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Commit 11bdc035 authored by Laura Masa's avatar Laura Masa
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id name
WP2431 Spinal cord injury
WP4628 Aerobic glycolysis - augmented
WP5382 TGFB / Smad signaling
WP5428 FGFR4 p.G388R signaling
WP5431 FLT3 p.Gln640SerfsTer8 signaling
WP306 Focal adhesion
WP5115 Network map of SARS-CoV-2 signaling
WP5472 Phosphoinositide 3-kinase (PI3K) family
WP5473 Cytokine-cytokine receptor interaction
WP673 ErbB signaling
WP1533 Vitamin B12 metabolism
WP288 Nod-like receptor (NLR) signaling
WP3658 Wnt/beta-catenin signaling in leukemia
WP382 MAPK signaling
WP3929 Chemokine signaling
WP5353 Macrophage-stimulating protein (MSP) signaling
WP195 IL1 signaling
WP2355 Corticotropin-releasing hormone signaling
WP5158 Urotensin-II-mediated signaling
WP5347 IL26 signaling
WP5422 IL19 signaling
WP138 Androgen receptor signaling
WP4136 Fibrin complement receptor 3 signaling
WP4666 Hepatitis B infection
WP4856 Intracellular trafficking proteins involved in CMT neuropathy
WP5198 Inflammatory bowel disease signaling
WP5333 Enterocyte cholesterol metabolism
WP5372 Involvement of δ-secretase in neurodegenerative diseases
WP4172 PI3K-Akt signaling
WP61 Notch signaling
WP2112 IL17 signaling
WP23 B cell receptor signaling
WP244 Alpha 6 beta 4 signaling
WP304 Kit receptor signaling
WP3893 Development and heterogeneity of the ILC family
WP2037 Prolactin signaling
WP2380 Brain-derived neurotrophic factor (BDNF) signaling
WP2516 ATM signaling
WP34 Ovarian infertility
WP4747 Netrin-UNC5B signaling
WP4754 IL18 signaling
WP5144 NRP1-triggered signaling in pancreatic cancer
WP5304 Cholesterol metabolism
WP1425 Bone morphogenic protein signaling and regulation
WP15 Selenium micronutrient network
WP1602 Nicotine effect on dopaminergic neurons
WP241 One-carbon metabolism
WP2453 TCA cycle and deficiency of pyruvate dehydrogenase complex (PDHc)
WP24 Peptide GPCRs
WP2583 T cell receptor and co-stimulatory signaling
WP2643 Nanoparticle-mediated activation of receptor signaling
WP2942 DDX1 as a regulatory component of the Drosha microprocessor
WP3656 Interleukin-1 induced activation of NF-kB
WP3933 Kennedy pathway from sphingolipids
WP4204 Tumor suppressor activity of SMARCB1
WP428 Wnt signaling
WP4316 miRNA degrading enzymes
WP4484 Control of immune tolerance by vasoactive intestinal peptide
WP4718 Cholesterol metabolism with Bloch and Kandutsch-Russell pathways
WP4720 Eicosanoid metabolism via cytochrome P450 monooxygenases pathway
WP4815 Glycosaminoglycan degradation
WP4830 GDNF/RET signaling axis
WP4946 DNA repair pathways, full network
WP5152 Iron-sulfur cluster biogenesis
WP5219 Diet-dependent trimethylamine/trimethylamine N-oxide metabolism
WP5311 Isoglobo series sphingolipids
WP5313 Carnosine metabolism of glial cells
WP5320 Male steroid hormones in cardiomyocyte energy metabolism
WP5346 8p23.1 copy number variation syndrome
WP5405 13q12 or CRYL1 copy number variation
WP5412 8q11.23 (RB1CC1) copy number variation
WP134 Pentose phosphate metabolism
WP1423 Ganglio sphingolipid metabolism
WP1495 Glycine metabolism
WP2363 Gastric cancer network 2
WP247 Small ligand GPCRs
WP2826 Cocaine metabolism
WP2839 Hair follicle development: organogenesis - part 2 of 3
WP2853 Endoderm differentiation
WP3604 Biochemical pathways: part I
WP368 Mitochondrial long chain fatty acid beta-oxidation
WP3890 Nanomaterial-induced inflammasome activation
WP4141 PI3K/AKT/mTOR - vitamin D3 signaling
WP4205 MET in type 1 papillary renal cell carcinoma
WP4337 ncRNAs involved in STAT3 signaling in hepatocellular carcinoma
WP4487 Ophthalmate biosynthesis in hepatocytes
WP4533 Transcription co-factors SKI and SKIL protein partners
WP4724 Omega-9 fatty acid synthesis
WP497 Urea cycle and metabolism of amino groups
WP5111 Familial hyperlipidemia type 4
WP5181 Roles of ceramides in development of insulin resistance
WP5222 2q13 copy number variation syndrome
WP5276 Estrogen metabolism
WP5394 UDP-derived sugars synthesis in fibroblasts
WP5401 7q11.23 distal copy number variation
WP661 Glucose homeostasis
WP716 Vitamin A and carotenoid metabolism
WP1471 Target of rapamycin signaling
WP2118 Arrhythmogenic right ventricular cardiomyopathy
WP2435 Quercetin and Nf-kB / AP-1 induced apoptosis
WP2507 Nanomaterial induced apoptosis
WP2536 Colchicine metabolic pathway
WP2865 IL1 and megakaryocytes in obesity
WP2877 Vitamin D receptor pathway
WP299 Nuclear receptors in lipid metabolism and toxicity
WP3633 Caffeine and theobromine metabolism
WP3938 miR-222 in exercise-induced cardiac growth
WP4016 DNA IR-damage and cellular response via ATR
WP4146 Macrophage markers
WP4336 ncRNAs involved in Wnt signaling in hepatocellular carcinoma
WP4342 Vitamins A and D - action mechanisms
WP4399 MicroRNA network associated with chronic lymphocytic leukemia
WP4787 Osteoblast differentiation and related diseases
WP4818 Conversion of angiotensinogen to angiotensin II
WP4864 Host-pathogen interaction of human coronaviruses - apoptosis
WP4966 Fluoroacetic acid toxicity
WP5035 ACE2 inhibition leads to pulmonary fibrosis
WP5314 Lactate shuttle in glial cells
WP5316 Primary ovarian insufficiency
WP690 Polyol pathway
WP732 Serotonin receptor 2 and ELK-SRF/GATA4 signaling
WP2007 Iron metabolism in placenta
WP2064 Neural crest differentiation
WP2359 Parkin-ubiquitin proteasomal system pathway
WP334 GPCRs, class B secretin-like
WP3930 EDA signaling in hair follicle development
WP3941 Oxidative damage response
WP411 mRNA processing
WP4147 PTF1A related regulatory pathway
WP4352 Ciliary landscape
WP4483 Relationship between inflammation, COX-2 and EGFR
WP4875 Disruption of postsynaptic signaling by CNV
WP501 GPCRs, class C metabotropic glutamate, pheromone
WP5039 SARS-CoV-2 innate immunity evasion and cell-specific immune response
WP5188 Retinol metabolism
WP5331 Autophagy in pancreatic ductal adenocarcinoma
WP5406 13q12.12 copy number variation
WP5414 IDO metabolic pathway
WP698 Glucuronidation
WP710 DNA damage response (only ATM dependent)
WP100 Glutathione metabolism
WP2846 PCSK9-mediated LDL receptor degradation
WP3655 Hypothetical craniofacial development pathway
WP3845 Canonical and non-canonical Notch signaling
WP3874 Canonical and non-canonical TGF-B signaling
WP3875 ATR signaling
WP4156 Biosynthesis and regeneration of tetrahydrobiopterin and catabolism of phenylalanine
WP4220 Neurotransmitter disorders
WP4292 Methionine metabolism leading to sulfur amino acids and related disorders
WP4320 Effect of progerin on genes involved in progeria
WP4524 Alternative pathway of fetal androgen synthesis
WP4725 Sphingolipid metabolism overview
WP5172 Iron metabolism disorders
WP5176 Disorders of bile acid synthesis and biliary transport
WP528 Acetylcholine synthesis
WP5385 Growth factors and hormones in beta cell proliferation
WP2267 Synaptic vesicle pathway
WP229 Irinotecan pathway
WP254 Apoptosis
WP2849 Hematopoietic stem cell differentiation
WP2943 Hypoxia-mediated EMT and stemness
WP3617 Photodynamic therapy-induced NF-kB survival signaling
WP3676 BDNF-TrkB signaling
WP3679 Cell-type dependent selectivity of CCK2R signaling
WP3863 T-cell antigen receptor (TCR) pathway during Staphylococcus aureus infection
WP4142 Metabolism of sphingolipids in ER and Golgi apparatus
WP4197 Immune response to tuberculosis
WP4216 Chromosomal and microsatellite instability in colorectal cancer
WP4522 Metabolic pathway of LDL, HDL and TG, including diseases
WP5150 Spina bifida
WP5174 Ulcerative colitis signaling
WP5178 Disorders of fructose metabolism
WP5187 mRNA vaccine activation of dendritic cell and induction of IFN-1
WP5235 Estradiol regulation in porto-sinusoidal vascular disease
WP5275 Ether lipid biosynthesis
WP5323 Fatty acids and lipoproteins transport in hepatocytes
WP545 Complement activation
WP1528 Physiological and pathological hypertrophy of the heart
WP2813 Mammary gland development pathway - Embryonic development (Stage 1 of 4)
WP2817 Mammary gland development pathway - Pregnancy and lactation (Stage 3 of 4)
WP3853 ERK pathway in Huntington's disease
WP3944 Serotonin and anxiety-related events
WP4269 Ethanol metabolism production of ROS by CYP2E1
WP4541 Hippo-Merlin signaling dysregulation
WP4707 Aspirin and miRNAs
WP5029 Amino acid transport defects (IEMs)
WP51 Regulation of actin cytoskeleton
WP5229 Nephrotoxcicity adverse outcome pathway
WP5367 Rubinstein-Taybi syndrome 1
WP706 Sudden infant death syndrome (SIDS) susceptibility pathways
WP136 Phase I biotransformations, non-P450
WP2263 Androgen receptor network in prostate cancer
WP3408 Evolocumab mechanism to reduce LDL cholesterol
WP3646 Hepatitis C and hepatocellular carcinoma
WP4880 Host-pathogen interaction of human coronaviruses - interferon induction
WP5123 Mitochondrial fatty acid oxidation disorders
WP5192 Modulation of PI3K-Akt-mTOR signaling by bioactive sphingolipids
WP80 Nucleotide GPCRs
WP2596 Gastric acid production
WP408 Oxidative stress response
WP4241 Type 2 papillary renal cell carcinoma
WP4595 Urea cycle and associated pathways
WP4657 22q11.2 copy number variation syndrome
WP5169 Hemesynthesis defects and porphyrias
WP5424 Omega-6-fatty acids in senescence
WP5440 EPAC1 and PKA reduction of retinal inflammation
WP2011 SREBF and miR33 in cholesterol and lipid homeostasis
WP4010 Liver steatosis adverse outcome pathway
WP4803 Ciliopathies
WP4876 Activation of NLRP3 inflammasome by SARS-CoV-2
WP5236 Markers of kidney cell lineage
WP2369 Histone modifications
WP2854 Gene regulatory network modeling somitogenesis
WP3668 Hypothesized pathways in pathogenesis of cardiovascular disease
WP3982 miRNA regulation of p53 pathway in prostate cancer
WP4159 GABA receptor signaling
WP4239 Epithelial to mesenchymal transition in colorectal cancer
WP4518 Gamma-glutamyl cycle for the biosynthesis and degradation of glutathione, including diseases
WP4630 Measles virus infection
WP5195 Disorders in ketolysis
WP5213 Amino acid metabolism in triple-negative breast cancer cells
WP5218 Extrafollicular and follicular B cell activation by SARS-CoV-2
WP5402 10q22q23 copy number variation
WP5445 Hunger and satiety
WP1991 SRF and miRs in smooth muscle differentiation and proliferation
WP2113 Type III interferon signaling
WP2366 Butyrate-induced histone acetylation
WP2855 Dopaminergic neurogenesis
WP3937 Microglia pathogen phagocytosis pathway
WP4290 Metabolic reprogramming in colon cancer
WP4534 Mechanoregulation and pathology of YAP/TAZ via Hippo and non-Hippo mechanisms
WP465 Tryptophan metabolism
WP4905 1q21.1 copy number variation syndrome
WP5205 Clock-controlled autophagy in bone metabolism
WP5231 Hippocampal synaptogenesis and neurogenesis
WP5315 Sebaleic acid formation and metabolism
WP12 Osteoclast signaling
WP1530 miRNA regulation of DNA damage response
WP1559 Transcription factors regulate miRNAs related to cardiac hypertrophy
WP167 Eicosanoid synthesis
WP1946 Cori cycle
WP2023 Cell differentiation - expanded index
WP206 Fatty acid omega-oxidation
WP236 Adipogenesis
WP26 S1P receptor signal transduction
WP3413 NOTCH1 regulation of endothelial cell calcification
WP3599 Transcription factor regulation in adipogenesis
WP3851 TLR4 signaling and tolerance
WP4008 NO/cGMP/PKG mediated neuroprotection
WP4030 SCFA and skeletal muscle substrate metabolism
WP430 Statin inhibition of cholesterol production
WP4566 Translation inhibitors in chronically activated PDGFRA cells
WP4585 Cancer immunotherapy by PD-1 blockade
WP5085 Vasopressin-regulated water reabsorption
WP5122 Prostaglandin and leukotriene metabolism in senescence
WP5216 Warburg effect modulated by deubiquitinating enzymes and their substrates
WP5234 Bardet-Biedl syndrome
WP5274 Farnesyl to CoQ10 metabolism
WP5280 Glucocorticoid biosynthesis
WP5287 17q12 copy number variation syndrome
WP5365 4p16.3 copy number variation
WP5376 17p13.3 (YWHAE) copy number variation
WP702 Metapathway biotransformation Phase I and II
WP185 Integrin-mediated cell adhesion
WP2513 Nanoparticle triggered regulated necrosis
WP2805 exRNA mechanism of action and biogenesis
WP2816 Felbamate metabolism
WP3527 Pre-implantation embryo
WP3580 Methionine de novo and salvage pathway
WP3612 Photodynamic therapy-induced NFE2L2 (NRF2) survival signaling
WP3644 NAD+ metabolism
WP3645 NAD+ biosynthetic pathways
WP3876 BMP2-WNT4-FOXO1 pathway in primary endometrial stromal cell differentiation
WP4255 Non-small cell lung cancer
WP4549 Fragile X syndrome
WP4584 Biomarkers for pyrimidine metabolism disorders
WP4925 Unfolded protein response
WP5053 Development of ureteric collection system
WP5342 Pathophysiological roles of DUX4 in FSHD1
WP5381 Smith-Magenis and Potocki-Lupski syndrome copy number variation
WP111 Electron transport chain: OXPHOS system in mitochondria
WP1589 Folate-alcohol and cancer pathway hypotheses
WP170 Nuclear receptors
WP2436 Dopamine metabolism
WP2526 PDGF pathway
WP2806 Complement system
WP3299 let-7 inhibition of ES cell reprogramming
WP3614 Photodynamic therapy-induced HIF-1 survival signaling
WP4174 Metabolism of tetrahydrocannabinol (THC)
WP4191 Caloric restriction and aging
WP4284 Ultraconserved region 339 modulation of tumor suppressor microRNAs in cancer
WP4949 16p11.2 proximal deletion syndrome
WP5101 Congenital generalized lipodystrophy
WP5312 Metabolic pathways of fibroblasts
WP3965 Lipid metabolism pathway
WP4297 Thiamine metabolic pathways
WP4582 Cancer immunotherapy by CTLA4 blockade
WP4790 FGF23 signaling in hypophosphatemic rickets and related disorders
WP4844 Influence of laminopathies on Wnt signaling
WP4879 Overlap between signal transduction pathways contributing to LMNA laminopathies
WP4961 STING pathway in Kawasaki-like disease and COVID-19
WP4969 RAS and bradykinin pathways in COVID-19
WP5104 Acquired partial lipodystrophy / Barraquer-Simons syndrome
WP5189 Copper metabolism
WP5360 KCNQ2-related epilepsies
WP58 Monoamine GPCRs
WP3593 MicroRNA for targeting cancer growth and vascularization in glioblastoma
WP3630 NAD metabolism, sirtuins and aging
WP4397 Model for regulation of MSMP expression in cancer cells and its proangiogenic role in ovarian tumors
WP4808 Endochondral ossification with skeletal dysplasias
WP534 Glycolysis and gluconeogenesis
WP1403 AMP-activated protein kinase signaling
WP2289 Drug induction of bile acid pathway
WP366 TGF-beta signaling pathway
WP3877 MYD88 distinct input-output pathway
WP4236 Krebs cycle disorders
WP4519 Cerebral organic acidurias, including diseases
WP4523 Classical pathway of steroidogenesis with glucocorticoid and mineralocorticoid metabolism
WP5437 GNAQ pathways in port-wine stain
WP197 Cholesterol biosynthesis pathway
WP2597 Secretion of hydrochloric acid in parietal cells
WP4153 Degradation pathway of sphingolipids, including diseases
WP474 Endochondral ossification
WP4799 Downregulation of ACE2 by SARS-CoV-2 spike protein
WP4816 TGF-beta receptor signaling in skeletal dysplasias
WP5124 Alzheimer's disease
WP5173 Disorders of galactose metabolism
WP5175 Disorders in ketone body synthesis
WP5283 Chronic hyperglycemia impairment of neuron function
WP5366 NF1 copy number variation syndrome
WP5426 HDAC6 interactions in the central nervous system
WP5433 PGK1, PKM2, KHKC/KHKA acting as protein kinases
WP554 ACE inhibitor pathway
WP2447 Amyotrophic lateral sclerosis (ALS)
WP2828 Bladder cancer
WP2868 TCA cycle nutrient use and invasiveness of ovarian cancer
WP3286 Copper homeostasis
WP3407 FTO obesity variant mechanism
WP383 Striated muscle contraction pathway
WP3879 4-hydroxytamoxifen, dexamethasone, and retinoic acids regulation of p27 expression
WP4155 Endometrial cancer
WP4262 Breast cancer pathway
WP4299 Lamin A processing pathway
WP4329 miRNA role in immune response in sepsis
WP4478 LTF danger signal response pathway
WP4485 Modified nucleosides derived from tRNA as urinary cancer markers
WP4705 Pathways of nucleic acid metabolism and innate immune sensing
WP5089 Kinin-Kallikrein pathway
WP5193 Cholesterol synthesis disorders
WP5202 Alstrom syndrome
WP5227 Thyroid hormone imbalance leading to neurodevelopmental abnormalities
WP5269 Genetic causes of porto-sinusoidal vascular disease
WP5277 Steroid hormone precursor biosynthesis
WP530 Cytokines and inflammatory response
WP5358 JAK-STAT signaling in the regulation of beta cells
WP1604 Codeine and morphine metabolism
WP4331 Neovascularization processes
WP4571 Urea cycle and related diseases
WP4686 Leucine, isoleucine and valine metabolism
WP4767 FGFR3 signaling in chondrocyte proliferation and terminal differentiation
WP4853 Linoleic acid metabolism affected by SARS-CoV-2
WP5036 Angiotensin II receptor type 1 pathway
WP5078 T cell modulation in pancreatic cancer
WP5142 Calcium mediated T-cell apoptosis involved in inclusion body myositis
WP5228 Arsenic liver toxicity pathway
WP5343 Abnormal calcium handling and its effects on muscle contraction in DMD
WP5408 15q25 copy number variation
WP5446 GLP-1 secretion from intestine to portal vein
WP2249 Metastatic brain tumor
WP2542 Sulindac metabolic pathway
WP272 Blood clotting cascade
WP2884 NRF2 pathway
WP2916 Interactome of polycomb repressive complex 2 (PRC2)
WP3613 Photodynamic therapy-induced unfolded protein response
WP3627 Gut-liver indole metabolism
WP3924 Hfe effect on hepcidin production
WP3945 TYROBP causal network in microglia
WP4148 Splicing factor NOVA regulated synaptic proteins
WP422 MAPK cascade
WP4673 Male infertility
WP4722 Glycerolipids and glycerophospholipids
WP5083 Neuroinflammation and glutamatergic signaling
WP5093 Opioid receptor pathways
WP5156 SARS-CoV-2 replication organelle formation
WP521 Amino acid conjugation of benzoic acid
WP5221 2q11.2 copy number variation syndrome
WP5241 Mitochondrial beta-oxidation
WP678 Arachidonate epoxygenase / epoxide hydrolase
WP722 Serotonin HTR1 group and FOS pathway
WP734 Serotonin receptor 4/6/7 and NR3C signaling
WP1541 Energy metabolism
WP4210 Tryptophan catabolism leading to NAD+ production
WP4324 Mitochondrial complex I assembly model OXPHOS system
WP4482 Vitamin D in inflammatory diseases
WP455 GPCRs, class A rhodopsin-like
WP4719 Eicosanoid metabolism via cyclooxygenases (COX)
WP4863 Host-pathogen interaction of human coronaviruses - autophagy
WP4962 Airway smooth muscle cell contraction
WP5074 Kallmann syndrome
WP5094 Orexin receptor pathway
WP5121 Sphingolipid metabolism in senescence
WP5186 Vitamin K metabolism and activation of dependent proteins
WP5220 Metabolic reprogramming in pancreatic cancer
WP5292 Glycosphingolipid metabolism
WP5324 Octadecanoid formation from linoleic acid
WP560 TGF-beta receptor signaling
WP1603 Nicotine effect on chromaffin cells
WP179 Cell cycle
WP1971 Integrated cancer pathway
WP2291 Deregulation of Rab and Rab effector genes in bladder cancer
WP2324 AGE/RAGE pathway
WP2328 Allograft rejection
WP2864 Apoptosis-related network due to altered Notch3 in ovarian cancer
WP2875 Constitutive androstane receptor pathway
WP2878 PPAR-alpha pathway
WP3670 Interactions between LOXL4 and oxidative stress pathway
WP3998 Prader-Willi and Angelman syndrome
WP410 Exercise-induced circadian regulation
WP4190 Mevalonate arm of cholesterol biosynthesis pathway
WP4583 Biomarkers for urea cycle disorders
WP4756 Renin-angiotensin-aldosterone system (RAAS)
WP4814 Somatic sex determination
WP4823 Genes controlling nephrogenesis
WP4932 7q11.23 copy number variation syndrome
WP5031 Biotin metabolism, including IMDs
WP5055 Burn wound healing
WP5223 2q21.1 copy number variation syndrome
WP691 Tamoxifen metabolism
WP727 Monoamine transport
WP1772 Apoptosis modulation and signaling
WP3872 Regulation of apoptosis by parathyroid hormone-related protein
WP3915 Angiopoietin-like protein 8 regulatory pathway
WP3947 Serotonin and anxiety
WP4506 Tyrosine metabolism and related disorders
WP453 Inflammatory response pathway
WP4784 Proteoglycan biosynthesis
WP4786 Type I collagen synthesis in the context of osteogenesis imperfecta
WP4789 Multiple epiphyseal dysplasia and pseudoachondroplasia genes
WP5034 Mitochondrial complex inhibition leading to liver injury
WP5148 Complement-mediated inflammation of pulmonary alveolus in COVID-19 (hypothetical pathway)
WP5285 Immune infiltration in pancreatic cancer
WP5396 Enterohepatic circulation of bile acids
WP2815 Mammary gland development pathway - Involution (Stage 4 of 4)
WP3892 Development of pulmonary dendritic cells and macrophage subsets
WP4312 Rett syndrome
WP4480 Altered glycosylation of MUC1 in tumor microenvironment
WP4507 Molybdenum cofactor (Moco) biosynthesis
WP4577 Neurodegeneration with brain iron accumulation (NBIA) subtypes pathway
WP4785 Somitogenesis in the context of spondylocostal dysostosis
WP4804 Cholesterol biosynthesis with skeletal dysplasias
WP4906 3q29 copy number variation syndrome
WP5088 Prostaglandin signaling
WP5118 SMC1/SMC3 role in DNA damage - Cornelia de Lange Syndrome
WP5352 10q11.21q11.23 copy number variation syndrome
WP5407 15q11q13 copy number variation
WP5447 GLP-1 in pancreatic islet cells
WP4224 Purine metabolism and related disorders
WP4259 Disorders of folate metabolism and transport
WP4494 Selective expression of chemokine receptors during T-cell polarization
WP4685 Melanoma
WP4788 Autosomal recessive osteopetrosis pathways
WP4914 Adverse outcome pathway for mitochondrial complex 1 (C1) inhibition
WP5038 Mitochondrial immune response to SARS-CoV-2
WP5098 T-cell activation SARS-CoV-2
WP5442 Wnt/Beta-catenin signaling inhibitors in current and past clinical trials
WP5444 Acetaminophen in analgesia and antipyresis
WP2586 Aryl hydrocarbon receptor pathway
WP262 Ebstein-Barr virus LMP1 signaling
WP2640 Aripiprazole metabolic pathway
WP268 Notch signaling
WP2795 Cardiac hypertrophic response
WP3596 miR-517 relationship with ARCN1 and USP1
WP3624 Lung fibrosis
WP3634 Insulin signaling in adipocytes (normal condition)
WP3680 Physico-chemical features and toxicity-associated pathways
WP3858 Toll-like receptor signaling related to MyD88
WP3891 Benzene metabolism
WP405 Eukaryotic transcription initiation
WP4194 Hormonal control of pubertal growth spurt
WP4223 Ras signaling
WP4565 Neural crest cell migration in cancer
WP4792 Purine metabolism
WP4884 Pathogenesis of SARS-CoV-2 mediated by nsp9-nsp10 complex
WP4891 COVID-19 adverse outcome pathway
WP4942 15q13.3 copy number variation syndrome
WP5066 FOXA2 pathway
WP5318 Female steroid hormones in cardiomyocyte energy metabolism
WP5362 TAR syndrome
WP558 Complement and coagulation cascades
WP581 EPO receptor signaling
WP697 Estrogen metabolism
WP117 GPCRs, other
WP1422 Sphingolipid pathway
WP1433 Nucleotide-binding oligomerization domain (NOD) pathway
WP3591 Sleep regulation
WP3594 Circadian rhythm genes
WP3595 mir-124 predicted interactions with cell cycle and differentiation
WP384 Apoptosis modulation by HSP70
WP3850 Factors and pathways affecting insulin-like growth factor (IGF1)-Akt signaling
WP4206 Hereditary leiomyomatosis and renal cell carcinoma pathway
WP4263 Pancreatic adenocarcinoma pathway
WP4341 Non-genomic actions of 1,25 dihydroxyvitamin D3
WP438 Non-homologous end joining
WP4723 Omega-3 / omega-6 fatty acid synthesis
WP4874 CAMKK2 pathway
WP4883 SARS-CoV-2 and ACE2 receptor: molecular mechanisms
WP4971 Phosphoinositides metabolism
WP5095 Overview of proinflammatory and profibrotic mediators
WP5155 Arachidonic acid (AA, ARA) oxylipin metabolism
WP5180 DYRK1A involvement regarding cell proliferation in brain development
WP5293 Acute myeloid leukemia
WP5294 Sildenafil treatment
WP5299 Ganglio series sphingolipid metabolism
WP531 DNA mismatch repair
WP704 Methylation pathways
WP129 Matrix metalloproteinases
WP1434 Osteopontin signaling
WP1545 miRNAs involved in DNA damage response
WP2485 NAD biosynthesis II (from tryptophan)
WP2491 Diclofenac metabolic pathway
WP2840 Hair follicle development: cytodifferentiation - part 3 of 3
WP2895 Differentiation of white and brown adipocyte
WP314 Fas ligand pathway and stress induction of heat shock proteins
WP3303 RAC1/PAK1/p38/MMP2 pathway
WP4022 Pyrimidine metabolism
WP4186 Somatroph axis (GH) and its relationship to dietary restriction and aging
WP4829 mBDNF and proBDNF regulation of GABA neurotransmission
WP4860 Hijack of ubiquitination by SARS-CoV-2
WP4917 Proximal tubule transport
WP4923 Autophagy
WP4947 Nitric oxide metabolism in cystic fibrosis
WP5072 Modulators of TCR signaling and T cell activation
WP5076 Soluble ACE2-mediated cell entry of SARS-CoV-2
WP5090 Complement system in neuronal development and plasticity
WP5110 Familial hyperlipidemia type 3
WP5133 Non-classical role of vitamin D
WP5397 Vitamin A1 and A5/X pathways
WP176 Folate metabolism
WP2197 Endothelin pathways
WP2889 Oxytocin signaling
WP4304 Oligodendrocyte specification and differentiation, leading to myelin components for CNS
WP4496 Signal transduction through IL1R
WP4532 Intraflagellar transport proteins binding to dynein
WP477 Cytoplasmic ribosomal proteins
WP5027 nsp1 from SARS-CoV-2 inhibits translation initiation in the host cell
WP5137 Linoleic acid oxylipin metabolism
WP5179 Biosynthesis and turnover of 1-deoxy-sphingoid bases
WP5199 PtdIns(4,5)P2 in cytokinesis pathway
WP5200 Dravet syndrome
WP5273 Effect of intestinal microbiome on anticoagulant response of vitamin K antagonists
WP5348 11p11.2 copy number variation syndrome
WP1981 Thyroxine (thyroid hormone) production
WP2290 RalA downstream regulated genes
WP3301 MFAP5-mediated ovarian cancer cell motility and invasiveness
WP3611 Photodynamic therapy-induced AP-1 survival signaling
WP3869 Cannabinoid receptor signaling
WP3967 miR-509-3p alteration of YAP1/ECM axis
WP4317 Mitochondrial fatty acid synthesis pathway
WP4674 Head and neck squamous cell carcinoma
WP4752 Base excision repair
WP5112 Familial hyperlipidemia type 5
WP5171 Leukotriene metabolic pathway
WP550 Biogenic amine synthesis
WP619 Type II interferon signaling
WP2456 HIF1A and PPARG regulation of glycolysis
WP2572 Primary focal segmental glomerulosclerosis (FSGS)
WP2637 Interleukin-1 (IL-1) structural pathway
WP2880 Glucocorticoid receptor pathway
WP313 Hepatocyte growth factor receptor signaling
WP3298 Melatonin metabolism and effects
WP3300 Dual hijack model of Vif in HIV infection
WP3529 Zinc homeostasis
WP357 Fatty acid biosynthesis
WP3651 Pathways affected in adenoid cystic carcinoma
WP3871 Valproic acid pathway
WP391 Mitochondrial gene expression
WP3935 Leptin-insulin signaling overlap
WP3953 mRNA, protein, and metabolite inducation pathway by cyclosporin A
WP3 Transcriptional activation by NRF2 in response to phytochemicals
WP4018 Clear cell renal cell carcinoma pathways
WP4195 Phosphatidylcholine catabolism
WP4481 Resistin as a regulator of inflammation
WP4486 Role of carnosine in muscle contraction
WP4560 MFAP5 effect on permeability and motility of endothelial cells via cytoskeleton rearrangement
WP4564 Neural crest cell migration during development
WP4688 Serine metabolism
WP4742 Ketogenesis and ketolysis
WP4877 Host-pathogen interaction of human coronaviruses - MAPK signaling
WP4928 MAPK pathway in congenital thyroid cancer
WP5049 Glycolysis in senescence
WP5105 Meta pathway lipodystrophy, dyslipidemia and hyperlipidemia
WP5113 Antiviral and anti-inflammatory effects of Nrf2 on SARS-CoV-2 pathway
WP5136 ALA oxylipin metabolism
WP5256 COVID-19 and endothelial cell senescence
WP5351 Kleefstra syndrome
WP5399 NPHP1 deletion syndrome
WP106 Alanine and aspartate metabolism
WP1544 MicroRNAs in cardiomyocyte hypertrophy
WP1600 Nicotine metabolism in liver cells
WP2333 Trans-sulfuration pathway
WP2406 Cardiac progenitor differentiation
WP2858 Ectoderm differentiation
WP4656 Joubert syndrome
WP4753 Nucleotide excision repair
WP481 Insulin signaling
WP4838 Regucalcin in proximal tubule epithelial kidney cells
WP4842 Mammalian disorder of sexual development
WP5033 Genes associated with the development of rheumatoid arthritis
WP516 Hypertrophy model
WP5183 SARS-CoV-2 mitochondrial chronic oxidative stress and endothelial dysfunction
WP5303 Lacto series sphingolipid metabolism
WP98 Prostaglandin synthesis and regulation
WP2525 Trans-sulfuration, one-carbon metabolism and related pathways
WP2873 Aryl hydrocarbon receptor pathway
WP2874 Liver X receptor pathway
WP289 Myometrial relaxation and contraction pathways
WP3585 Cytosine methylation
WP3601 Lipid particles composition
WP3635 Insulin signaling in adipocytes (diabetic condition)
WP3664 Regulation of Wnt / B-catenin signaling by small molecule compounds
WP4313 Ferroptosis
WP4589 Major receptors targeted by epinephrine and norepinephrine
WP4806 EGFR tyrosine kinase inhibitor resistance
WP4922 Mitochondrial complex IV assembly
WP4940 15q11.2 copy number variation syndrome
WP5043 Pentose phosphate pathway in senescent cells
WP5046 NAD metabolism in oncogene-induced senescence and mitochondrial dysfunction-associated senescence
WP5050 TCA cycle in senescence
WP5116 SARS-CoV-2 B.1.1.7 variant antagonises innate immune activation
WP5151 Sialylation
WP5194 Synthesis of ceramides and 1-deoxyceramides
WP694 Arylamine metabolism
WP696 Benzo(a)pyrene metabolism
WP2361 Gastric cancer network 1
WP2646 Lidocaine metabolism
WP3302 eIF5A regulation in response to inhibition of the nuclear export system
WP3980 Protein alkylation leading to liver fibrosis
WP4189 Mevalonate arm of cholesterol biosynthesis pathway with inhibitors
WP4240 Regulation of sister chromatid separation at the metaphase-anaphase transition
WP4504 Cysteine and methionine catabolism
WP4661 Amino acid metabolism pathway excerpt: histidine catabolism extension
WP4698 Vitamin D-sensitive calcium signaling in depression
WP4721 Eicosanoid metabolism via lipooxygenases (LOX)
WP4941 GPR143 in melanocytes and retinal pigment epithelium cells
WP5052 Nephrogenesis
WP5061 Fatty acid transporters
WP5063 FOXP3 in COVID-19
WP5065 SARS-CoV-2 altering angiogenesis via NRP1
WP5120 Inclusion body myositis
WP5130 Th17 cell differentiation pathway
WP5143 GDNF signaling
WP5154 Docosahexaenoic acid oxylipin metabolism
WP5238 Cholestasis
WP5239 Lac-Phe pathway
WP5302 Neolacto series sphingolipid metabolism
WP5321 Prostaglandin and leukotriene metabolism in senescence
WP5356 Affected pathways in Duchenne muscular dystrophy
WP5395 Glycosaminoglycan synthesis in fibroblasts
WP3678 Amplification and expansion of oncogenic pathways as metastatic traits
WP3896 Dengue-2 interactions with complement and coagulation cascades
WP45 G1 to S cell cycle control
WP4846 SARS-CoV-2 and COVID-19 pathway
WP78 TCA cycle (aka Krebs or citric acid cycle)
WP2276 Glial cell differentiation
WP4746 Thyroid hormones production and peripheral downstream signaling effects
WP4918 Cellular proteostasis
WP5146 Lung pathology of COVID-19
WP1992 Genes targeted by miRNAs in adipocytes
WP2509 Nanoparticle triggered autophagic cell death
WP2848 Pluripotent stem cell differentiation pathway
WP2876 Pregnane X receptor pathway
WP2881 Estrogen receptor pathway
WP3959 DNA IR-double strand breaks and cellular response via ATM
WP4301 Inhibition of exosome biogenesis and secretion by Manumycin A in CRPC cells
WP4493 Cells and molecules involved in local acute inflammatory response
WP4559 Interactions between immune cells and microRNAs in tumor microenvironment
WP500 Glycogen synthesis and degradation
WP5087 Pleural mesothelioma
WP5114 Nucleotide excision repair in xeroderma pigmentosum
WP5233 Arsenic metabolism and reactive oxygen species generation
WP5265 Neurogenesis regulation in the olfactory epithelium
WP5279 Mineralocorticoid biosynthesis
WP5345 1p36 copy number variation syndrome
WP536 Calcium regulation in cardiac cells
WP5409 PAFAH1B1 copy number variation
WP692 Sulfation biotransformation reaction
WP1438 Influenza A virus infection
WP1455 Serotonin transporter activity
WP322 Osteoblast signaling
WP3602 Metabolism overview
WP3865 Novel intracellular components of RIG-I-like receptor pathway
WP4321 Thermogenesis
WP4396 Nonalcoholic fatty liver disease
WP4580 Blood clotting and drug effects
WP4900 Purinergic signaling
WP4970 Galanin receptor pathway
WP5400 6q16 copy number variation
WP715 Amino acid conjugation
WP143 Fatty acid beta-oxidation
WP1601 Fluoropyrimidine activity
WP186 Homologous recombination
WP2446 Retinoblastoma gene in cancer
WP2857 Mesodermal commitment pathway
WP3666 Metabolism of dichloroethylene by CYP450
WP3888 VEGFA-VEGFR2 signaling
WP3926 ApoE and miR-146 in inflammation and atherosclerosis
WP3927 BMP signaling in eyelid development
WP3934 Leptin and adiponectin
WP4149 White fat cell differentiation
WP4211 Transcriptional cascade regulating adipogenesis
WP4238 Flavan-3-ol metabolic pathway
WP4873 Peroxiredoxin 2 induced ovarian failure
WP4904 LDLRAD4 and what we know about it
WP4912 SARS coronavirus and innate immunity
WP4919 Neuroinflammation
WP4920 Mitochondrial complex II assembly
WP4921 Mitochondrial complex III assembly
WP4927 COVID-19, thrombosis and anticoagulation
WP4945 Mitochondrial complex I inhibition leading to parkinsonian motor deficits
WP5149 Lipid metabolism in senescent cells
WP5300 TROP2 regulatory signaling
WP5380 5q35 copy number variation
WP5411 Phosphatidyl inositol phosphate pathway
WP699 Aflatoxin B1 metabolism
WP1941 Peroxisomal beta-oxidation of tetracosanoyl-CoA
WP2029 Cell differentiation - index
WP3963 Mevalonate pathway
WP3972 PDGFR-beta pathway
WP4357 NRF2-ARE regulation
WP4868 Type I interferon induction and signaling during SARS-CoV-2 infection
WP4931 Direct reversal repair
WP5091 Frustrated phagocytosis leading to malignant pleural mesothelioma
WP5103 Progeria-associated lipodystrophy
WP5109 Familial hyperlipidemia type 2
WP5145 COVID-19 structural coverage map
WP5182 Pro-survival signaling of neuroprotectin D1
WP5368 Sulfatase and aromatase pathway
WP561 Heme biosynthesis
WP183 Proteasome degradation
WP2272 Pathogenic Escherichia coli infection
WP2645 Heroin metabolism
WP3414 Initiation of transcription and translation elongation at the HIV-1 LTR
WP3925 Amino acid metabolism
WP3996 Ethanol effects on histone modifications
WP4233 Acrylamide biotransformation and exposure biomarkers
WP4300 Extracellular vesicles in the crosstalk of cardiac cells
WP43 Oxidation by cytochrome P450
WP4462 Platelet-mediated interactions with vascular and circulating cells
WP4536 Genes related to primary cilium development (based on CRISPR)
WP4655 Cytosolic DNA-sensing pathway
WP4658 Small cell lung cancer
WP466 DNA replication
WP4861 Endoplasmic reticulum stress response in coronavirus infection
WP5092 Interactions of natural killer cells in pancreatic cancer
WP5389 DNA adduct formation leading to kidney failure
WP5398 NRXN1 deletion syndrome
WP107 Translation factors
WP1742 TP53 network
WP2338 miRNA biogenesis
WP2533 Glycerophospholipid biosynthetic pathway
WP2879 Farnesoid X receptor pathway
WP2882 Nuclear receptors meta-pathway
WP3287 Overview of nanoparticle effects
WP3640 Imatinib and chronic myeloid leukemia
WP3657 Hematopoietic stem cell gene regulation by GABP alpha/beta complex
WP3672 lncRNA-mediated mechanisms of therapeutic resistance
WP3674 Tgif disruption of Shh signaling
WP3859 TGF-beta signaling in thyroid cells for epithelial-mesenchymal transition
WP3958 GPR40 pathway
WP4217 Ebola virus infection in host
WP4258 lncRNA in canonical Wnt signaling and colorectal cancer
WP4537 Hippo-YAP signaling
WP4542 Leukocyte-intrinsic Hippo pathway functions
WP4562 Canonical NF-kB pathway
WP4586 Metabolism of alpha-linolenic acid
WP4726 Sphingolipid metabolism: integrated pathway
WP4751 HIPK2 in kidney fibrosis
WP5102 Familial partial lipodystrophy
WP5108 Familial hyperlipidemia type 1
WP5153 N-glycan biosynthesis
WP5224 2q37 copy number variation syndrome
WP5272 LDL- influence on CD14 and TLR4
WP5329 Cholesterol biosynthesis pathway in hepatocytes
WP5390 Pancreatic cancer subtypes
WP623 Oxidative phosphorylation
WP688 Catalytic cycle of mammalian flavin-containing monooxygenases (FMOs)
WP1531 Vitamin D metabolism
WP1539 Angiogenesis
WP1982 Sterol regulatory element-binding proteins (SREBP) signaling
WP3584 MECP2 and associated Rett syndrome
WP3873 RIOK1 and RIOK2 in EGFR- and PI3K-mediated tumorigenesis
WP4225 Pyrimidine metabolism and related diseases
WP4271 Vitamin B12 disorders
WP4288 MTHFR deficiency
WP4521 Glycosylation and related congenital defects
WP4944 Mitochondrial complex I inhibition leading to chemical-induced Fanconi syndrome
WP5030 Ethylmalonic encephalopathy
WP5166 Glyoxylate metabolism
WP5373 Osteoarthritic chondrocyte hypertrophy
WP5417 Cell lineage map for neuronal differentiation
WP707 DNA damage response
WP2059 Alzheimer's disease and miRNA effects
WP2371 Parkinson's disease pathway
WP2911 miRNA targets in ECM and membrane receptors
WP3297 EV release from cardiac cells and their functional effects
WP4157 GABA metabolism (aka GHB)
WP4400 FABP4 in ovarian cancer
WP4479 Suppression of HMGB1-mediated inflammation by THBD
WP4950 16p11.2 distal deletion syndrome
WP496 Steroid biosynthesis
WP5026 Proline and hydroxyproline pathways
WP5117 Cohesin complex - Cornelia de Lange syndrome
WP5119 NIPBL role in DNA damage - Cornelia de Lange syndrome
WP5284 Cell interactions of the pancreatic cancer microenvironment
WP1584 Type II diabetes mellitus
WP1995 Effects of nitric oxide
WP2814 Mammary gland development pathway - Puberty (Stage 2 of 4)
WP3878 ATM signaling in development and disease
WP3971 OSX and miRNAs in tooth development
WP4150 Wnt signaling in kidney disease
WP4228 Vitamin B6-dependent and responsive disorders
WP4298 Acute viral myocarditis
WP4535 Envelope proteins and their potential roles in EDMD physiopathology
WP4545 Oxysterols derived from cholesterol
WP4758 Nephrotic syndrome
WP4871 Kisspeptin/kisspeptin receptor system in the ovary
WP4963 p53 transcriptional gene network
WP5028 Glycine metabolism, including IMDs
WP5037 Riboflavin and CoQ disorders
WP5064 7-oxo-C and 7-beta-HC pathways
WP5190 Creatine pathway
WP5211 Glucose metabolism in triple-negative breast cancer cells
WP5452 GLP-1 from intestine and pancreas and role in glucose homeostasis
WP2253 Pilocytic astrocytoma
WP28 Selenium metabolism and selenoproteins
WP3849 MAPK and NFkB signaling inhibited by Yersinia YopJ
WP3931 Embryonic stem cell pluripotency pathways
WP3932 Focal adhesion: PI3K-Akt-mTOR-signaling
WP4538 Regulatory circuits of STAT3 signaling
WP22 IL9 signaling
WP2870 Extracellular vesicle-mediated signaling in recipient cells
WP4558 Interferon-mediated signaling
WP4872 MAP3K1 role in promoting and blocking gonadal determination
WP5258 ROS in COVID-19 endothelial dysfunction
WP231 TNF-alpha signaling
WP286 IL3 signaling
WP364 IL6 signaling
WP3995 Prion disease pathway
WP5355 Metabolic epileptic disorders
WP5434 Cancer pathways
WP75 Toll-like receptor signaling
WP3942 PPAR signaling
WP4315 Malate-aspartate shuttle
WP4553 FBXL10 enhancement of MAP/ERK signaling in diffuse large B-cell lymphoma
WP4659 Gastrin signaling
WP2035 Follicle stimulating hormone (FSH) signaling
WP2038 Microtubule cytoskeleton regulation
WP2374 Oncostatin M signaling
WP4222 Phosphodiesterases in neuronal function
WP437 EGF/EGFR signaling
WP47 Hedgehog signaling
WP524 G13 signaling
WP1591 Heart development
WP2032 Thyroid stimulating hormone (TSH) signaling
WP2261 Glioblastoma signaling
WP3981 miRNA regulation of prostate cancer signaling
WP4249 Hedgehog signaling
WP4389 Bile acid synthesis and enterohepatic circulation
WP4760 PKC-gamma calcium signaling in ataxia
WP4936 Perturbations to host-cell autophagy, induced by SARS-CoV-2 proteins
WP49 IL2 signaling
WP5471 Receptor tyrosine kinase (RTK) family
WP585 Interferon type I signaling
WP3943 ROBO4 and VEGF signaling crosstalk
WP4495 IL10 anti-inflammatory signaling
WP5044 Kynurenine pathway and links to cell senescence
WP5336 Induction of autophagy and toll-like receptor signaling by graphene oxide
WP5344 Cardiomyocyte signaling converging on titin
WP5441 Artemisinin inhibition of uveal melanoma
WP69 T-cell receptor signaling
WP2018 RANKL/RANK signaling
WP205 IL7 signaling
WP3391 Senescence-associated secretory phenotype (SASP)
WP53 ID signaling
WP325 Triacylglyceride synthesis
WP35 G protein signaling
WP2036 TNF-related weak inducer of apoptosis (TWEAK) signaling
WP4540 Hippo signaling regulation
WP127 IL5 signaling
WP2203 Thymic stromal lymphopoietin (TSLP) signaling
WP2636 Common pathways underlying drug addiction
WP395 IL4 signaling
WP400 p38 MAPK signaling
WP4539 Synaptic signaling associated with autism spectrum disorder
WP5097 CCL18 signaling
WP5191 Resolvin E1 and resolvin D1 signaling decrease inflammation
WP5289 Axon guidance
WP5443 Effects of MFN2 mutation
WP2034 Leptin signaling
WP2571 Polycystic kidney disease pathway
WP363 Wnt signaling
WP3844 PI3K-AKT-mTOR signaling and therapeutic opportunities in prostate cancer
WP3969 H19, Rb-E2F1, and CDK-beta-catenin in colorectal cancer
WP399 Wnt signaling and pluripotency
WP712 Estrogen signaling
WP2332 IL11 signaling
WP4318 Mitochondrial fatty acid synthesis and respiration
WP4629 Aerobic glycolysis
WP5420 ADHD and autism (ASD) pathways
analysis_drug_repurposing/data/genes_gds_alzheimer_filtered_dup.csv 0 → 100644
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analysis_drug_repurposing/data/neuro_pnd.csv 0 → 100644
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analysis_drug_repurposing/results/dru_gene_pat_final.csv 0 → 100644
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Drugs,gsm_id,gene_symbol,gds_id,pathway_id,pathway_name,significant
CHEMBL1336,GSM107523,ARRB1,GDS2795,WP382,MAPK signaling,o
CHEMBL1336,GSM107523,AVPR2,GDS2795,WP24,Peptide GPCRs,o
CHEMBL1336,GSM107523,BCL2L11,GDS2795,WP673,ErbB signaling,o
CHEMBL1336,GSM107523,BMP1,GDS2795,WP236,Adipogenesis,o
CHEMBL1336,GSM107523,CASP2,GDS2795,WP254,Apoptosis,o
CHEMBL1336,GSM107523,CD36,GDS2795,WP4754,IL18 signaling,o
CHEMBL1336,GSM107523,CD40,GDS2795,WP288,Nod-like receptor (NLR) signaling,o
CHEMBL1336,GSM107523,CLOCK,GDS2795,WP410,Exercise-induced circadian regulation,o
CHEMBL1336,GSM107523,EGFR,GDS2795,WP306,Focal adhesion,o
CHEMBL1336,GSM107523,EPHB2,GDS2795,WP288,Nod-like receptor (NLR) signaling,o
CHEMBL1336,GSM107523,FAF1,GDS2795,WP314,Fas ligand pathway and stress induction of heat shock proteins,o
CHEMBL1336,GSM107523,GAD1,GDS2795,WP550,Biogenic amine synthesis,o
CHEMBL1336,GSM107523,GH1,GDS2795,WP236,Adipogenesis,o
CHEMBL1336,GSM107523,HSPA4,GDS2795,WP2359,Parkin-ubiquitin proteasomal system pathway,o
CHEMBL1336,GSM107523,HTR2C,GDS2795,WP732,Serotonin receptor 2 and ELK-SRF/GATA4 signaling,o
CHEMBL1336,GSM107523,ITGB3,GDS2795,WP306,Focal adhesion,o
CHEMBL1336,GSM107523,MAP2K2,GDS2795,WP673,ErbB signaling,o
CHEMBL1336,GSM107523,MBP,GDS2795,WP422,MAPK cascade,o
CHEMBL1336,GSM107523,MMP14,GDS2795,WP4754,IL18 signaling,o
CHEMBL1336,GSM107523,NOS1,GDS2795,WP2447,Amyotrophic lateral sclerosis (ALS),o
CHEMBL1336,GSM107523,OPRM1,GDS2795,WP24,Peptide GPCRs,o
CHEMBL1336,GSM107523,PDE4D,GDS2795,WP289,Myometrial relaxation and contraction pathways,o
CHEMBL1336,GSM107523,PPARA,GDS2795,WP299,Nuclear receptors in lipid metabolism and toxicity,o
CHEMBL1336,GSM107523,PRDX2,GDS2795,WP15,Selenium micronutrient network,o
CHEMBL1336,GSM107523,PTCH1,GDS2795,WP4808,Endochondral ossification with skeletal dysplasias,u
CHEMBL1336,GSM107523,PTGER3,GDS2795,WP247,Small ligand GPCRs,o
CHEMBL1336,GSM107523,PTPN1,GDS2795,WP2037,Prolactin signaling,o
CHEMBL1336,GSM107523,WT1,GDS2795,WP4758,Nephrotic syndrome,o
CHEMBL282575,GSM107525,BMP1,GDS2795,WP236,Adipogenesis,o
CHEMBL282575,GSM107525,CD40,GDS2795,WP288,Nod-like receptor (NLR) signaling,o
CHEMBL282575,GSM107525,EGFR,GDS2795,WP306,Focal adhesion,o
CHEMBL282575,GSM107525,GLP1R,GDS2795,WP334,"GPCRs, class B secretin-like",o
CHEMBL282575,GSM107525,IGF1R,GDS2795,WP306,Focal adhesion,o
CHEMBL282575,GSM107525,IL4,GDS2795,WP5422,IL19 signaling,o
CHEMBL282575,GSM107525,MBP,GDS2795,WP422,MAPK cascade,o
CHEMBL282575,GSM107525,MMP14,GDS2795,WP4754,IL18 signaling,o
CHEMBL282575,GSM107525,NOS1,GDS2795,WP2447,Amyotrophic lateral sclerosis (ALS),o
CHEMBL282575,GSM107525,PPARA,GDS2795,WP299,Nuclear receptors in lipid metabolism and toxicity,o
CHEMBL282575,GSM107525,PTPN1,GDS2795,WP2037,Prolactin signaling,o
CHEMBL282575,GSM107525,SIRT3,GDS2795,WP1541,Energy metabolism,o
CHEMBL282575,GSM107525,TBX2,GDS2795,WP304,Kit receptor signaling,o
CHEMBL411,GSM107525,BMP1,GDS2795,WP236,Adipogenesis,o
CHEMBL411,GSM107525,CD40,GDS2795,WP288,Nod-like receptor (NLR) signaling,o
CHEMBL411,GSM107525,EGFR,GDS2795,WP306,Focal adhesion,o
CHEMBL411,GSM107525,GLP1R,GDS2795,WP334,"GPCRs, class B secretin-like",o
CHEMBL411,GSM107525,IGF1R,GDS2795,WP306,Focal adhesion,o
CHEMBL411,GSM107525,IL4,GDS2795,WP5422,IL19 signaling,o
CHEMBL411,GSM107525,MBP,GDS2795,WP422,MAPK cascade,o
CHEMBL411,GSM107525,MMP14,GDS2795,WP4754,IL18 signaling,o
CHEMBL411,GSM107525,NOS1,GDS2795,WP2447,Amyotrophic lateral sclerosis (ALS),o
CHEMBL411,GSM107525,PPARA,GDS2795,WP299,Nuclear receptors in lipid metabolism and toxicity,o
CHEMBL411,GSM107525,PTPN1,GDS2795,WP2037,Prolactin signaling,o
CHEMBL411,GSM107525,SIRT3,GDS2795,WP1541,Energy metabolism,o
CHEMBL411,GSM107525,TBX2,GDS2795,WP304,Kit receptor signaling,o
CHEMBL941,GSM107525,BMP1,GDS2795,WP236,Adipogenesis,o
CHEMBL941,GSM107525,CD40,GDS2795,WP288,Nod-like receptor (NLR) signaling,o
CHEMBL941,GSM107525,EGFR,GDS2795,WP306,Focal adhesion,o
CHEMBL941,GSM107525,GLP1R,GDS2795,WP334,"GPCRs, class B secretin-like",o
CHEMBL941,GSM107525,IGF1R,GDS2795,WP306,Focal adhesion,o
CHEMBL941,GSM107525,IL4,GDS2795,WP5422,IL19 signaling,o
CHEMBL941,GSM107525,MBP,GDS2795,WP422,MAPK cascade,o
CHEMBL941,GSM107525,MMP14,GDS2795,WP4754,IL18 signaling,o
CHEMBL941,GSM107525,NOS1,GDS2795,WP2447,Amyotrophic lateral sclerosis (ALS),o
CHEMBL941,GSM107525,PPARA,GDS2795,WP299,Nuclear receptors in lipid metabolism and toxicity,o
CHEMBL941,GSM107525,PTPN1,GDS2795,WP2037,Prolactin signaling,o
CHEMBL941,GSM107525,SIRT3,GDS2795,WP1541,Energy metabolism,o
CHEMBL941,GSM107525,TBX2,GDS2795,WP304,Kit receptor signaling,o
analysis_drug_repurposing/scripts/analysis_visualization.py 0 → 100644
View file @ 11bdc035
import pandas as pd
import matplotlib.pyplot as plt
import seaborn as sns
def filter_cd_zscore(pnd_df):
"""
This function filters the rows of pnd_df based on the values of 'closest distance'
that fall below Q3 from the known treatments.
Input Parameters:
- pnd_df: DataFrame containing the data with 'closest distance' column.
Returns:
- filtered_df: DataFrame containing only the rows where 'closest distance' is between Q1 and Q3.
"""
# Calculate Q3 of the Treatment
filtered_yes = pnd_df[pnd_df['Treatment'] == 'yes']
q3 = filtered_yes['Closest distance'].quantile(0.75)
filtered_df =pnd_df[(pnd_df['Dc_zscore'] < -0.15) & (pnd_df['Closest distance'] <= q3) & (pnd_df['Treatment'] == 'unknown')]
return filtered_df
def rep_pnd(pnd_df,filtered_pnd):
"""
Generates side-by-side boxplots to compare 'Closest distance' and 'Personalized Network Distance (PND)' metrics
across three different treatment status groups.
Input Parameters:
- pnd_df (pd.DataFrame): DataFrame containing drug data with columns:
- 'Treatment': The treatment status of the drugs ('yes' or 'unknown').
- 'Closest distance': A numeric measure of the closest distance metric for the drugs.
- 'PND': A numeric measure of Personalized Network Distance for the drugs.
- filtered_pnd (pd.DataFrame): A subset of pnd_df filtered for a specific condition, with the same columns as pnd_df.
Returns:
- None: The function saves a boxplot comparison as a PNG file and displays the plot.
"""
drugs_with_disease = pnd_df[(pnd_df['Treatment'] == 'yes')]
drugs_without_disease = pnd_df[(pnd_df['Treatment'] == 'unknown')]
combined_data = pd.concat([drugs_with_disease.assign(Treatment='Treatment'), drugs_without_disease.assign(Treatment='All unknown'),filtered_pnd.assign(Treatment='Filtered unknown for DR')])
# Combine the two datasets into a single subplot
fig, axes = plt.subplots(1, 2, figsize=(14, 6)) # Create a subplot with 1 row and 2 columns
sns.boxplot(x='Treatment', y='Closest distance', data=combined_data, hue='Treatment', ax=axes[0], palette={'Treatment': '#FF7A7A', 'All unknown': '#79C4FF', 'Filtered unknown for DR': '#CAF0F8'}, dodge=False, medianprops=dict(linewidth=2))
axes[0].set_ylabel('Closest distance', fontsize=12)
axes[0].set_xlabel('')
for label in axes[0].get_xticklabels():
label.set_fontsize(12)
axes[0].legend([], [], frameon=False)
# Plot the boxplot with 'PND' on the right
sns.boxplot(x='Treatment', y='PND', data=combined_data, hue='Treatment', ax=axes[1], palette={'Treatment': '#FF7A7A', 'All unknown': '#79C4FF', 'Filtered unknown for DR': '#CAF0F8'}, dodge=False, medianprops=dict(linewidth=2))
axes[1].set_ylabel('Personalized Network Distance ($\mathregular{PND}$)', fontsize=12)
axes[1].set_xlabel('')
for label in axes[1].get_xticklabels():
label.set_fontsize(12)
axes[1].legend([], [], frameon=False)
plt.tight_layout() # Adjust the layout of the subplot to avoid overlap
plt.savefig('../results/pnd_closest_distance_boxplot_filtered.png', dpi=300)
plt.show()
def get_gsm_ids_for_lowest_pnd_drugs(pnd_df, drugs_list, num_gsm=3):
"""
This function extracts the gsm_id for the given list of drugs with the lowest PND values.
Input Parameters:
- pnd_df (pd.DataFrame): DataFrame containing drug data with columns:
- 'Treatment': The treatment status of the drugs ('yes' or 'unknown').
- 'Closest distance': A numeric measure of the closest distance metric for the drugs.
- 'PND': A numeric measure of Personalized Network Distance for the drugs.
- drugs_list: List of drugs with the lowest PND values.
- num_gsm: Number of gsm_id to extract for each drug.
Returns:
- gsm_df: DataFrame containing rows with the specified gsm_id for the given drugs.
"""
filtered_rows = []
for drug in drugs_list:
# Filter the DataFrame for the current drug
drug_df = pnd_df[pnd_df['Drugs'] == drug]
# Sort the DataFrame by PND in ascending order and select the top num_gsm rows
top_gsm_df = drug_df.sort_values(by='PND').head(num_gsm)
# Append the selected rows to the list
filtered_rows.append(top_gsm_df)
# Concatenate the selected rows into a single DataFrame
gsm_df = pd.concat(filtered_rows)
return gsm_df
\ No newline at end of file
analysis_drug_repurposing/scripts/drug_repurposing_alzheimer.ipynb 0 → 100644
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