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Creative Data Solutions (CDS) is a Vanderbilt Shared Resource and has extensive experience in providing effective and robust solutions to challenges pertaining to research data using modern informatics and bioinformatics approaches.
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Connections to Gene Deletion are shown below. Double-click or tap a node for more information.
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- NFKBIA deletion in glioblastomas.
Bredel M, Scholtens DM, Yadav AK, Alvarez AA, Renfrow JJ, Chandler JP, Yu IL, Carro MS, Dai F, Tagge MJ, Ferrarese R, Bredel C, Phillips HS, Lukac PJ, Robe PA, Weyerbrock A, Vogel H, Dubner S, Mobley B, He X, Scheck AC, Sikic BI, Aldape KD, Chakravarti A, Harsh GR
(2011) N Engl J Med 364: 627-37 - p19ARF directly and differentially controls the functions of c-Myc independently of p53.
Qi Y, Gregory MA, Li Z, Brousal JP, West K, Hann SR
(2004) Nature 431: 712-7 - Leptin regulation of bone resorption by the sympathetic nervous system and CART.
Elefteriou F, Ahn JD, Takeda S, Starbuck M, Yang X, Liu X, Kondo H, Richards WG, Bannon TW, Noda M, Clement K, Vaisse C, Karsenty G
(2005) Nature 434: 514-20 - Patched acts catalytically to suppress the activity of Smoothened.
Taipale J, Cooper MK, Maiti T, Beachy PA
(2002) Nature 418: 892-7 - Shh and Gli3 are dispensable for limb skeleton formation but regulate digit number and identity.
Litingtung Y, Dahn RD, Li Y, Fallon JF, Chiang C
(2002) Nature 418: 979-83 - Lymphatic vascular defects promoted by Prox1 haploinsufficiency cause adult-onset obesity.
Harvey NL, Srinivasan RS, Dillard ME, Johnson NC, Witte MH, Boyd K, Sleeman MW, Oliver G
(2005) Nat Genet 37: 1072-81 - What causes mitochondrial DNA deletions in human cells?
Krishnan KJ, Reeve AK, Samuels DC, Chinnery PF, Blackwood JK, Taylor RW, Wanrooij S, Spelbrink JN, Lightowlers RN, Turnbull DM
(2008) Nat Genet 40: 275-9 - The K-Cl cotransporter KCC3 is mutant in a severe peripheral neuropathy associated with agenesis of the corpus callosum.
Howard HC, Mount DB, Rochefort D, Byun N, Dupré N, Lu J, Fan X, Song L, Rivière JB, Prévost C, Horst J, Simonati A, Lemcke B, Welch R, England R, Zhan FQ, Mercado A, Siesser WB, George AL, McDonald MP, Bouchard JP, Mathieu J, Delpire E, Rouleau GA
(2002) Nat Genet 32: 384-92 - Pathogenic Germline Variants in 10,389 Adult Cancers.
Huang KL, Mashl RJ, Wu Y, Ritter DI, Wang J, Oh C, Paczkowska M, Reynolds S, Wyczalkowski MA, Oak N, Scott AD, Krassowski M, Cherniack AD, Houlahan KE, Jayasinghe R, Wang LB, Zhou DC, Liu D, Cao S, Kim YW, Koire A, McMichael JF, Hucthagowder V, Kim TB, Hahn A, Wang C, McLellan MD, Al-Mulla F, Johnson KJ, Cancer Genome Atlas Research Network, Lichtarge O, Boutros PC, Raphael B, Lazar AJ, Zhang W, Wendl MC, Govindan R, Jain S, Wheeler D, Kulkarni S, Dipersio JF, Reimand J, Meric-Bernstam F, Chen K, Shmulevich I, Plon SE, Chen F, Ding L
(2018) Cell 173: 355-370.e14 - ATR and ATRIP: partners in checkpoint signaling.
Cortez D, Guntuku S, Qin J, Elledge SJ
(2001) Science 294: 1713-6 - Strong association of de novo copy number mutations with autism.
Sebat J, Lakshmi B, Malhotra D, Troge J, Lese-Martin C, Walsh T, Yamrom B, Yoon S, Krasnitz A, Kendall J, Leotta A, Pai D, Zhang R, Lee YH, Hicks J, Spence SJ, Lee AT, Puura K, Lehtimäki T, Ledbetter D, Gregersen PK, Bregman J, Sutcliffe JS, Jobanputra V, Chung W, Warburton D, King MC, Skuse D, Geschwind DH, Gilliam TC, Ye K, Wigler M
(2007) Science 316: 445-9 - Cysteine depletion induces pancreatic tumor ferroptosis in mice.
Badgley MA, Kremer DM, Maurer HC, DelGiorno KE, Lee HJ, Purohit V, Sagalovskiy IR, Ma A, Kapilian J, Firl CEM, Decker AR, Sastra SA, Palermo CF, Andrade LR, Sajjakulnukit P, Zhang L, Tolstyka ZP, Hirschhorn T, Lamb C, Liu T, Gu W, Seeley ES, Stone E, Georgiou G, Manor U, Iuga A, Wahl GM, Stockwell BR, Lyssiotis CA, Olive KP
(2020) Science 368: 85-89 - Virulence factors enhance Citrobacter rodentium expansion through aerobic respiration.
Lopez CA, Miller BM, Rivera-Chávez F, Velazquez EM, Byndloss MX, Chávez-Arroyo A, Lokken KL, Tsolis RM, Winter SE, Bäumler AJ
(2016) Science 353: 1249-53 - Genetics. Insights into the pathogenesis of autism.
Sutcliffe JS
(2008) Science 321: 208-9 - Trefoil peptides: less clandestine in the intestine.
Chinery R, Coffey RJ
(1996) Science 274: 204 - Abrogation of TGF beta signaling in mammary carcinomas recruits Gr-1+CD11b+ myeloid cells that promote metastasis.
Yang L, Huang J, Ren X, Gorska AE, Chytil A, Aakre M, Carbone DP, Matrisian LM, Richmond A, Lin PC, Moses HL
(2008) Cancer Cell 13: 23-35 - Crucial role of a long-chain fatty acid elongase, Elovl6, in obesity-induced insulin resistance.
Matsuzaka T, Shimano H, Yahagi N, Kato T, Atsumi A, Yamamoto T, Inoue N, Ishikawa M, Okada S, Ishigaki N, Iwasaki H, Iwasaki Y, Karasawa T, Kumadaki S, Matsui T, Sekiya M, Ohashi K, Hasty AH, Nakagawa Y, Takahashi A, Suzuki H, Yatoh S, Sone H, Toyoshima H, Osuga J, Yamada N
(2007) Nat Med 13: 1193-202 - Alternate replication in B cells and epithelial cells switches tropism of Epstein-Barr virus.
Borza CM, Hutt-Fletcher LM
(2002) Nat Med 8: 594-9 - Minimal nuclear pore complexes define FG repeat domains essential for transport.
Strawn LA, Shen T, Shulga N, Goldfarb DS, Wente SR
(2004) Nat Cell Biol 6: 197-206 - Specific EGFR mutations predict treatment outcome of stage IIIB/IV patients with chemotherapy-naive non-small-cell lung cancer receiving first-line gefitinib monotherapy.
Yang CH, Yu CJ, Shih JY, Chang YC, Hu FC, Tsai MC, Chen KY, Lin ZZ, Huang CJ, Shun CT, Huang CL, Bean J, Cheng AL, Pao W, Yang PC
(2008) J Clin Oncol 26: 2745-53 - Increased epidermal growth factor receptor gene copy number is associated with poor prognosis in head and neck squamous cell carcinomas.
Chung CH, Ely K, McGavran L, Varella-Garcia M, Parker J, Parker N, Jarrett C, Carter J, Murphy BA, Netterville J, Burkey BB, Sinard R, Cmelak A, Levy S, Yarbrough WG, Slebos RJ, Hirsch FR
(2006) J Clin Oncol 24: 4170-6 - Rare complete knockouts in humans: population distribution and significant role in autism spectrum disorders.
Lim ET, Raychaudhuri S, Sanders SJ, Stevens C, Sabo A, MacArthur DG, Neale BM, Kirby A, Ruderfer DM, Fromer M, Lek M, Liu L, Flannick J, Ripke S, Nagaswamy U, Muzny D, Reid JG, Hawes A, Newsham I, Wu Y, Lewis L, Dinh H, Gross S, Wang LS, Lin CF, Valladares O, Gabriel SB, dePristo M, Altshuler DM, Purcell SM, NHLBI Exome Sequencing Project, State MW, Boerwinkle E, Buxbaum JD, Cook EH, Gibbs RA, Schellenberg GD, Sutcliffe JS, Devlin B, Roeder K, Daly MJ
(2013) Neuron 77: 235-42 - Deletion of Macrophage Low-Density Lipoprotein Receptor-Related Protein 1 (LRP1) Accelerates Atherosclerosis Regression and Increases C-C Chemokine Receptor Type 7 (CCR7) Expression in Plaque Macrophages.
Mueller PA, Zhu L, Tavori H, Huynh K, Giunzioni I, Stafford JM, Linton MF, Fazio S
(2018) Circulation 138: 1850-1863 - Inhibition and genetic ablation of the B7/CD28 T-cell costimulation axis prevents experimental hypertension.
Vinh A, Chen W, Blinder Y, Weiss D, Taylor WR, Goronzy JJ, Weyand CM, Harrison DG, Guzik TJ
(2010) Circulation 122: 2529-37 - Homeostatic Responses Regulate Selfish Mitochondrial Genome Dynamics in C. elegans.
Gitschlag BL, Kirby CS, Samuels DC, Gangula RD, Mallal SA, Patel MR
(2016) Cell Metab 24: 91-103 - The E6-Ap ubiquitin-protein ligase (UBE3A) gene is localized within a narrowed Angelman syndrome critical region.
Sutcliffe JS, Jiang YH, Galijaard RJ, Matsuura T, Fang P, Kubota T, Christian SL, Bressler J, Cattanach B, Ledbetter DH, Beaudet AL
(1997) Genome Res 7: 368-77 - Estrogen receptor gene analysis in estrogen receptor-positive and receptor-negative primary breast cancer.
Roodi N, Bailey LR, Kao WY, Verrier CS, Yee CJ, Dupont WD, Parl FF
(1995) J Natl Cancer Inst 87: 446-51 - A common deletion in the APOBEC3 genes and breast cancer risk.
Long J, Delahanty RJ, Li G, Gao YT, Lu W, Cai Q, Xiang YB, Li C, Ji BT, Zheng Y, Ali S, Shu XO, Zheng W
(2013) J Natl Cancer Inst 105: 573-9 - Calsequestrin 2 deletion causes sinoatrial node dysfunction and atrial arrhythmias associated with altered sarcoplasmic reticulum calcium cycling and degenerative fibrosis within the mouse atrial pacemaker complex1.
Glukhov AV, Kalyanasundaram A, Lou Q, Hage LT, Hansen BJ, Belevych AE, Mohler PJ, Knollmann BC, Periasamy M, Györke S, Fedorov VV
(2015) Eur Heart J 36: 686-97 - ETO family protein Mtg16 regulates the balance of dendritic cell subsets by repressing Id2.
Ghosh HS, Ceribelli M, Matos I, Lazarovici A, Bussemaker HJ, Lasorella A, Hiebert SW, Liu K, Staudt LM, Reizis B
(2014) J Exp Med 211: 1623-35 - Deletion of Mtgr1 sensitizes the colonic epithelium to dextran sodium sulfate-induced colitis.
Martinez JA, Williams CS, Amann JM, Ellis TC, Moreno-Miralles I, Washington MK, Gregoli P, Hiebert SW
(2006) Gastroenterology 131: 579-88 - Hepatic β-arrestin 2 is essential for maintaining euglycemia.
Zhu L, Rossi M, Cui Y, Lee RJ, Sakamoto W, Perry NA, Urs NM, Caron MG, Gurevich VV, Godlewski G, Kunos G, Chen M, Chen W, Wess J
(2017) J Clin Invest 127: 2941-2945 - Regulation of iron homeostasis by the hypoxia-inducible transcription factors (HIFs).
Peyssonnaux C, Zinkernagel AS, Schuepbach RA, Rankin E, Vaulont S, Haase VH, Nizet V, Johnson RS
(2007) J Clin Invest 117: 1926-32 - Chimeric mice carrying 'regional' targeted deletion of the angiotensin type 1A receptor gene. Evidence against the role for local angiotensin in the in vivo feedback regulation of renin synthesis in juxtaglomerular cells.
Matsusaka T, Nishimura H, Utsunomiya H, Kakuchi J, Niimura F, Inagami T, Fogo A, Ichikawa I
(1996) J Clin Invest 98: 1867-77 - Epithelial hypoxia-inducible factor-1 is protective in murine experimental colitis.
Karhausen J, Furuta GT, Tomaszewski JE, Johnson RS, Colgan SP, Haase VH
(2004) J Clin Invest 114: 1098-106 - The glial cell response is an essential component of hypoxia-induced erythropoiesis in mice.
Weidemann A, Kerdiles YM, Knaup KX, Rafie CA, Boutin AT, Stockmann C, Takeda N, Scadeng M, Shih AY, Haase VH, Simon MC, Kleinfeld D, Johnson RS
(2009) J Clin Invest 119: 3373-83 - Bacteroides fragilis Toxin Coordinates a Pro-carcinogenic Inflammatory Cascade via Targeting of Colonic Epithelial Cells.
Chung L, Thiele Orberg E, Geis AL, Chan JL, Fu K, DeStefano Shields CE, Dejea CM, Fathi P, Chen J, Finard BB, Tam AJ, McAllister F, Fan H, Wu X, Ganguly S, Lebid A, Metz P, Van Meerbeke SW, Huso DL, Wick EC, Pardoll DM, Wan F, Wu S, Sears CL, Housseau F
(2018) Cell Host Microbe 23: 203-214.e5 - Myc signaling via the ARF tumor suppressor regulates p53-dependent apoptosis and immortalization.
Zindy F, Eischen CM, Randle DH, Kamijo T, Cleveland JL, Sherr CJ, Roussel MF
(1998) Genes Dev 12: 2424-33 - TFIIF-TAF-RNA polymerase II connection.
Henry NL, Campbell AM, Feaver WJ, Poon D, Weil PA, Kornberg RD
(1994) Genes Dev 8: 2868-78 - PDX1 dynamically regulates pancreatic ductal adenocarcinoma initiation and maintenance.
Roy N, Takeuchi KK, Ruggeri JM, Bailey P, Chang D, Li J, Leonhardt L, Puri S, Hoffman MT, Gao S, Halbrook CJ, Song Y, Ljungman M, Malik S, Wright CV, Dawson DW, Biankin AV, Hebrok M, Crawford HC
(2016) Genes Dev 30: 2669-2683
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