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Systems Biology Papers

Selected Scientific Papers on Systems Biology

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Author(s)	Title	Journal	Year	Volume	Pages	Subscription Required	Times Cited (Google Scholar)	Date of Analysis
Kandel ER, Dudai Y, Mayford MR.	The molecular and systems biology of memory.	Cell.	2014	157(1)	163-86	+	232	15/08/2017
Ghosh S, Matsuoka Y, Asai Y, Hsin KY, Kitano H.	Software for systems biology: From tools to integrated platforms.	Nat Rev Genet.	2011	12(12)	821-32	+	189	15/08/2017
Loscalzo J, Barabasi AL.	Systems biology and the future of medicine.	Wiley Interdiscip Rev Syst Biol Med.	2011	3(6)	619-27	+	143	15/08/2017
Chuang HY, Hofree M, Ideker T.	A decade of systems biology.	Annu Rev Cell Dev Biol.	2010	26	721-44	+	210	15/08/2017
Gehlenborg N, O‘Donoghue SI, Baliga NS, Goesmann A, Hibbs MA, Kitano H, Kohlbacher O, Neuweger H, Schneider R, Tenenbaum D, Gavin AC.	Visualization of omics data for systems biology.	Nat Methods.	2010	7(3 Suppl.)	S56-68	+	443	15/08/2017
Huang da W, Sherman BT, Lempicki RA.	Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.	Nat Protoc.	2009	4(1)	44-57		7641	15/08/2017
Wang Z, Gerstein M, Snyder M.	RNA-Seq: A revolutionary tool for transcriptomics.	Nat Rev Genet.	2009	10(1)	57-63	+	6709	16/08/2017
Goh KI, Cusick ME, Valle D, Childs B, Vidal M, BarabÃ¡si AL.	The human disease network.	Proc Natl Acad Sci U S A.	2007	104(21)	8685-90		2225	16/08/2017
Boccaletti S, Latora V, Moreno Y, Chavez M, Hwang DU.	Complex networks: Structure and dynamics.	Physics Reports.	2006	424(4-5)	175-308	+	7503	16/08/2017
Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, PeregrÃn-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B, Richards DP, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete MM, Vlasblom J, Wu S, Orsi C, Collins SR, Chandran S, Haw R, Rilstone JJ, Gandi K, Thompson NJ, Musso G, St Onge P, Ghanny S, Lam MH, Butland G, Altaf-Ul AM, Kanaya S, Shilatifard A, O‘Shea E, Weissman JS, Ingles CJ, Hughes TR, Parkinson J, Gerstein M, Wodak SJ, Emili A, Greenblatt JF.	Global landscape of protein complexes in the yeast Saccharomyces cerevisiae.	Nature.	2006	440(7084)	637-43		2570	16/08/2017
Stelzl U, Worm U, Lalowski M, Haenig C, Brembeck FH, Goehler H, Stroedicke M, Zenkner M, Schoenherr A, Koeppen S, Timm J, Mintzlaff S, Abraham C, Bock N, Kietzmann S, Goedde A, ToksÃ¶z E, Droege A, Krobitsch S, Korn B, Birchmeier W, Lehrach H, Wanker EE.	A human protein-protein interaction network: A resource for annotating the proteome.	Cell.	2005	122(6)	957-68		2020	16/08/2017
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP.	Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.	Proc Natl Acad Sci U S A.	2005	102(43)	15545-50	+	12063	16/08/2017
Blagoev B, Ong SE, Kratchmarova I, Mann M.	Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics.	Nat Biotechnol.	2004	22(9)	1139-45	+	717	16/08/2017
Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuvéglise C, Talla E, Goffard N, Frangeul L, Aigle M, Anthouard V, Babour A, Barbe V, Barnay S, Blanchin S, Beckerich JM, Beyne E, Bleykasten C, Boisramé A, Boyer J, Cattolico L, Confanioleri F, De Daruvar A, Despons L, Fabre E, Fairhead C, Ferry-Dumazet H, Groppi A, Hantraye F, Hennequin C, Jauniaux N, Joyet P, Kachouri R, Kerrest A, Koszul R, Lemaire M, Lesur I, Ma L, Muller H, Nicaud JM, Nikolski M, Oztas S, Ozier-Kalogeropoulos O, Pellenz S, Potier S, Richard GF, Straub ML, Suleau A, Swennen D, Tekaia F, Wésolowski-Louvel M, Westhof E, Wirth B, Zeniou-Meyer M, Zivanovic I, Bolotin-Fukuhara M, Thierry A, Bouchier C, Caudron B, Scarpelli C, Gaillardin C, Weissenbach J, Wincker P, Souciet JL.	Genome evolution in yeasts.	Nature	2004	430(6995)	35-44	+	1357	16/08/2017
Hood L, Heath JR, Phelps ME, Lin B.	Systems biology and new technologies enable predictive and preventative medicine.	Science.	2004	306(5696)	640-3	+	1068	16/08/2017
Aebersold R, Mann M.	Mass spectrometry-based proteomics.	Nature.	2003	422(6928)	198-207	+	6673	16/08/2017
Giot L, Bader JS, Brouwer C, Chaudhuri A, Kuang B, Li Y, Hao YL, Ooi CE, Godwin B, Vitols E, Vijayadamodar G, Pochart P, Machineni H, Welsh M, Kong Y, Zerhusen B, Malcolm R, Varrone Z, Collis A, Minto M, Burgess S, McDaniel L, Stimpson E, Spriggs F, Williams J, Neurath K, Ioime N, Agee M, Voss E, Furtak K, Renzulli R, Aanensen N, Carrolla S, Bickelhaupt E, Lazovatsky Y, DaSilva A, Zhong J, Stanyon CA, Finley RL Jr, White KP, Braverman M, Jarvie T, Gold S, Leach M, Knight J, Shimkets RA, McKenna MP, Chant J, Rothberg JM.	A protein interaction map of Drosophila melanogaster.	Science.	2003	302(5651)	1727-36	+	2411	16/08/2017
Hucka M, Finney A, Sauro HM, Bolouri H, Doyle JC, Kitano H, Arkin AP, Bornstein BJ, Bray D, Cornish-Bowden A, Cuellar AA, Dronov S, Gilles ED, Ginkel M, Gor V, Goryanin II, Hedley WJ, Hodgman TC, Hofmeyr JH, Hunter PJ, Juty NS, Kasberger JL, Kremling A, Kummer U, Le NovÃ¨re N, Loew LM, Lucio D, Mendes P, Minch E, Mjolsness ED, Nakayama Y, Nelson MR, Nielsen PF, Sakurada T, Schaff JC, Shapiro BE, Shimizu TS, Spence HD, Stelling J, Takahashi K, Tomita M, Wagner J, Wang J; SBML Forum.	The systems biology markup language (SBML): A medium for representation and exchange of biochemical network models.	Bioinformatics.	2003	19(4)	524-31		2720	16/08/2017
Newman MEJ	The structure and function of complex networks.	SIAM Rev.	2003	45	167-256		16204	16/08/2017
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T.	Cytoscape: a software environment for integrated models of biomolecular interaction networks.	Genome Res.	2003	13(11)	2498-2504	+	8979	16/08/2017
Kitano H.	Computational systems biology.	Nature.	2002	420(6912)	206-10	+	2137	16/08/2017
Kitano H.	Systems biology: A brief overview.	Science.	2002	295(5560)	1662-4	+	3958	16/08/2017
Stelling J, Klamt S, Bettenbrock K, Schuster S, Gilles ED.	Metabolic network structure determines key aspects of functionality and regulation.	Nature.	2002	420(6912)	190-3	+	803	16/08/2017
Ideker T, Galitski T, Hood L	A new approach to decoding life: Systems biology.	Annu Rev Genomics Hum Genet.	2001	2	343-72		1725	16/08/2017
Jeong H, Tombor B, Albert R, Oltvai ZN, Barabasi AL.	The large scale organization of metabolic networks.	Nature.	2000	407(6804)	651-4		5003	16/08/2017
Barabasi AL, Albert R.	Emergence of scaling in random networks.	Science	1999	286(5439)	509-12	+	29014	16/08/2017
Tavazoie S, Hughes JD, Campbell MJ, Cho RJ, Church GM.	Systematic determination of genetic network architecture.	Nat Genet.	1999	22(3)	281-5	+	2710	16/08/2017
Watts DJ, Strogatz SH.	Collective dynamics of ‘small-world‘ networks.	Nature.	1998	393(6684)	440-42	+	33670	16/08/2017