| 1 | Systems biology dissection of PTSD and MDD across brain regions, cell types, and blood. (Daskalakis NP, Iatrou A, Chatzinakos C, Jajoo A, Snijders C, Wylie D, DiPietro CP, Tsatsani I, Chen CY, Pernia CD, Soliva-Estruch M, Arasappan D, Bharadwaj RA, Collado-Torres L, Wuchty S, Alvarez VE, Dammer EB, Deep-Soboslay A, Duong DM, Eagles N, Huber BR, Huuki L, Holstein VL, Logue MW, Lugenbühl JF, Maihofer AX, Miller MW, Nievergelt CM, Pertea G, Ross D, Sendi MSE, Sun BB, Tao R, Tooke J, Wolf EJ, Zeier Z, PTSD Working Group of Psychiatric Genomics Consortium**, Berretta S, Champagne FA, Hyde T, Seyfried NT, Shin JH, Weinberger DR, Nemeroff CB, Kleinman JE, Ressler KJ, PTSD Working Group of Psychiatric Genomics Consortium) Science 2024 May 24;384(6698):eadh3707 44 Citations |
| 1 | SBML Level 3: an extensible format for the exchange and reuse of biological models. (Keating SM, Waltemath D, König M, Zhang F, Dräger A, Chaouiya C, Bergmann FT, Finney A, Gillespie CS, Helikar T, Hoops S, Malik-Sheriff RS, Moodie SL, Moraru II, Myers CJ, Naldi A, Olivier BG, Sahle S, Schaff JC, Smith LP, Swat MJ, Thieffry D, Watanabe L, Wilkinson DJ, Blinov ML, Begley K, Faeder JR, Gómez HF, Hamm TM, Inagaki Y, Liebermeister W, Lister AL, Lucio D, Mjolsness E, Proctor CJ, Raman K, Rodriguez N, Shaffer CA, Shapiro BE, Stelling J, Swainston N, Tanimura N, Wagner J, Meier-Schellersheim M, Sauro HM, Palsson B, Bolouri H, Kitano H, Funahashi A, Hermjakob H, Doyle JC, Hucka M, SBML Level 3 Community members) Mol Syst Biol 2020 Aug;16(8):e9110 193 Citations |
| 1 | Radiogenomics: A systems biology approach to understanding genetic risk factors for radiotherapy toxicity? (Herskind C, Talbot CJ, Kerns SL, Veldwijk MR, Rosenstein BS, West CM) Cancer Lett 2016 Nov 01;382(1):95-109 71 Citations |
| 1 | JSBML 1.0: providing a smorgasbord of options to encode systems biology models. (Rodriguez N, Thomas A, Watanabe L, Vazirabad IY, Kofia V, Gómez HF, Mittag F, Matthes J, Rudolph J, Wrzodek F, Netz E, Diamantikos A, Eichner J, Keller R, Wrzodek C, Fröhlich S, Lewis NE, Myers CJ, Le Novère N, Palsson BØ, Hucka M, Dräger A) Bioinformatics 2015 Oct 15;31(20):3383-6 32 Citations |
| 1 | Renal systems biology of patients with systemic inflammatory response syndrome. (Tsalik EL, Willig LK, Rice BJ, van Velkinburgh JC, Mohney RP, McDunn JE, Dinwiddie DL, Miller NA, Mayer ES, Glickman SW, Jaehne AK, Glew RH, Sopori ML, Otero RM, Harrod KS, Cairns CB, Fowler VG, Rivers EP, Woods CW, Kingsmore SF, Langley RJ) Kidney Int 2015 Oct;88(4):804-14 49 Citations |
| 1 | Systems biology with high-throughput sequencing reveals genetic mechanisms underlying the metabolic syndrome in the Lyon hypertensive rat. (Wang J, Ma MC, Mennie AK, Pettus JM, Xu Y, Lin L, Traxler MG, Jakoubek J, Atanur SS, Aitman TJ, Xing Y, Kwitek AE) Circ Cardiovasc Genet 2015 Apr;8(2):316-26 18 Citations |
| 3 | Disease pathways at the Rat Genome Database Pathway Portal: genes in context-a network approach to understanding the molecular mechanisms of disease. (Petri V, Hayman GT, Tutaj M, Smith JR, Laulederkind SJ, Wang SJ, Nigam R, De Pons J, Shimoyama M, Dwinell MR, Worthey EA, Jacob HJ) Hum Genomics 2014 Sep 30;8(1):17 7 Citations |
| 1 | An online model composition tool for system biology models. (Coskun SA, Cicek AE, Lai N, Dash RK, Ozsoyoglu ZM, Ozsoyoglu G) BMC Syst Biol 2013 Sep 05;7:88 10 Citations |
| 1 | Integrative analysis of the zinc finger transcription factor Lame duck in the Drosophila myogenic gene regulatory network. (Busser BW, Huang D, Rogacki KR, Lane EA, Shokri L, Ni T, Gamble CE, Gisselbrecht SS, Zhu J, Bulyk ML, Ovcharenko I, Michelson AM) Proc Natl Acad Sci U S A 2012 Dec 11;109(50):20768-73 20 Citations |
| 1 | PathCase-SB: integrating data sources and providing tools for systems biology research. (Coskun SA, Qi X, Cakmak A, Cheng E, Cicek AE, Yang L, Jadeja R, Dash RK, Lai N, Ozsoyoglu G, Ozsoyoglu ZM) BMC Syst Biol 2012 Jun 14;6(1):67 6 Citations |
| 1 | Using bioinformatics and systems genetics to dissect HDL-cholesterol genetics in an MRL/MpJ x SM/J intercross. (Leduc MS, Blair RH, Verdugo RA, Tsaih SW, Walsh K, Churchill GA, Paigen B) J Lipid Res 2012 Jun;53(6):1163-75 11 Citations |
| 1 | Integrative identification of core genetic regulatory modules via a structural model-based clustering method. (Tang B, Chen SS, Jin VX) Int J Comput Biol Drug Des 2011;4(2):127-46 2 Citations |
| 1 | Generating rate equations for complex enzyme systems by a computer-assisted systematic method. (Qi F, Dash RK, Han Y, Beard DA) BMC Bioinformatics 2009 Aug 04;10:238 34 Citations |
| 1 | Harnessing "omic" tools and computational hypothesis-driven approaches to understand biocomplexity: the future of Physiological Genomics. (Cowley AW Jr) Physiol Genomics 2008 Mar 14;33(1):1-2 3 Citations |
| 1 | Response to shape emerges in a complex biochemical network and its simple chemical analogue. (Kastrup CJ, Shen F, Ismagilov RF) Angew Chem Int Ed Engl 2007;46(20):3660-2 18 Citations |
| 1 | Physiology and genomics: toward systems biology. (Cowley AW Jr, Liang M) Sheng Li Xue Bao 2006 Feb 25;58(1):1-4 1 Citation |
