Abul-Hu sn NS, Bushlin I, Morón JA, Jenkins SL, Dolios G, Wang R, Iyengar R, Ma'ayan A, Devi LA. Systems approach to explore components and interactions in the presynapse. Proteomics. 2009 Jun 27;9(12):3303-3315.

Macarth ur BD, Ma'ayan A, Lemischka IR. Toward stem cell systems biology: From molecules to networks and landscapes. Cold Spring Harb Symp Quant Biol. 2009 Mar 27.

Lachman n A, Ma'ayan A. KEA: kinase enrichment analysis. Bioinformatics. 2009 Mar 1;25(5):684-6.

Ma'ayan A, Jenkins SL, Barash A, Iyengar R. Neuro2A Differentiation by G{alpha}i/o Pathway. Sci Signal. 2009 Jan 20;2(54):cm1.

Ma'ayan A, Jenkins SL, Webb RL, Berger SI, Purushothaman SP, Abul-Husn NS, Posner JM, Flores T, Iyengar R. SNAVI: Desktop application for analysis and visualization of large-scale signaling networks. BMC Syst Biol. 2009 Jan 20;3(1):10.

Ma'ayan A, Cecchi GA, Wagner J, Rao AR, Iyengar R, Stolovitzky G. Ordered cyclic motifs contribute to dynamic stability in biological and engineered networks. Proc Natl Acad Sci USA, 2008 Nov 25.

Ma'ayan A. Insights into the organization of biochemical regulatory networks using graph theory analyses. J Biol Chem. 2008 Oct 20.

Lu TC, Wang Z, Feng X, Chuang P, Fang W, Chen Y, Neves S, Ma'ayan A, Xiong H, Liu Y, Iyengar R, Klotman PE, He JC. Retinoic acid utilizes CREB and USF1 in a transcriptional feed-forward loop in order to stimulate MKP1 expression in human immunodeficiency virus-infected podocytes. Mol Cell Biol. 2008 Sep;28(18):5785-94.

Ma'ayan A. Network Integration and graph analysis in mammalian molecular systems biology. IET Syst Biol. 2008 Sept;2 (5):206-221.

Ma'ayan A, Lipshtat A, Iyengar R, Sontag ED. Proximity of intracellular regulatory networks to monotone systems. IET Syst Biol. 2008 May;2(3):103.

Bromberg KD, Ma'ayan A, Neves SR, Iyengar R. Design logic of a cannabinoid receptor signaling network that triggers neurite outgrowth. Science. 2008 May 16;320(5878):903-9.

Ma'ayan A. PubMedAlertMe-Standalone Windows-based PubMed SDI software application. Comput Biol Med. 2008 Apr 8;38(5):620-622.

Lipshtat A, Purushothaman SP, Iyengar R, Ma'ayan A. Functions of bifans in context of multiple regulatory motifs in signaling networks. Biophys J. 2008 Apr 1;94(7):2566-79.

White AG, Ma'ayan A. Connecting seed lists of mammalian proteins using steiner trees. Signals, systems and computers, ACSSC 2007. Conference Record of the Forty-First Asilomar Conference. 2007 Nov 4-7:155-159.

Caplan AJ, Ma'ayan A, Willis IM. Multiple Kinases and System Robustness: A Link Between Cdc37 and Genome Integrity. Cell Cycle. 2007 Oct 3;6(24).

Berger SI, Posner JM, Ma'ayan A. Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases. BMC Bioinformatics. 2007 Oct 4;8(1):372.

Berger SI, Iyengar R, Ma'ayan A. AVIS: AJAX Viewer of Interactive Signaling Networks. Bioinformatics. 2007 Oct 15;23(20):2803-5.

Zaidel-Bar R, Itzkovitz S, Ma'ayan A, Iyengar R, Geiger B. Functional atlas of the integrin adhesome. Nat Cell Biol. 2007 Aug;9(8):858-67.

Ma'ayan A, Jenkins SL, Goldfarb J, Iyengar R. Network analysis of FDA approved drugs and their targets. Mt Sinai J Med. 2007 May 21;74(1):27-32.

Ma'ayan A, Lipshtat A, Iyengar R. Topology of resultant networks shaped by evolutionary pressure. Phys Rev E Stat Nonlin Soft Matter Phys. 2006 Jun;73(6 Pt 1):061912.

Hasseldine A, Lipshtat A, Iyengar R, Ma'ayan A. Modeling Cell Signaling Networks. In Bioinformatics - From Genomes to Therapies Vol. 2. Ed. Lengauer T. (Wiley-VCH, Weinheim) 2007;829- 860.

Ma'ayan A, Gardiner K, Iyengar R. The Cognitive Phenotype of Down Syndrome: Insights from Intracellular Network Analysis. NeuroRx. 2006 Jul;3(3):396-406.

Ma'ayan A, Iyengar R. From components to regulatory motifs in signalling networks. Briefings in Functional Genomics and Proteomics. 2006 Feb;5(1):57-61.

Ma'ayan A, Jenkins SL, Neves S, Hasseldine A, Grace E, Dubin-Thaler B, Eungdamrong NJ, Weng G, Ram PT, Rice JJ, Kershenbaum A, Stolovitzky GA, Blitzer RD, Iyengar R. Formation of regulatory patterns during signal propagation in a Mammalian cellular network. Science. 2005 Aug 12;309(5737):1078-83.

Ma'ayan A, Blitzer RD, Iyengar R. Toward Predictive Models of Mammalian Cells. Annu Rev Biophys Biomol Struct. 2005;34:319-49.

Ma'ayan A, Cecchi G, Wagner J, Rao R, Lipshtat A, Iyengar R, Stolovitzky G. Number of different configurations of cycles (loops) in graphs containing directed and undirected links. The On-Line Encyclopedia of Integer Sequences. sequence ID: A117747.