa00620=Pyruvate metabolism
2	0.019	118	cfa04912=GnRH signaling pathway
2	0.018	119	cfa05142=Chagas disease (American trypanosomiasis)
2	0.018	119	cfa04380=Osteoclast differentiation
1	0.018	119	cfa05221=Acute myeloid leukemia
1	0.018	119	cfa00330=Arginine and proline metabolism
3	0.017	123	cfa05164=Influenza A
2	0.017	123	cfa04270=Vascular smooth muscle contraction
2	0.017	123	cfa04114=Oocyte meiosis
3	0.016	126	cfa04141=Protein processing in endoplasmic reticulum
3	0.016	126	cfa04020=Calcium signaling pathway
2	0.016	126	cfa05160=Hepatitis C
2	0.016	126	cfa04670=Leukocyte transendothelial migration
1	0.016	126	cfa05210=Colorectal cancer
1	0.016	126	cfa04610=Complement and coagulation cascades
1	0.016	126	cfa04150=mTOR signaling pathway
4	0.015	133	cfa04010=MAPK signaling pathway
1	0.015	133	cfa04974=Protein digestion and absorption
1	0.015	133	cfa04730=Long-term depression
1	0.015	133	cfa04115=p53 signaling pathway
1	0.014	137	cfa05220=Chronic myeloid leukemia
1	0.014	137	cfa04971=Gastric acid secretion
1	0.014	137	cfa04720=Long-term potentiation
1	0.014	137	cfa04370=VEGF signaling pathway
1	0.014	137	cfa04260=Cardiac muscle contraction
1	0.014	137	cfa03018=RNA degradation
2	0.013	143	cfa00010=Glycolysis / Gluconeogenesis
1	0.013	143	cfa04970=Salivary secretion
1	0.013	143	cfa04520=Adherens junction
2	0.012	146	cfa04062=Chemokine signaling pathway
1	0.012	146	cfa05134=Legionellosis
1	0.012	146	cfa05132=Salmonella infection
1	0.012	146	cfa04727=GABAergic synapse
1	0.012	146	cfa04210=Apoptosis
1	0.011	151	cfa03015=mRNA surveillance pathway
1	0.010	152	cfa04914=Progesterone-mediated oocyte maturation
1	0.0098	153	cfa04916=Melanogenesis
2	0.0095	154	cfa04144=Endocytosis
1	0.0087	155	cfa04142=Lysosome
1	0.0086	156	cfa04660=T cell receptor signaling pathway
1	0.0082	157	cfa04724=Glutamatergic synapse
2	0.0081	158	cfa04080=Neuroactive ligand-receptor interaction
1	0.0079	159	cfa04728=Dopaminergic synapse
2	0.0074	160	cfa05010=Alzheimer's disease
1	0.0074	160	cfa04722=Neurotrophin signaling pathway
1	0.0074	160	cfa04120=Ubiquitin mediated proteolysis
1	0.0068	163	cfa00190=Oxidative phosphorylation
1	0.0067	164	cfa05012=Parkinson's disease
1	0.0057	165	cfa03013=RNA transport
1	0.0056	166	cfa03040=Spliceosome
1	0.0049	167	cfa05016=Huntington's disease
1	0.0023	168	cfa04740=Olfactory transduction
0	0	169	cfa05222=Small cell lung cancer
0	0	169	cfa05217=Basal cell carcinoma
0	0	169	cfa05216=Thyroid cancer
0	0	169	cfa05100=Bacterial invasion of epithelial cells
0	0	169	cfa05020=Prion diseases
0	0	169	cfa05014=Amyotrophic lateral sclerosis (ALS)
0	0	169	cfa04973=Carbohydrate digestion and absorption
0	0	169	cfa04966=Collecting duct acid secretion
0	0	169	cfa04962=Vasopressin-regulated water reabsorption
0	0	169	cfa04961=Endocrine and other factor-regulated calcium reabsorption
0	0	169	cfa04960=Aldosterone-regulated sodium reabsorption
0	0	169	cfa04950=Maturity onset diabetes of the young
0	0	169	cfa04930=Type II diabetes mellitus
0	0	169	cfa04744=Phototransduction
0	0	169	cfa04742=Taste transduction
0	0	169	cfa04725=Cholinergic synapse
0	0	169	cfa04721=Synaptic vesicle cycle
0	0	169	cfa04710=Circadian rhythm - mammal
0	0	169	cfa04623=Cytosolic DNA-sensing pathway
0	0	169	cfa04622=RIG-I-like receptor signaling pathway
0	0	169	cfa04530=Tight junction
0	0	169	cfa04340=Hedgehog signaling pathway
0	0	169	cfa04310=Wnt signaling pathway
0	0	169	cfa04140=Regulation of autophagy
0	0	169	cfa04122=Sulfur relay system
0	0	169	cfa03050=Proteasome
0	0	169	cfa03020=RNA polymerase
0	0	169	cfa03010=Ribosome
0	0	169	cfa01040=Biosynthesis of unsaturated fatty acids
0	0	169	cfa00920=Sulfur metabolism
0	0	169	cfa00910=Nitrogen metabolism
0	0	169	cfa00900=Terpenoid backbone biosynthesis
0	0	169	cfa00860=Porphyrin and chlorophyll metabolism
0	0	169	cfa00790=Folate biosynthesis
0	0	169	cfa00785=Lipoic acid metabolism
0	0	169	cfa00780=Biotin metabolism
0	0	169	cfa00730=Thiamine metabolism
0	0	169	cfa00670=One carbon pool by folate
0	0	169	cfa00650=Butanoate metabolism
0	0	169	cfa00604=Glycosphingolipid biosynthesis - ganglio series
0	0	169	cfa00603=Glycosphingolipid biosynthesis - globo series
0	0	169	cfa00601=Glycosphingolipid biosynthesis - lacto and neolacto series
0	0	169	cfa00600=Sphingolipid metabolism
0	0	169	cfa00563=Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
0	0	169	cfa00562=Inositol phosphate metabolism
0	0	169	cfa00534=Glycosaminoglycan biosynthesis - heparan sulfate
0	0	169	cfa00533=Glycosaminoglycan biosynthesis - keratan sulfate
0	0	169	cfa00532=Glycosaminoglycan biosynthesis - chondroitin sulfate
0	0	169	cfa00531=Glycosaminoglycan degradation
0	0	169	cfa00520=Amino sugar and nucleotide sugar metabolism
0	0	169	cfa00514=Other types of O-glycan biosynthesis
0	0	169	cfa00512=Mucin type O-Glycan biosynthesis
0	0	169	cfa00511=Other glycan degradation
0	0	169	cfa00510=N-Glycan biosynthesis
0	0	169	cfa00472=D-Arginine and D-ornithine metabolism
0	0	169	cfa00471=D-Glutamine and D-glutamate metabolism
0	0	169	cfa00460=Cyanoamino acid metabolism
0	0	169	cfa00430=Taurine and hypotaurine metabolism
0	0	169	cfa00400=Phenylalanine, tyrosine and tryptophan biosynthesis
0	0	169	cfa00300=Lysine biosynthesis
0	0	169	cfa00232=Caffeine metabolism
0	0	169	cfa00140=Steroid hormone biosynthesis
0	0	169	cfa00130=Ubiquinone and other terpenoid-quinone biosynthesis
0	0	169	cfa00120=Primary bile acid biosynthesis
0	0	169	cfa00100=Steroid biosynthesis
0	0	169	cfa00072=Synthesis and degradation of ketone bodies
0	0	169	cfa00062=Fatty acid elongation in mitochondria
0	0	169	cfa00061=Fatty acid biosynthesis
0	0	169	cfa00053=Ascorbate and aldarate metabolism
0	0	169	cfa00051=Fructose and mannose metabolism
0	0	169	cfa00040=Pentose and glucuronate interconversions
0	0	169	cfa00030=Pentose phosphate pathway