Retrieve list of pathway names containing the query citation.

findPathwayNamesByLiterature(query)

Arguments

query

The character string to search for, e.g., a PMID, title keyword or author name.

Value

A list of lists

Details

Note: there will be multiple listings of the same pathway name if copies exist for multiple species.

See also

findPathwaysByLiterature

Examples

{ findPathwayNamesByLiterature('19649250') findPathwayNamesByLiterature('smith') findPathwayNamesByLiterature('cancer') }
#> [1] "Regulation of mRNA stability by proteins that bind AU-rich elements" #> [2] "SUMOylation of DNA damage response and repair proteins" #> [3] "PI3K Cascade" #> [4] "Opioid Signalling" #> [5] "DAG and IP3 signaling" #> [6] "MAP kinase activation" #> [7] "Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)" #> [8] "Sialic acid metabolism" #> [9] "Inhibition of exosome biogenesis and secretion by Manumycin A in CRPC cells" #> [10] "SUMOylation of transcription cofactors" #> [11] "Cell migration and invasion through p75NTR" #> [12] "Neural Crest Cell Migration during Development" #> [13] "Neural Crest Cell Migration in Cancer" #> [14] "Anti-inflammatory response favouring Leishmania parasite infection" #> [15] "Pentose Phosphate Pathway in senescent cells" #> [16] "Codeine and Morphine Metabolism" #> [17] "DNA Damage Reversal" #> [18] "GPVI-mediated activation cascade" #> [19] "Peroxisomal lipid metabolism" #> [20] "Transport of inorganic cations/anions and amino acids/oligopeptides" #> [21] "Alzheimers Disease" #> [22] "Serotonin Receptor 2 and STAT3 Signaling" #> [23] "Gastric Cancer Network 1" #> [24] "Gastric Cancer Network 2" #> [25] "Nanoparticle triggered autophagic cell death" #> [26] "Aryl Hydrocarbon Receptor Netpath" #> [27] "Structural Pathway of Interleukin 1 (IL-1)" #> [28] "Vasopressin regulates renal water homeostasis via Aquaporins" #> [29] "Signaling by NODAL" #> [30] "Extracellular matrix organization" #> [31] "Glycerophospholipid biosynthesis" #> [32] "Metabolism of steroid hormones" #> [33] "Transcriptional regulation of white adipocyte differentiation" #> [34] "ATF4 activates genes in response to endoplasmic reticulum stress" #> [35] "Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer" #> [36] "Signaling by BMP" #> [37] "Gamma carboxylation, hypusine formation and arylsulfatase activation" #> [38] "MyD88 dependent cascade initiated on endosome" #> [39] "Degradation of beta-catenin by the destruction complex" #> [40] "Toll-like Receptor Cascades" #> [41] "Signaling by Activin" #> [42] "Transcriptional regulation of pluripotent stem cells" #> [43] "TCA Cycle Nutrient Utilization and Invasiveness of Ovarian Cancer" #> [44] "Serotonin Receptor 2 and STAT3 Signaling" #> [45] "Gastric cancer network 2" #> [46] "Gastric Cancer Network 1" #> [47] "Structural Pathway of Interleukin 1 (IL-1)" #> [48] "Aryl Hydrocarbon Receptor" #> [49] "Serotonin Receptor 2 and ELK-SRF/GATA4 signaling" #> [50] "TCA Cycle Nutrient Utilization and Invasiveness of Ovarian Cancer" #> [51] "Codeine and Morphine Metabolism" #> [52] "Serotonin Receptor 4/6/7 and NR3C Signaling" #> [53] "Melatonin metabolism and effects" #> [54] "MFAP5-mediated ovarian cancer cell motility and invasiveness" #> [55] "NoRC negatively regulates rRNA expression" #> [56] "RHO GTPases activate IQGAPs" #> [57] "POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation" #> [58] "BMAL1:CLOCK,NPAS2 activates circadian gene expression" #> [59] "TNF signaling" #> [60] "tRNA modification in the nucleus and cytosol" #> [61] "Gene Silencing by RNA" #> [62] "Class I MHC mediated antigen processing & presentation" #> [63] "mir-124 predicted interactions with cell cycle and differentiation " #> [64] "miR-517 relationship with ARCN1 and USP1" #> [65] "Simplified Interaction Map Between LOXL4 and Oxidative Stress Pathway" #> [66] "Renin - Angiotensin System" #> [67] "Regulation of TP53 Activity through Association with Co-factors" #> [68] "TP53 Regulates Transcription of Cell Death Genes" #> [69] "Interleukin-20 family signaling" #> [70] "Signaling by MST1" #> [71] "Interleukin-17 signaling" #> [72] "Toll-like Receptor Signaling related to MyD88" #> [73] "miR-509-3p alteration of YAP1/ECM axis" #> [74] "H19 action Rb-E2F1 signaling and CDK-Beta-catenin activity" #> [75] "Prader-Willi and Angelman Syndrome" #> [76] "Liver steatosis AOP" #> [77] "Cellular hexose transport" #> [78] "Interleukin-4 and Interleukin-13 signaling" #> [79] "Nicotinate metabolism" #> [80] "Deubiquitination" #> [81] "Fatty acyl-CoA biosynthesis" #> [82] "Tumor suppressor activity of SMARCB1" #> [83] "Pyrimidine metabolism and related diseases" #> [84] "Transcriptional Regulation by E2F6" #> [85] "Regulation of RUNX2 expression and activity" #> [86] "Class A/1 (Rhodopsin-like receptors)" #> [87] "SUMOylation of intracellular receptors" #> [88] "Glycosylation and related congenital defects" #> [89] "Head and Neck Squamous Cell Carcinoma" #> [90] "Thyroid hormones production and their peripheral downstream signalling effects" #> [91] "Regulation of Pgc1a expression by a Gsk3b-Tfeb signaling axis in skeletal muscle" #> [92] "Hijack of Ubiquitination by SARS-CoV-2" #> [93] "Type I Interferon Induction and Signaling During SARS-CoV-2 Infection" #> [94] "Response of EIF2AK4 (GCN2) to amino acid deficiency" #> [95] "Cell recruitment (pro-inflammatory response)" #> [96] "WNT5:FZD7-mediated leishmania damping" #> [97] "RIPK1-mediated regulated necrosis" #> [98] "ATM Signaling Pathway" #> [99] "Serotonin Receptor 2 and ELK-SRF/GATA4 signaling" #> [100] "Serotonin Receptor 2 and STAT3 Signaling" #> [101] "Serotonin Receptor 4/6/7 and NR3C Signaling" #> [102] "Prostaglandin Synthesis and Regulation" #> [103] "FAS pathway and Stress induction of HSP regulation" #> [104] "Selenium Metabolism and Selenoproteins" #> [105] "Estrogen metabolism" #> [106] "Selenium metabolism Selenoproteins" #> [107] "Estrogen metabolism" #> [108] "Estrogen metabolism" #> [109] "Selenium metabolism Selenoproteins" #> [110] "Estrogen metabolism" #> [111] "Selenium metabolism Selenoproteins" #> [112] "Influenza A virus infection" #> [113] "miRNAs involved in DNA damage response" #> [114] "Apoptosis Modulation and Signaling" #> [115] "Gap junction trafficking and regulation" #> [116] "Intrinsic Pathway for Apoptosis" #> [117] "Metabolism of porphyrins" #> [118] "Mitotic G2-G2/M phases" #> [119] "Netrin-1 signaling" #> [120] "Neurotransmitter release cycle" #> [121] "Signaling by ROBO receptors" #> [122] "Telomere Maintenance" #> [123] "Unfolded Protein Response (UPR)" #> [124] "Genetic alterations of lung cancer" #> [125] "Thyroxine (Thyroid Hormone) Production" #> [126] "miRNAs involved in DNA damage response" #> [127] "Quercetin and Nf-kB/ AP-1 Induced Cell Apoptosis" #> [128] "Iron uptake and transport" #> [129] "Abacavir transport and metabolism" #> [130] "Signaling by NOTCH2" #> [131] "Signaling by NOTCH1" #> [132] "Signaling by NOTCH4" #> [133] "Glycosaminoglycan metabolism" #> [134] "Degradation of the extracellular matrix" #> [135] "Visual phototransduction" #> [136] "Pre-NOTCH Expression and Processing" #> [137] "Sphingolipid metabolism" #> [138] "WNT ligand biogenesis and trafficking" #> [139] "Selenium Metabolism and Selenoproteins" #> [140] "Vitamin D Receptor Pathway" #> [141] "Nuclear Receptors Meta-Pathway" #> [142] "NRF2 pathway" #> [143] "miRNA targets in ECM and membrane receptors" #> [144] "Fas Ligand (FasL) pathway and Stress induction of Heat Shock Proteins (HSP) regulation" #> [145] "Apoptosis Modulation and Signaling" #> [146] "Quercetin and Nf-kB/ AP-1 Induced Cell Apoptosis" #> [147] "NRF2 pathway" #> [148] "Neurotransmitter Release Cycle" #> [149] "Influenza A virus infection" #> [150] "Iron uptake and transport" #> [151] "Thyroxine (Thyroid Hormone) Production" #> [152] "MAPK6/MAPK4 signaling" #> [153] "Hedgehog 'on' state" #> [154] "Miscellaneous transport and binding events" #> [155] "RAF-independent MAPK1/3 activation" #> [156] "RHO GTPases activate PKNs" #> [157] "RHO GTPases Activate Formins" #> [158] "RHO GTPases Activate WASPs and WAVEs" #> [159] "Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3" #> [160] "Base-Excision Repair, AP Site Formation" #> [161] "DNA Double Strand Break Response" #> [162] "tRNA processing in the nucleus" #> [163] "Sulfur amino acid metabolism" #> [164] "Surfactant metabolism" #> [165] "Metabolism of folate and pterines" #> [166] "Activation of anterior HOX genes in hindbrain development during early embryogenesis" #> [167] "SUMOylation of transcription factors" #> [168] "PI3K-AKT-mTOR signaling pathway and therapeutic opportunities" #> [169] "Lipid Metabolism Pathway" #> [170] "PDGFR-beta pathway" #> [171] "mir-193a and MVP in colon cancer metastasis" #> [172] "miRNA regulation of prostate cancer signaling pathways" #> [173] "miRNA regulation of p53 pathway in prostate cancer" #> [174] "Nucleobase catabolism" #> [175] "PTEN Regulation" #> [176] "Phase I - Functionalization of compounds" #> [177] "Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors" #> [178] "Chromatin organization" #> [179] "Antimicrobial peptides" #> [180] "Transcriptional regulation by RUNX3" #> [181] "Neddylation" #> [182] "RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function" #> [183] "LncRNA involvement in canonical Wnt signaling and colorectal cancer" #> [184] "Pancreatic adenocarcinoma pathway" #> [185] "Genotoxicity pathway" #> [186] "Malate-aspartate shuttle" #> [187] "Eicosanoid metabolism via Cyclo Oxygenases (COX)" #> [188] "Eicosanoid metabolism via Lipo Oxygenases (LOX)" #> [189] "Transcriptional Regulation by MECP2" #> [190] "Elongation of (very) long chain fatty acids" #> [191] "Cancer immunotherapy by CTLA4 blockade" #> [192] "22q11.2 copy number variation syndrome" #> [193] "Eicosanoid metabolism via Cyclo Oxygenases (COX)" #> [194] "Eicosanoid metabolism via Lipo Oxygenases (LOX)" #> [195] "Netrin-UNC5B signaling Pathway" #> [196] "Endothelin Pathway" #> [197] "CAMKK2 Pathway" #> [198] "1q21.1 copy number variation syndrome" #> [199] "3q29 copy number variation syndrome" #> [200] "7q11.23 copy number variation syndrome" #> [201] "DNA Repair Pathways Full Network" #> [202] "16p11.2 proximal deletion syndrome" #> [203] "Galanin receptor pathway" #> [204] "Aspartate and asparagine metabolism" #> [205] "FOXO-mediated transcription of cell death genes" #> [206] "FOXO-mediated transcription of cell cycle genes" #> [207] "Glutamate and glutamine metabolism" #> [208] "Transcriptional Regulation by VENTX" #> [209] "Transcriptional regulation of granulopoiesis" #> [210] "FOXO-mediated transcription" #> [211] "SARS-CoV-1 Infection" #> [212] "SARS-CoV-2 Infection" #> [213] "Glycolysis in senescence" #> [214] "RHOBTB GTPase Cycle" #> [215] "Glycolysis in senescence" #> [216] "Estrogen metabolism" #> [217] "Serotonin HTR1 Group and FOS Pathway" #> [218] "Estrogen metabolism" #> [219] "Estrogen metabolism" #> [220] "Transport of bile salts and organic acids, metal ions and amine compounds" #> [221] "MicroRNA for Targeting Cancer Growth and Vascularization in Glioblastoma" #> [222] "Hereditary leiomyomatosis and renal cell carcinoma pathway" #> [223] "Modified nucleosides derived from t-RNA as urinary cancer markers" #> [224] "MFAP5 effect on permeability and motility of endothelial cells via cytoskeleton rearrangement" #> [225] "ErbB Signaling Pathway" #> [226] "TGF-beta Receptor Signaling" #> [227] "Folate Metabolism" #> [228] "TGF Beta Signaling Pathway" #> [229] "Transforming Growth Factor (TGF) Beta Signaling Pathway" #> [230] "Transforming Growth Factor (TGF) Beta Signaling Pathway" #> [231] "Selenium Micronutrient Network" #> [232] "Vitamin B12 Metabolism" #> [233] "Fluoropyrimidine Activity" #> [234] "Folate Metabolism" #> [235] "PluriNetWork: mechanisms associated with pluripotency" #> [236] "Asparagine N-linked glycosylation" #> [237] "Costimulation by the CD28 family" #> [238] "Metabolism of water-soluble vitamins and cofactors" #> [239] "Mitotic G1 phase and G1/S transition" #> [240] "Platelet Aggregation (Plug Formation)" #> [241] "Processing of Capped Intron-Containing Pre-mRNA" #> [242] "Integrated Cancer Pathway" #> [243] "Nucleotide Excision Repair" #> [244] "Integrated Breast Cancer Pathway" #> [245] "Deregulation of Rab and Rab Effector Genes in Bladder Cancer" #> [246] "Cellular response to hypoxia" #> [247] "Inositol phosphate metabolism" #> [248] "S Phase" #> [249] "Mammary gland development pathway - Embryonic development (Stage 1 of 4)" #> [250] "Deregulation of Rab and Rab Effector Genes in Bladder Cancer" #> [251] "Vitamin B12 Metabolism" #> [252] "Senescence and Autophagy in Cancer" #> [253] "Integrated Cancer pathway" #> [254] "Selenium Micronutrient Network" #> [255] "Integrated Breast Cancer Pathway" #> [256] "Tamoxifen metabolism" #> [257] "Fluoropyrimidine Activity" #> [258] "RAC1/PAK1/p38/MMP2 Pathway" #> [259] "Caspase activation via Dependence Receptors in the absence of ligand" #> [260] "DNA methylation" #> [261] "TET1,2,3 and TDG demethylate DNA" #> [262] "Mismatch Repair" #> [263] "Abnormal conversion of 2-oxoglutarate to 2-hydroxyglutarate" #> [264] "Zinc homeostasis" #> [265] "Beta-catenin independent WNT signaling" #> [266] "TP53 Regulates Transcription of Cell Cycle Genes" #> [267] "Regulation of TP53 Expression and Degradation" #> [268] "Regulation of TP53 Activity through Phosphorylation" #> [269] "Mevalonate pathway" #> [270] "Pathways in clear cell renal cell carcinoma" #> [271] "Pentose phosphate pathway" #> [272] "RUNX1 and FOXP3 control the development of regulatory T lymphocytes (Tregs)" #> [273] "Regulation of RUNX1 Expression and Activity" #> [274] "Protein ubiquitination" #> [275] "Endometrial cancer" #> [276] "PI3K-Akt Signaling Pathway" #> [277] "MET in type 1 papillary renal cell carcinoma" #> [278] "Ebola Virus Pathway on Host" #> [279] "Non-small cell lung cancer" #> [280] "Breast cancer pathway" #> [281] "Rett syndrome causing genes" #> [282] "FABP4 in ovarian cancer" #> [283] "Interleukin-15 signaling" #> [284] "Integrin signaling" #> [285] "Signaling by Erythropoietin" #> [286] "Oxysterols derived from cholesterol" #> [287] "Fragile X Syndrome " #> [288] "Interactions between immune cells and microRNAs in tumor microenvironment" #> [289] "Neurodegeneration with brain iron accumulation (NBIA) subtypes pathway" #> [290] "EGFR Tyrosine Kinase Inhibitor Resistance" #> [291] "TGF-beta Receptor Signalling in Skeletal Dysplasias" #> [292] "LDLRAD4 and what we know about it" #> [293] "NGF-stimulated transcription" #> [294] "Metabolism of cofactors" #> [295] "TGF Beta Signaling Pathway" #> [296] "TGF-beta Receptor Signaling" #> [297] "Senescence and Autophagy in Cancer" #> [298] "p53 pathway" #> [299] "ErbB Signaling Pathway" #> [300] "Tamoxifen metabolism" #> [301] "Transforming Growth Factor (TGF) Beta Signaling Pathway" #> [302] "Tamoxifen metabolism" #> [303] "Transforming Growth Factor (TGF) Beta Signaling Pathway" #> [304] "Aflatoxin B1 metabolism" #> [305] "Aflatoxin B1 metabolism" #> [306] "Aflatoxin B1 metabolism" #> [307] "Generic Transcription Pathway" #> [308] "Interleukin-3, Interleukin-5 and GM-CSF signaling" #> [309] "NCAM signaling for neurite out-growth" #> [310] "Signaling by NTRK1 (TRKA)" #> [311] "Signaling by EGFR" #> [312] "Signaling by Insulin receptor" #> [313] "Signaling by PDGF" #> [314] "Signaling by VEGF" #> [315] "Glycerophospholipid Biosynthetic Pathway" #> [316] "PIP3 activates AKT signaling" #> [317] "Gastrin-CREB signalling pathway via PKC and MAPK" #> [318] "Signaling by Type 1 Insulin-like Growth Factor 1 Receptor (IGF1R)" #> [319] "DAP12 interactions" #> [320] "Signaling by SCF-KIT" #> [321] "Signaling by Hippo" #> [322] "Signaling by NOTCH3" #> [323] "Interleukin-2 family signaling" #> [324] "YAP1- and WWTR1 (TAZ)-stimulated gene expression" #> [325] "PI Metabolism" #> [326] "Fc epsilon receptor (FCERI) signaling" #> [327] "Signaling by ERBB2" #> [328] "Signaling by ERBB4" #> [329] "exRNA mechanism of action and biogenesis" #> [330] "Apoptosis-related network due to altered Notch3 in ovarian cancer" #> [331] "Apoptosis-related network due to altered Notch3 in ovarian cancer" #> [332] "RNA interference" #> [333] "Glycerophospholipid Biosynthetic Pathway" #> [334] "Aflatoxin B1 metabolism" #> [335] "Oncogene Induced Senescence" #> [336] "O-linked glycosylation" #> [337] "TCF dependent signaling in response to WNT" #> [338] "Signaling by Leptin" #> [339] "Senescence-Associated Secretory Phenotype (SASP)" #> [340] "Oxidative Stress Induced Senescence" #> [341] "DNA Damage/Telomere Stress Induced Senescence" #> [342] "HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)" #> [343] "Fanconi Anemia Pathway" #> [344] "TP53 Regulates Transcription of DNA Repair Genes" #> [345] "RAB GEFs exchange GTP for GDP on RABs" #> [346] "RET signaling" #> [347] "Transcriptional regulation by RUNX1" #> [348] "Phase II - Conjugation of compounds" #> [349] "Signaling by MET" #> [350] "Chromosomal and microsatellite instability in colorectal cancer " #> [351] "Epithelial to mesenchymal transition in colorectal cancer" #> [352] "Regulation of sister chromatid separation at the metaphase-anaphase transition" #> [353] "Type 2 papillary renal cell carcinoma" #> [354] "Transcriptional regulation by RUNX2" #> [355] "ESR-mediated signaling" #> [356] "Signaling by NTRK2 (TRKB)" #> [357] "Signaling by PTK6" #> [358] "Signaling by NTRK3 (TRKC)" #> [359] "Cancer immunotherapy by PD-1 blockade" #> [360] "Small cell lung cancer" #> [361] "AXL signaling pathway" #> [362] "MAPK pathway in congenital thyroid cancer" #> [363] "Extra-nuclear estrogen signaling" #> [364] "Blood group systems biosynthesis" #> [365] "Aflatoxin B1 metabolism" #> [366] "Aflatoxin B1 metabolism" #> [367] "miRNA Regulation of DNA Damage Response" #> [368] "DNA damage response" #> [369] "DNA Damage Response" #> [370] "DNA Damage Response" #> [371] "Integrin-mediated Cell Adhesion" #> [372] "Keap1-Nrf2" #> [373] "Keap1-Nrf2" #> [374] "Keap1-Nrf2" #> [375] "Keap1-Nrf2" #> [376] "Integrin-mediated Cell Adhesion" #> [377] "Signaling by Rho GTPases" #> [378] "Metastatic brain tumor" #> [379] "Parkinsons Disease Pathway" #> [380] "ATM Signaling Pathway" #> [381] "Energy dependent regulation of mTOR by LKB1-AMPK" #> [382] "Bladder Cancer" #> [383] "Phytochemical activity on NRF2 transcriptional activation" #> [384] "Bladder Cancer" #> [385] "ATM Signaling Pathway" #> [386] "Metastatic brain tumor" #> [387] "MTOR signalling" #> [388] "Signaling by FGFR4" #> [389] "Signaling by FGFR3" #> [390] "Signaling by FGFR2" #> [391] "TP53 Regulates Metabolic Genes" #> [392] "Hedgehog ligand biogenesis" #> [393] "Parkinsons Disease Pathway" #> [394] "DNA IR-Double Strand Breaks (DSBs) and cellular response via ATM" #> [395] "DNA IR-damage and cellular response via ATR" #> [396] "NRF2-ARE regulation" #> [397] "Overview of leukocyte-intrinsic Hippo pathway functions" #> [398] "FLT3 Signaling" #> [399] "Keap1-Nrf2" #> [400] "Retinol metabolism" #> [401] "Keap1-Nrf2" #> [402] "Transcriptional activation by NRF2" #> [403] "Irinotecan Pathway" #> [404] "Irinotecan Pathway" #> [405] "Irinotecan Pathway" #> [406] "Irinotecan Pathway" #> [407] "Irinotecan Pathway" #> [408] "Irinotecan Pathway" #> [409] "RAF/MAP kinase cascade" #> [410] "E3 ubiquitin ligases ubiquitinate target proteins" #> [411] "Signaling by FGFR1"