Most cited papers from Systems Biology Institute

Systems Biology Institute

What are the most cited papers from Systems Biology Institute?

The most cited paper from Systems Biology Institute is "Systems Biology: A Brief Overview" (Hiroaki Kitano, 2002), with 4,305 citations. Next come "A comprehensive pathway map of epidermal growth factor receptor signaling" (1,186) and "The Systems Biology Graphical Notation" (955).

Published TypeFieldAccessAuthorsCitations

Showing 50 of 60 papers. Every paper with more than 219 citations is listed.

Most cited papers, sortable by citations and release date
#	Paper
1	Systems Biology: A Brief Overview Hiroaki Kitano · Science	Mar 2002	4,305
2	A comprehensive pathway map of epidermal growth factor receptor signaling Kanae Oda, Yukiko Matsuoka, Akira Funahashi et al. · Molecular Systems Biology Open access	25 May 2005	1,186
3	The Systems Biology Graphical Notation Nicolas Le Novère et al. · Nature Biotechnology	Aug 2009	955
4	Towards a theory of biological robustness Hiroaki Kitano · Molecular Systems Biology Open access	18 Sep 2007	827
5	Structure of the human histamine H1 receptor complex with doxepin Tatsuro Shimamura, Mitsunori Shiroishi, Simone N. Weyand et al. · Nature Open access	21 Jun 2011	811
6	A small-molecule AdipoR agonist for type 2 diabetes and short life in obesity Miki Okada‐Iwabu, Toshimasa Yamauchi, Masato Iwabu et al. · Nature	29 Oct 2013	766
7	CellDesigner: a process diagram editor for gene-regulatory and biochemical networks Akira Funahashi, Mineo Morohashi, Hiroaki Kitano et al. · BIOSILICO	Nov 2003	640
8	Visualization of omics data for systems biology Nils Gehlenborg, Sean I O’Donoghue, Nitin S. Baliga et al. · Nature Methods Open access	Mar 2010	639
9	Combining Machine Learning Systems and Multiple Docking Simulation Packages to Improve Docking Prediction Reliability for Network Pharmacology Kun‐Yi Hsin, Samik Ghosh, Hiroaki Kitano · PLoS ONE Open access	31 Dec 2013	615
10	PINK1 autophosphorylation upon membrane potential dissipation is essential for Parkin recruitment to damaged mitochondria Kei Okatsu, Toshihiko Oka, Masahiro Iguchi et al. · Nature Communications Open access	21 Aug 2012	611
11	Generation of high-affinity DNA aptamers using an expanded genetic alphabet Michiko Kimoto, Rie Yamashige, Ken‐ichiro Matsunaga et al. · Nature Biotechnology	7 Apr 2013	517
12	Recurrent gain-of-function mutations of RHOA in diffuse-type gastric carcinoma Miwako Kakiuchi et al. · Nature Genetics	11 May 2014	515
13	Using process diagrams for the graphical representation of biological networks Hiroaki Kitano, Akira Funahashi, Yukiko Matsuoka et al. · Nature Biotechnology	Aug 2005	495
14	CellDesigner 3.5: A Versatile Modeling Tool for Biochemical Networks Akira Funahashi, Yukiko Matsuoka, Akiya Jouraku et al. · Proceedings of the IEEE	24 Jul 2008	479
15	Lenvatinib plus anti-PD-1 antibody combination treatment activates CD8+ T cells through reduction of tumor-associated macrophage and activation of the interferon pathway Yu Kato, Kimiyo Tabata, Takayuki Kimura et al. · PLoS ONE Open access	27 Feb 2019	471
16	Atomic structure of Hsp90-Cdc37-Cdk4 reveals that Hsp90 traps and stabilizes an unfolded kinase Kliment A. Verba, Ray Yu‐Ruei Wang, Akihiko Arakawa et al. · Science Open access	24 Jun 2016	454
17	The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line Harukazu Suzuki et al. · Nature Genetics Open access160 authors	19 Apr 2009	439
18	Genetic Associations with Gestational Duration and Spontaneous Preterm Birth Ge Zhang et al. · New England Journal of Medicine Open access	6 Sep 2017	423
19	DNA damage responses and p53 in the aging process Hui‐Ling Ou, Björn Schumacher · Blood Open access	15 Nov 2017	404
20	Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen Michael P. Menden et al. · Nature Communications Open access354 authors	17 Jun 2019	378
21	CAR-T and CAR-NK as cellular cancer immunotherapy for solid tumors Lei Peng, Giacomo Sferruzza, Luojia Yang et al. · Cellular and Molecular Immunology Open access	12 Aug 2024	364
22	A comprehensive map of the toll‐like receptor signaling network Kanae Oda, Hiroaki Kitano · Molecular Systems Biology Open access	12 Apr 2006	354
23	Multistep Engineering of Pyrrolysyl-tRNA Synthetase to Genetically Encode Nɛ-(o-Azidobenzyloxycarbonyl) lysine for Site-Specific Protein Modification Tatsuo Yanagisawa, Ryohei Ishii, Ryuya Fukunaga et al. · Chemistry & Biology Open access	Nov 2008	345
24	UTX and UTY Demonstrate Histone Demethylase-Independent Function in Mouse Embryonic Development Karl B. Shpargel, Toru Sengoku, Shigeyuki Yokoyama et al. · PLoS Genetics Open access	27 Sep 2012	323
25	DNA-binding domains of plant-specific transcription factors: structure, function, and evolution Kazuhiko Yamasaki, T. Kigawa, Motoaki Seki et al. · Trends in Plant Science Review	3 Oct 2012	320
26	Yeast Osmoregulation Stefan Hohmann, Marcus Krantz, Bodil Nordlander · Methods in enzymology on CD-ROM/Methods in enzymology Book chapter	2007	319
27	SBML Level 3: an extensible format for the exchange and reuse of biological models Sarah Keating et al. · Molecular Systems Biology Open access142 authors	Aug 2020	316
28	Biological robustness Hiroaki Kitano, Fumitoshi Matsuno · Nature Reviews Genetics Review	Nov 2004	312
29	Crystal structure of a prokaryotic homologue of the mammalian oligopeptide–proton symporters, PepT1 and PepT2 Simon L. Newstead, David A. Drew, Alexander David Cameron et al. · The EMBO Journal Open access	3 Dec 2010	309
30	Regional Neural Activation Defines a Gateway for Autoreactive T Cells to Cross the Blood-Brain Barrier Yasunobu Arima, Masaya Harada, Daisuke Kamimura et al. · Cell Open access	Feb 2012	309
31	Influenza Virus-Host Interactome Screen as a Platform for Antiviral Drug Development Tokiko Watanabe et al. · Cell Host & Microbe Open access	20 Nov 2014	307
32	SARS-CoV 3CL protease cleaves its C-terminal autoprocessing site by novel subsite cooperativity Tomonari Muramatsu, Chie Takemoto, YongTae Kim et al. · Proceedings of the National Academy of Sciences Open access	31 Oct 2016	306
33	HYBRID PETRI NET REPRESENTATION OF GENE REGULATORY NETWORK Hiroshi Matsuno, Atsushi Doi, Masao Nagasaki et al. Conference paper	Dec 1999	305
34	G-protein-coupled receptor inactivation by an allosteric inverse-agonist antibody Tomoya Hino, T. Arakawa, Hiroko Iwanari et al. · Nature Open access	27 Jan 2012	301
35	Basophil-Derived Interleukin-4 Controls the Function of Natural Helper Cells, a Member of ILC2s, in Lung Inflammation Yasutaka Motomura, Hideaki Morita, Kazuyo Moro et al. · Immunity Open access	May 2014	300
36	Integrating Pathways of Parkinson's Disease in a Molecular Interaction Map Kazuhiro Fujita, Marek Ostaszewski, Yukiko Matsuoka et al. · Molecular Neurobiology Open access	6 Jul 2013	291
37	Degradation of the performance of a YBCO-coated conductor double pancake coil due to epoxy impregnation Takuya Takematsu, R. Hu, T. Takao et al. · Physica C Superconductivity Open access	18 Jun 2010	289
38	Inhibition of Dectin-1 Signaling Ameliorates Colitis by Inducing Lactobacillus-Mediated Regulatory T Cell Expansion in the Intestine Ce Tang, Tomonori Kamiya, Yang Liu et al. · Cell Host & Microbe Open access	Aug 2015	288
39	Feasibility of chitosan-based hyaluronic acid hybrid biomaterial for a novel scaffold in cartilage tissue engineering Shintaro Yamane, Norimasa Iwasaki, Tokifumi Majima et al. · Biomaterials	13 May 2004	287
40	Molecular Basis of Alternating Access Membrane Transport by the Sodium-Hydantoin Transporter Mhp1 Tatsuro Shimamura, Simone N. Weyand, Oliver Beckstein et al. · Science Open access	22 Apr 2010	286
41	Adding l-lysine derivatives to the genetic code of mammalian cells with engineered pyrrolysyl-tRNA synthetases Takahito Mukai, Takatsugu Kobayashi, Nobumasa Hino et al. · Biochemical and Biophysical Research Communications	9 May 2008	283
42	Type 2 innate lymphoid cells disrupt bronchial epithelial barrier integrity by targeting tight junctions through IL-13 in asthmatic patients Kazunari Sugita, Catherine A. Steer, Itziar Martínez-González et al. · Journal of Allergy and Clinical Immunology Open access	6 Apr 2017	280
43	An Interleukin-33-Mast Cell-Interleukin-2 Axis Suppresses Papain-Induced Allergic Inflammation by Promoting Regulatory T Cell Numbers Hideaki Morita et al. · Immunity Open access	Jul 2015	273
44	Software for systems biology: from tools to integrated platforms Samik Ghosh, Yukiko Matsuoka, Yoshiyuki Asai et al. · Nature Reviews Genetics Review	3 Nov 2011	267
45	Epigenetics as a mediator of plasticity in cancer Andrew P. Feinberg, Andre Levchenko · Science Open access	10 Feb 2023	261
46	The Antimicrobial Protein REG3A Regulates Keratinocyte Proliferation and Differentiation after Skin Injury Yuping Lai, Dongqing Li, Changwei Li et al. · Immunity Open access	21 Jun 2012	259
47	Dynamic Functional Relay between Insulin Receptor Substrate 1 and 2 in Hepatic Insulin Signaling during Fasting and Feeding Naoto Kubota et al. · Cell Metabolism Open access	Jul 2008	250
48	Structure and mechanism of the mammalian fructose transporter GLUT5 Norimichi Nomura et al. · Nature Open access	29 Sep 2015	248
49	A comprehensive map of the mTOR signaling network Étienne Caron, Samik Ghosh, Yukiko Matsuoka et al. · Molecular Systems Biology Open access	21 Dec 2010	245
50	Neutrophil-derived IL-1β Is Sufficient for Abscess Formation in Immunity against Staphylococcus aureus in Mice John S. Cho, Yi Guo, Romela Irene Ramos et al. · PLoS Pathogens Open access	29 Nov 2012	244

Citations are OpenAlex's own counts, from its 2026-09-23 snapshot, so the ranking can differ from Google Scholar or Web of Science. A paper is listed for an institution when any of its authors gave it as an affiliation; retracted papers and papers whose citation count cannot be traced to citing works are left out, and a preprint and the article it became are shown once. Release dates are OpenAlex's: where a source gave only a month or a year, that is what is shown. How the lists are chosen.