 Gene Regulatory Networks
"Gene Regulatory Networks" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus,
MeSH (Medical Subject Headings). Descriptors are arranged in a hierarchical structure,
which enables searching at various levels of specificity.
Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations.
| Descriptor ID |
D053263
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| MeSH Number(s) |
G05.360.080.689.360
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| Concept/Terms |
Gene Regulatory Networks- Gene Regulatory Networks
- Gene Regulatory Network
- Network, Gene Regulatory
- Networks, Gene Regulatory
- Regulatory Network, Gene
- Regulatory Networks, Gene
- Gene Networks
- Gene Network
- Network, Gene
- Networks, Gene
- Transcriptional Networks
- Network, Transcriptional
- Networks, Transcriptional
- Transcriptional Network
Gene Circuits- Gene Circuits
- Circuit, Gene
- Circuits, Gene
- Gene Circuit
Gene Modules- Gene Modules
- Module, Gene
- Modules, Gene
- Gene Module
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Below are MeSH descriptors whose meaning is more general than "Gene Regulatory Networks".
Below are MeSH descriptors whose meaning is more specific than "Gene Regulatory Networks".
This graph shows the total number of publications written about "Gene Regulatory Networks" by people in UAMS Profiles by year, and whether "Gene Regulatory Networks" was a major or minor topic of these publications.
To see the data from this visualization as text, click here.
| Year | Major Topic | Minor Topic | Total |
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| 2022 | 1 | 1 | 2 | | 2021 | 5 | 4 | 9 | | 2020 | 4 | 2 | 6 | | 2019 | 1 | 9 | 10 | | 2018 | 2 | 6 | 8 | | 2017 | 3 | 5 | 8 | | 2016 | 4 | 5 | 9 | | 2015 | 2 | 1 | 3 | | 2014 | 2 | 2 | 4 | | 2013 | 1 | 2 | 3 | | 2012 | 1 | 0 | 1 | | 2011 | 1 | 2 | 3 | | 2010 | 2 | 0 | 2 | | 2009 | 1 | 1 | 2 | | 2008 | 1 | 2 | 3 |
To return to the timeline, click here.
Below are the most recent publications written about "Gene Regulatory Networks" by people in Profiles over the past ten years.
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Lowery FJ, Krishna S, Yossef R, Parikh NB, Chatani PD, Zacharakis N, Parkhurst MR, Levin N, Sindiri S, Sachs A, Hitscherich KJ, Yu Z, Vale NR, Lu YC, Zheng Z, Jia L, Gartner JJ, Hill VK, Copeland AR, Nah SK, Masi RV, Gasmi B, Kivitz S, Paria BC, Florentin M, Kim SP, Hanada KI, Li YF, Ngo LT, Ray S, Shindorf ML, Levi ST, Shepherd R, Toy C, Parikh AY, Prickett TD, Kelly MC, Beyer R, Goff SL, Yang JC, Robbins PF, Rosenberg SA. Molecular signatures of antitumor neoantigen-reactive T cells from metastatic human cancers. Science. 2022 02 25; 375(6583):877-884.
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Smiech M, Leszczynski P, Wardell C, Poznanski P, Pierzchala M, Taniguchi H. Oncogenic Mutation BRAF V600E Changes Phenotypic Behavior of THLE-2 Liver Cells through Alteration of Gene Expression. Int J Mol Sci. 2022 Jan 28; 23(3).
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Kaddour H, Kopcho S, Lyu Y, Shouman N, Paromov V, Pratap S, Dash C, Kim EY, Martinson J, McKay H, Epeldegui M, Margolick JB, Stapleton JT, Okeoma CM. HIV-infection and cocaine use regulate semen extracellular vesicles proteome and miRNAome in a manner that mediates strategic monocyte haptotaxis governed by miR-128 network. Cell Mol Life Sci. 2021 Dec 22; 79(1):5.
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Tasker R, Rowlands J, Ahmed Z, Di Pietro V. Co-Expression Network Analysis of Micro-RNAs and Proteins in the Alzheimer's Brain: A Systematic Review of Studies in the Last 10 Years. Cells. 2021 12 09; 10(12).
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Li D, Xu J, Yang MQ. Gene Regulation Analysis Reveals Perturbations of Autism Spectrum Disorder during Neural System Development. Genes (Basel). 2021 11 27; 12(12).
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Bolouri H, Ries R, Pardo L, Hylkema T, Zhou W, Smith JL, Leonti A, Loken M, Farrar JE, Triche TJ, Meshinchi S. A B-cell developmental gene regulatory network is activated in infant AML. PLoS One. 2021; 16(11):e0259197.
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Huang D, Savage SR, Calinawan AP, Lin C, Zhang B, Wang P, Starr TK, Birrer MJ, Paulovich AG. A highly annotated database of genes associated with platinum resistance in cancer. Oncogene. 2021 11; 40(46):6395-6405.
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Osgood C, Ahmed Z, Di Pietro V. Co-Expression Network Analysis of MicroRNAs and Proteins in Severe Traumatic Brain Injury: A Systematic Review. Cells. 2021 09 14; 10(9).
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Song S, Xu Y, Huo L, Zhao S, Wang R, Li Y, Scott AW, Pizzi MP, Wang Y, Fan Y, Harada K, Jin J, Ma L, Yao X, Shanbhag ND, Gan Q, Roy-Chowdhuri S, Badgwell BD, Wang Z, Wang L, Ajani JA. Patient-derived cell lines and orthotopic mouse model of peritoneal carcinomatosis recapitulate molecular and phenotypic features of human gastric adenocarcinoma. J Exp Clin Cancer Res. 2021 Jun 23; 40(1):207.
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Kunadirek P, Ariyachet C, Sriphoosanaphan S, Pinjaroen N, Sirichindakul P, Nookaew I, Chuaypen N, Tangkijvanich P. Identification of BHLHE40 expression in peripheral blood mononuclear cells as a novel biomarker for diagnosis and prognosis of hepatocellular carcinoma. Sci Rep. 2021 05 27; 11(1):11201.
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Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, Nudelman G, Moriwaki M, Pincas H, Castanon RG, Nair VD, Seenarine N, Amper MAS, Zhou X, Ongaro L, Toufaily C, Schang G, Nery JR, Bartlett A, Aldridge A, Jain N, Childs GV, Troyanskaya OG, Ecker JR, Turgeon JL, Welt CK, Bernard DJ, Sealfon SC. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nat Commun. 2021 05 11; 12(1):2677.
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Lavin KM, Bell MB, McAdam JS, Peck BD, Walton RG, Windham ST, Tuggle SC, Long DE, Kern PA, Peterson CA, Bamman MM. Muscle transcriptional networks linked to resistance exercise training hypertrophic response heterogeneity. Physiol Genomics. 2021 05 01; 53(5):206-221.
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Del Valle L, Dai L, Lin HY, Lin Z, Chen J, Post SR, Qin Z. Role of EIF4G1 network in non-small cell lung cancers (NSCLC) cell survival and disease progression. J Cell Mol Med. 2021 03; 25(6):2795-2805.
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Smiech M, Leszczynski P, Kono H, Wardell C, Taniguchi H. Emerging BRAF Mutations in Cancer Progression and Their Possible Effects on Transcriptional Networks. Genes (Basel). 2020 11 12; 11(11).
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Kulkarni AS, Peck BD, Walton RG, Kern PA, Mar JC, Windham ST, Bamman MM, Barzilai N, Peterson CA. Metformin alters skeletal muscle transcriptome adaptations to resistance training in older adults. Aging (Albany NY). 2020 10 18; 12(20):19852-19866.
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Choudhury SR, Ashby C, Tytarenko R, Bauer M, Wang Y, Deshpande S, Den J, Schinke C, Zangari M, Thanendrarajan S, Davies FE, van Rhee F, Morgan GJ, Walker BA. The functional epigenetic landscape of aberrant gene expression in molecular subgroups of newly diagnosed multiple myeloma. J Hematol Oncol. 2020 08 06; 13(1):108.
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Richard MA, Sok P, Canon S, Nembhard WN, Brown AL, Peckham-Gregory EC, Ton M, Ehli EA, Kallsen NA, Peyton SA, Davies GE, Patel A, Zamilpa I, Hobbs CA, Scheurer ME, Lupo PJ. Altered mechanisms of genital development identified through integration of DNA methylation and genomic measures in hypospadias. Sci Rep. 2020 07 29; 10(1):12715.
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Zhao X, Du W, Zhang M, Atiq ZO, Xia F. Sirt2-associated transcriptome modifications in cisplatin-induced neuronal injury. BMC Genomics. 2020 Mar 02; 21(1):192.
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Zhang Q. Testing Differential Gene Networks under Nonparanormal Graphical Models with False Discovery Rate Control. Genes (Basel). 2020 02 05; 11(2).
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Parashar D, Geethadevi A, Aure MR, Mishra J, George J, Chen C, Mishra MK, Tahiri A, Zhao W, Nair B, Lu Y, Mangala LS, Rodriguez-Aguayo C, Lopez-Berestein G, Camara AKS, Liang M, Rader JS, Ramchandran R, You M, Sood AK, Kristensen VN, Mills GB, Pradeep S, Chaluvally-Raghavan P. miRNA551b-3p Activates an Oncostatin Signaling Module for the Progression of Triple-Negative Breast Cancer. Cell Rep. 2019 12 24; 29(13):4389-4406.e10.
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Woo CC, Liu W, Lin XY, Dorajoo R, Lee KW, Richards AM, Lee CN, Wongsurawat T, Nookaew I, Sorokin V. The interaction between 30b-5p miRNA and MBNL1 mRNA is involved in vascular smooth muscle cell differentiation in patients with coronary atherosclerosis. Int J Mol Sci. 2019 Dec 18; 21(1).
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Zhao Y, Kang X, Gao F, Guzman A, Lau RP, Biniwale R, Wadehra M, Reemtsen B, Garg M, Halnon N, Quintero-Rivera F, Van Arsdell G, Coppola G, Nelson SF, Touma M. Gene-environment regulatory circuits of right ventricular pathology in tetralogy of fallot. J Mol Med (Berl). 2019 12; 97(12):1711-1722.
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Do AN, Watson CT, Cohain AT, Griffin RS, Grishin A, Wood RA, Wesley Burks A, Jones SM, Scurlock A, Leung DYM, Sampson HA, Sicherer SH, Sharp AJ, Schadt EE, Bunyavanich S. Dual transcriptomic and epigenomic study of reaction severity in peanut-allergic children. J Allergy Clin Immunol. 2020 04; 145(4):1219-1230.
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Wang L, Xu F, Brickell A, Sun N, Mao X, Zhang Q, Wang G, Zhou Q, Yang B, Li F, Yue L, Zhang W, Hao Y, Sun C. Additional common loci associated with stroke and obesity identified using pleiotropic analytical approach. Mol Genet Genomics. 2020 Mar; 295(2):439-451.
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Glazko G, Zybailov B, Emmert-Streib F, Baranova A, Rahmatallah Y. Proteome-transcriptome alignment of molecular portraits achieved by self-contained gene set analysis: Consensus colon cancer subtypes case study. PLoS One. 2019; 14(8):e0221444.
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Mousavian Z, Nowzari-Dalini A, Rahmatallah Y, Masoudi-Nejad A. Differential network analysis and protein-protein interaction study reveals active protein modules in glucocorticoid resistance for infant acute lymphoblastic leukemia. Mol Med. 2019 08 01; 25(1):36.
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Maguire A, Chen X, Wisner L, Malasi S, Ramsower C, Kendrick S, Barrett MT, Glinsmann-Gibson B, McGrath M, Rimsza LM. Enhanced DNA repair and genomic stability identify a novel HIV-related diffuse large B-cell lymphoma signature. Int J Cancer. 2019 12 01; 145(11):3078-3088.
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Tarkhov AE, Alla R, Ayyadevara S, Pyatnitskiy M, Menshikov LI, Shmookler Reis RJ, Fedichev PO. A universal transcriptomic signature of age reveals the temporal scaling of Caenorhabditis elegans aging trajectories. Sci Rep. 2019 05 14; 9(1):7368.
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Chattopadhyay S, Thomsen H, Yadav P, da Silva Filho MI, Weinhold N, N?then MM, Hoffman P, Bertsch U, Huhn S, Morgan GJ, Goldschmidt H, Houlston R, Hemminki K, F?rsti A. Genome-wide interaction and pathway-based identification of key regulators in multiple myeloma. Commun Biol. 2019; 2:89.
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Li D, Yang W, Arthur C, Liu JS, Cruz-Niera C, Yang MQ. Systems biology analysis reveals new insights into invasive lung cancer. BMC Syst Biol. 2018 12 14; 12(Suppl 7):117.
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Cogill SB, Srivastava AK, Yang MQ, Wang L. Co-expression of long non-coding RNAs and autism risk genes in the developing human brain. BMC Syst Biol. 2018 12 14; 12(Suppl 7):91.
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Hou TT, Lin F, Bai S, Cleves MA, Xu HM, Lou XY. Generalized multifactor dimensionality reduction approaches to identification of genetic interactions underlying ordinal traits. Genet Epidemiol. 2019 02; 43(1):24-36.
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Gomez-Acevedo H, Dornhoffer JR, Stone A, Dai Y, Richter GT. Gene Expression Differences in Pediatric Lymphatic Malformations: Size Really Matters. Lymphat Res Biol. 2018 08; 16(4):347-352.
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Zhang Q. A powerful nonparametric method for detecting differentially co-expressed genes: distance correlation screening and edge-count test. BMC Syst Biol. 2018 05 16; 12(1):58.
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Musa A, Ghoraie LS, Zhang SD, Glazko G, Yli-Harja O, Dehmer M, Haibe-Kains B, Emmert-Streib F. A review of connectivity map and computational approaches in pharmacogenomics. Brief Bioinform. 2018 05 01; 19(3):506-523.
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Berger AC, Korkut A, Kanchi RS, Hegde AM, Lenoir W, Liu W, Liu Y, Fan H, Shen H, Ravikumar V, Rao A, Schultz A, Li X, Sumazin P, Williams C, Mestdagh P, Gunaratne PH, Yau C, Bowlby R, Robertson AG, Tiezzi DG, Wang C, Cherniack AD, Godwin AK, Kuderer NM, Rader JS, Zuna RE, Sood AK, Lazar AJ, Ojesina AI, Adebamowo C, Adebamowo SN, Baggerly KA, Chen TW, Chiu HS, Lefever S, Liu L, MacKenzie K, Orsulic S, Roszik J, Shelley CS, Song Q, Vellano CP, Wentzensen N, Weinstein JN, Mills GB, Levine DA, Akbani R. A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers. Cancer Cell. 2018 04 09; 33(4):690-705.e9.
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Delgado-Calle J, Hancock B, Likine EF, Sato AY, McAndrews K, Sanudo C, Bruzzaniti A, Riancho JA, Tonra JR, Bellido T. MMP14 is a novel target of PTH signaling in osteocytes that controls resorption by regulating soluble RANKL production. FASEB J. 2018 05; 32(5):2878-2890.
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Rahmatallah Y, Khaidakov M, Lai KK, Goyne HE, Lamps LW, Hagedorn CH, Glazko G. Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon. BMC Med Genomics. 2017 12 28; 10(1):81.
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Li D, Yang MQ. Identification and characterization of conserved lncRNAs in human and rat brain. BMC Bioinformatics. 2017 12 28; 18(Suppl 14):489.
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Mack SC, Pajtler KW, Chavez L, Okonechnikov K, Bertrand KC, Wang X, Erkek S, Federation A, Song A, Lee C, Wang X, McDonald L, Morrow JJ, Saiakhova A, Sin-Chan P, Wu Q, Michaelraj KA, Miller TE, Hubert CG, Ryzhova M, Garzia L, Donovan L, Dombrowski S, Factor DC, Luu B, Valentim CLL, Gimple RC, Morton A, Kim L, Prager BC, Lee JJY, Wu X, Zuccaro J, Thompson Y, Holgado BL, Reimand J, Ke SQ, Tropper A, Lai S, Vijayarajah S, Doan S, Mahadev V, Mi?an AF, Gr?bner SN, Lienhard M, Zapatka M, Huang Z, Aldape KD, Carcaboso AM, Houghton PJ, Keir ST, Milde T, Witt H, Li Y, Li CJ, Bian XW, Jones DTW, Scott I, Singh SK, Huang A, Dirks PB, Bouffet E, Bradner JE, Ramaswamy V, Jabado N, Rutka JT, Northcott PA, Lupien M, Lichter P, Korshunov A, Scacheri PC, Pfister SM, Kool M, Taylor MD, Rich JN. Therapeutic targeting of ependymoma as informed by oncogenic enhancer profiling. Nature. 2018 01 04; 553(7686):101-105.
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Wang J, Jenjaroenpun P, Bhinge A, Angarica VE, Del Sol A, Nookaew I, Kuznetsov VA, Stanton LW. Single-cell gene expression analysis reveals regulators of distinct cell subpopulations among developing human neurons. Genome Res. 2017 11; 27(11):1783-1794.
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Khanal T, Choi K, Leung YK, Wang J, Kim D, Janakiram V, Cho SG, Puga A, Ho SM, Kim K. Loss of NR2E3 represses AHR by LSD1 reprogramming, is associated with poor prognosis in liver cancer. Sci Rep. 2017 09 06; 7(1):10662.
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Chen L, Jenjaroenpun P, Pillai AM, Ivshina AV, Ow GS, Efthimios M, Zhiqun T, Tan TZ, Lee SC, Rogers K, Ward JM, Mori S, Adams DJ, Jenkins NA, Copeland NG, Ban KH, Kuznetsov VA, Thiery JP. Transposon insertional mutagenesis in mice identifies human breast cancer susceptibility genes and signatures for stratification. Proc Natl Acad Sci U S A. 2017 03 14; 114(11):E2215-E2224.
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Todorova VK, Makhoul I, Wei J, Klimberg VS. Circulating miRNA Profiles of Doxorubicin-induced Cardiotoxicity in Breast Cancer Patients. Ann Clin Lab Sci. 2017 Mar; 47(2):115-119.
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Buckberry S, Bianco-Miotto T, Bent SJ, Clifton V, Shoubridge C, Shankar K, Roberts CT. Placental transcriptome co-expression analysis reveals conserved regulatory programs across gestation. BMC Genomics. 2017 01 03; 18(1):10.
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Glazko G, Rahmatallah Y, Zybailov B, Emmert-Streib F. Extracting the Strongest Signals from Omics Data: Differentially Expressed Pathways and Beyond. Methods Mol Biol. 2017; 1613:125-159.
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Olafsdottir TA, Lindqvist M, Nookaew I, Andersen P, Maertzdorf J, Persson J, Christensen D, Zhang Y, Anderson J, Khoomrung S, Sen P, Agger EM, Coler R, Carter D, Meinke A, Rappuoli R, Kaufmann SH, Reed SG, Harandi AM. Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants. Sci Rep. 2016 12 13; 6:39097.
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Cohen JL, Ata AE, Jackson NL, Rahn EJ, Ramaker RC, Cooper S, Kerman IA, Clinton SM. Differential stress induced c-Fos expression and identification of region-specific miRNA-mRNA networks in the dorsal raphe and amygdala of high-responder/low-responder rats. Behav Brain Res. 2017 02 15; 319:110-123.
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Mousavian Z, Nowzari-Dalini A, Stam RW, Rahmatallah Y, Masoudi-Nejad A. Network-based expression analysis reveals key genes related to glucocorticoid resistance in infant acute lymphoblastic leukemia. Cell Oncol (Dordr). 2017 Feb; 40(1):33-45.
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Touma M, Kang X, Zhao Y, Cass AA, Gao F, Biniwale R, Coppola G, Xiao X, Reemtsen B, Wang Y. Decoding the Long Noncoding RNA During Cardiac Maturation: A Roadmap for Functional Discovery. Circ Cardiovasc Genet. 2016 Oct; 9(5):395-407.
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Chen X, Li J, Hu L, Yang W, Lu L, Jin H, Wei Z, Yang JY, Arabnia HR, Liu JS, Yang MQ, Deng Y. The clinical significance of snail protein expression in gastric cancer: a meta-analysis. Hum Genomics. 2016 07 25; 10 Suppl 2:22.
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Zhou H, Manthey J, Lioutikova E, Yang W, Yoshigoe K, Yang MQ, Wang H. The up-regulation of Myb may help mediate EGCG inhibition effect on mouse lung adenocarcinoma. Hum Genomics. 2016 07 25; 10 Suppl 2:19.
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Savic D, Ramaker RC, Roberts BS, Dean EC, Burwell TC, Meadows SK, Cooper SJ, Garabedian MJ, Gertz J, Myers RM. Distinct gene regulatory programs define the inhibitory effects of liver X receptors and PPARG on cancer cell proliferation. Genome Med. 2016 07 11; 8(1):74.
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Govindarajan R, Posey J, Chao CY, Lu R, Jadhav T, Javed AY, Javed A, Mahmoud FA, Osarogiagbon RU, Manne U. A comparison of 12-gene colon cancer assay gene expression in African American and Caucasian patients with stage II colon cancer. BMC Cancer. 2016 06 18; 16:368.
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Zhou L, Xu T, Zhang Y, Zhu M, Zhu W, Wang Z, Gu H, Wang H, Li P, Ying J, Yang L, Ren P, Li J, Xu Z, Ni L, Bao Q, Chen J. Transcriptional network in ovarian cancer cell line SKOV3 treated with Pinellia pedatisecta Schott extract. Oncol Rep. 2016 Jul; 36(1):462-70.
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Calura E, Bisognin A, Manzoni M, Todoerti K, Taiana E, Sales G, Morgan GJ, Tonon G, Amodio N, Tassone P, Neri A, Agnelli L, Romualdi C, Bortoluzzi S. Disentangling the microRNA regulatory milieu in multiple myeloma: integrative genomics analysis outlines mixed miRNA-TF circuits and pathway-derived networks modulated in t(4;14) patients. Oncotarget. 2016 Jan 19; 7(3):2367-78.
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Grinchuk OV, Motakis E, Yenamandra SP, Ow GS, Jenjaroenpun P, Tang Z, Yarmishyn AA, Ivshina AV, Kuznetsov VA. Sense-antisense gene-pairs in breast cancer and associated pathological pathways. Oncotarget. 2015 Dec 08; 6(39):42197-221.
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Kogan V, Molodtsov I, Menshikov LI, Shmookler Reis RJ, Fedichev P. Stability analysis of a model gene network links aging, stress resistance, and negligible senescence. Sci Rep. 2015 Aug 28; 5:13589.
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Clarke K, Daubon T, Turan N, Soulet F, Mohd Zahari M, Ryan KR, Durant S, He S, Herbert J, Ankers J, Heath JK, Bjerkvig R, Bicknell R, Hotchin NA, Bikfalvi A, Falciani F. Inference of Low and High-Grade Glioma Gene Regulatory Networks Delineates the Role of Rnd3 in Establishing Multiple Hallmarks of Cancer. PLoS Genet. 2015 Jul; 11(7):e1005325.
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Kant S, Agarwal S, Pancholi P, Pancholi V. The Streptococcus pyogenes orphan protein tyrosine phosphatase, SP-PTP, possesses dual specificity and essential virulence regulatory functions. Mol Microbiol. 2015 Aug; 97(3):515-40.
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