{"id":85,"date":"2014-06-12T11:27:16","date_gmt":"2014-06-12T15:27:16","guid":{"rendered":"https:\/\/sites.bu.edu\/phenogeno\/?page_id=85"},"modified":"2014-07-17T16:59:22","modified_gmt":"2014-07-17T20:59:22","slug":"diabetes","status":"publish","type":"page","link":"https:\/\/sites.bu.edu\/phenogeno\/research\/systems-biology-of-disease\/diabetes\/","title":{"rendered":"Diabetes"},"content":{"rendered":"

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Selected publications are below.<\/p>\n

    \n
  1. To supplement or not to supplement: a metabolic network framework for human nutritional supplements<\/a>. Nogiec CD, Kasif S. PLoS One. 2013;8(8):e68751. doi: 10.1371\/journal.pone.0068751. PMID: 23967053<\/li>\n
  2. Deep sequencing of the oral microbiome reveals s signatures of periodontal disease<\/a>, Bo Liu1,2<\/sup>*, Lina Faller3<\/sup>*, Niels Klitgord3<\/sup>*, Varun Mazumdar3<\/sup>*, Mohammad Ghodsi1,2<\/sup>,Daniel D. Sommer1<\/sup>, Theodore R. Gibbons1,4<\/sup>, Todd J. Treangen1,10<\/sup>, Yi-Chien Chang3<\/sup>,Shan Li5<\/sup>, O. Colin Stine5<\/sup>, Hatice Hasturk8<\/sup>, Simon Kasif3,7,9<\/sup>, Daniel Segr\u00e83,6,7<\/sup>#,\u00a0 Mihai Pop1,2,4<\/sup>#, Salomon Amar3,8<\/sup>#,, PLOS One, 2012<\/li>\n
  3. Network Signatures of Insulin Resistance and Life Span, M. Liu, M. Mori, IS. Kohane, ME Patti, A. Goldfine, CR Kahn, S. Kasif, in preparation.<\/li>\n
  4. Chris Nogiec, Allison Burkhart, Jonathan Dreyfuss, Simon Kasif* and ME Patti*, Metabolic Analysis of Insulin Resistance, in revision (contributed equally authors), in review.<\/li>\n
  5. Towards a Personal Repeatome: A Genome-Wide Survey of Length Variation in Short Tandem Repeats in Human Gene Transcripts, in preparation.<\/li>\n
  6. A Systems Biology Approach Links Inflammation to the Predisposition to Metabolic Diseases in Mouse Strains<\/a>, Marcelo Mori*, Manway Liu*, Simon Kasif, Ron Kahn, Diabetes 2010.<\/li>\n
  7. Transcriptome Analysis Reveals Parallel Dysregulation of Oxidative Metabolism and Inflammation in Muscle and Adipose Tissue With Progression of Insulin Resistance in Humans, Mary-Elizabeth Patti, Manway Liu, Wanzhu Jin, Carles Lerin, Jonathan Dreyfuss, Martha Vokes, Joshua Schroeder, Elizabeth Tatro, Peter Park, Isaac Kohane, Igor Leykin, Simon Kasif, and Allison Goldfine, in preparation.<\/li>\n
  8. Triplet repeat length bias and variation in the human transcriptome<\/a>,\u00a0 Molla M*, Delcher A*, Cantor CR, Kasif S, Proc. of National Academy of Sciences, Oct. 2009, PMID: 19805156<\/li>\n
  9. Integration of heterogeneous expression data sets extends the role of the retinol pathway in diabetes and insulin resistance<\/a>. Park PJ, Kong SW, Tebaldi T, Lai WR, Kasif S, Kohane IS. Bioinformatics. 2009 Dec 1;25(23):3121-7. Epub 2009 Sep 28.PMID: 19786482<\/li>\n
  10. Biological process linkage networks<\/a>. Dotan-Cohen D, Letovsky S, Melkman AA, Kasif S. PLoS ONE. 2009;4(4):e5313. Epub 2009 Apr 23. PMID 19390589<\/li>\n
  11. Accelerated postnatal growth increases lipogenic gene expression and adipocyte size in low-birth weight mice<\/a>. Isganaitis E, Jimenez-Chillaron J, Woo M, Chow A, DeCoste J, Vokes M, Liu M, Kasif S, Zavacki AM, Leshan RL, Myers MG, Patti ME. Diabetes. 2009 May;58(5):1192-200. Epub 2009 Feb 10. PMID: 19208909<\/li>\n
  12. Context specific protein function prediction<\/a>. Nariai N, Kasif S. Genome Inform. 2007; 18:173-82. PMID: 18546485<\/li>\n
  13. Tullai JW, Schaffer ME, Mullenbrock S, Sholder G, Kasif S, Cooper GM.\u00a0Immediate-early and delayed primary response genes are distinct in function and genomic architecture<\/a>, J Biol Chem. 2007 Jun 15;<\/li>\n
  14. Tullai JW, Chen J, Schaffer ME, Kamenetsky E, Kasif S, Cooper GM.\u00a0Glycogen synthase kinase-3 represses cyclic AMP response element-binding protein (CREB)-targeted immediate early genes in quiescent cells<\/a>. J Biol Chem. 2007 Mar 30;282(13):9482-91. Epub 2007 Feb 3. PMID: 17277356<\/li>\n
  15. Liu M, Liberzon A, Kong SW, Lai WR, Park PJ, Kohane IS, Kasif S.\u00a0Network-based analysis of affected biological processes in type 2 diabetes models<\/a>. PLoS Genet. 2007 Jun 15;3(6):e96. PMID:17571924<\/li>\n
  16. Murali TM, Wu CJ, Kasif S.\u00a0The art of gene function prediction<\/a>. Nature Biotechnology. 2006 Dec;24(12):1474-5. PMID: 17160037<\/li>\n
  17. Rachlin J, Cohen DD, Cantor C, Kasif S.\u00a0Biological context networks: a mosaic view of the interactome<\/a>. Nature\/Embo. Mol Syst Biol. 2006;2:66. Epub 2006 Nov 28. PMID: 17130868<\/li>\n
  18. Lee S, Kohane I, Kasif S.\u00a0Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes<\/a>. BMC Genomics. 2005 Nov 27;6:168. PMID: 16309559<\/li>\n
  19. Tullai JW, Schaffer ME, Mullenbrock S, Kasif S, Cooper GM.\u00a0Identification of transcription factor binding sites upstream of human genes regulated by the phosphatidylinositol 3-kinase and MEK\/ERK signaling pathways<\/a>. J Biol Chem. 2004 May 7;279(19):20167-77. Epub 2004 Feb 9. PMID: 14769801<\/li>\n
  20. Su Y, Murali TM, Pavlovic V, Schaffer M, Kasif S.\u00a0RankGene: identification of diagnostic genes based on expression data<\/a>. Bioinformatics. 2003 Aug 12;19(12):1578-9. PMID: 12912841<\/li>\n<\/ol>\n

     <\/p>\n

    <BACK<\/a><\/h3>\n

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      Selected publications are below. To supplement or not to supplement: a metabolic network framework for human nutritional supplements. Nogiec CD, Kasif S. PLoS One. 2013;8(8):e68751. doi: 10.1371\/journal.pone.0068751. PMID: 23967053 Deep sequencing of the oral microbiome reveals s signatures of periodontal disease, Bo Liu1,2*, Lina Faller3*, Niels Klitgord3*, Varun Mazumdar3*, Mohammad Ghodsi1,2,Daniel D. Sommer1, Theodore […]<\/p>\n","protected":false},"author":8738,"featured_media":0,"parent":79,"menu_order":1,"comment_status":"closed","ping_status":"closed","template":"profiles.php","meta":[],"_links":{"self":[{"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/pages\/85"}],"collection":[{"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/users\/8738"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/comments?post=85"}],"version-history":[{"count":5,"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/pages\/85\/revisions"}],"predecessor-version":[{"id":505,"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/pages\/85\/revisions\/505"}],"up":[{"embeddable":true,"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/pages\/79"}],"wp:attachment":[{"href":"https:\/\/sites.bu.edu\/phenogeno\/wp-json\/wp\/v2\/media?parent=85"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}