A global clustering algorithm to identify long intergenic non-coding RNA–with applications in mouse macrophages.
PLoS One. 2011; 6 (9): e24051 PubMed
Garmire LX, Garmire DG, Huang W, Yao J, Glass CK, Subramaniam S.
Bioinformatics and systems biology of the lipidome.
Chemical Reviews. 2011 Oct 12; 111 (10): 6452-6490 PubMed
Subramaniam S, Fahy E, Gupta S, Sud M, Byrnes RW, Cotter D, Dinasarapu AR, Maurya MR.
Community detection in biological networks using a variational bayes approach.
Conference Proceddings of the ISCA 3rd International Conference on Bioinformatics and Computational Biology, BICoB-2011. 2011 Mar 23
Narayanan T, Subramaniam S.
Experimental selection of hypoxia-tolerant Drosophila melanogaster.
Proc Natl Academy Sci USA. 2011 Feb 8; 108 (6): 2349-2354 PubMed
Zhou D, Udpa N, Gersten M, Visk DW, Bashir A, Xue J, Frazer KA, Posakony JW, Subramaniam S, Bafna V, Haddad GG.
Integration of lipidomics and transcriptomics data towards a systems biology model of sphingolipid metabolism.
BMC Systems Biology. 2011 Feb 8; 5:26 PubMed
Gupta S, Maurya MR, Merrill AH Jr, Glass CK, Subramaniam S.
Lipid classification, structures and tools.
Biochimica et Biopysica Acta (BBA) – Molecular and Cell Biology Lipids. 2011 Nov; 1811 (11): 637-647 PubMed
Fahy E, Cotter D, Sud M, Subramaniam S.
Modularity detection in protein-protein interaction networks.
BMC Research Notes. 2011 Dec 29; 4: 569 PubMed
Narayanan T, Gersten M, Subramaniam S, Grama A.
Mechanisms establishing TLR4-responsive activation states of inflammatory response genes.
PLoS Genetics. 2011 Dec; 7 (12): e1002401 PubMed
Escoubet-Lozach L, Benner C, Kaikkonen MU, Lozach J, Heinz S, Spann NJ, Crotti A, Stender J, Ghisletti S, Reichart D, Cheng CS, Luna R, Ludka C, Sasik R, Garcia-Bassets I, Hoffmann A, Subramaniam S, Hardiman G, Rosenfeld MG, Glass CK.
MicroRNA-21 targets peroxisome proliferators-activated receptor-alpha in an autoregulatory loop to modulate flow-induced endothelial inflammation.
Proc Natl Academy Sci USA. 2011 Jun 21; 108(25): 10355–10360 PubMed
Zhou J, Wang KC, Wu W, Subramaniam S, Shyy JY, Chiu JJ, Li JY, Chien S.
Multi-tissue, selective PPARγ modulation of insulin sensitivity and metabolic pathways in obese rats.
American Journal of Physiology, Endocrinology & Metabolism. 2011 Jan; 300 (1): E164-174 PubMed
Hsiao G, Chapman J, Ofrecio JM, Wilkes J, Resnik JL, Thapar D, Subramaniam S, Sears DD.
Pathways, networks, and systems medicine–the meeting place of the Aegean and the mind.
Wiley Interdisciplinary Reviews, Systems Biology & Medicine. 2011 May-Jun;3 (3): 253-254 PubMed
Subramaniam S, Nadeau JH.
Regulatory network of microRNAs in RAW 264.7 macrophage cells.
Conference Proceedings, 32nd Annual International Conference of the IEEE EMBS. 2010; 2010: 6198-6201 PubMed
Garmire LX, Shen Z, Briggs S, Yeo G, Subramaniam S, Glass C.
Signaling gateway molecule pages–a data model perspective.
Bioinformatics. 2011 Jun 15; 27 (12): 1736-1738 PubMed
Dinasarapu AR, Saunders B, Ozerlat I, Azam K, Subramaniam S.
Systems physiology–the heart of the matter or a bone of contention?
Wiley Interdisciplinary Reviews, Systems Biology & Medicine. 2011 Mar-Apr; 3 (2): 127-128 PubMed
Subramaniam S, Nadeau JH.