Publications
Gut Microbiota: Small Molecules Modulate Host Cellular Functions
JM Luber, AD Kostic • Current Biology 27 (8), R307 - R3102017
RS Mehta, R Nishihara, Y Cao, M Song, K Mima, ... • JAMA Oncology 3 (7), 921-927
2017
Aether: Leveraging Linear Programming For Optimal Cloud Computing In Genomics
JM Luber, BT Tierney, EM Cofer, CJ Patel, AD Kostic2017
Emerging Concepts and Technologies for the Discovery of Microorganisms Involved in Human Disease
S Bullman, ML Meyerson, AD Kostic • Annual Review of Pathology: Mechanisms of Disease 12 (1)2017
Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans
T Vatanen, AD Kostic, E d'Hennezel, H Siljander, EA Franzosa, M Yassour, R Kolde, H Vlamakis, TD Arthur, AM Hämäläinen, A Peet, V Tillmann, R Uibo, S Mokurov, N Dorshakova, J Ilonen, SM Virtanen, SJ Szabo, JA Porter, H Lähdesmäki, C Huttenhower, D Gevers, TW Cullen, M Knip, RJ Xavier • Cell 165 (4), 842-8532016
KA Shaw, M Bertha, T Hofmekler, P Chopra, T Vatanen, A Srivatsa, J Prince, A Kumar, C Sauer, ME Zwick, GA Satten, AD Kostic, JG Mulle, RJ Xavier, S Kugathasan • Genome Medicine 8 (1), 75
2016
Fusobacterium nucleatum in Colorectal Carcinoma Tissue According to Tumor Location
K Mima, Y Cao, AT Chan, ZR Qian, JA Nowak, Y Masugi, Y Shi, M Song, A da Silva, M Gu, W Li, T Hamada, K Kosumi, A H, L Liu, AD Kostic, M Giannakis, S Bullman, CA Brennan, DA Milner, H Baba, LA Garraway, JA Meyerhardt, WS Garrett, C Huttenhower, M Meyerson, EL Giovannucci, CS Fuchs, R Nishihara, S Ogino • Clinical and Translational Gastroenterology 7, 2002016
AD Kostic, D Gevers, H Siljander, T Vatanen, T Hyötyläinen, AM Hämäläinen, A Peet, V Tillmann, P Pöhö, I Mattila, H Lähdesmäki, EA Franzosa, O Vaarala, M de Goffau, H Harmsen, J Ilonen, SM Virtanen, CB Clish, M Orešič, C Huttenhower, M Knip, RJ Xavier • Cell Host & Microbe 17 (2), 260-273
2015
An integrative view of microbiome-host interactions in inflammatory bowel diseases
M Wlodarska, AD Kostic, RJ Xavier • Cell Host & Microbe 17 (5), 577-5912015
K Mima, Y Sukawa, R Nishihara, ZR Qian, M Yamauchi, K Inamura, SA Kim, A Masuda, JA Nowak, K Nosho, AD Kostic, M Giannakis, H Watanabe, S Bullman, DA Milner, CC Harris, E Giovannucci, LA Garraway, GJ Freeman, G Dranoff, AT Chan, WS Garrett, C Huttenhower, CS Fuchs, S Ogino • JAMA Oncology 1 (5), 653-661
2015
Fusobacterium nucleatum in colorectal carcinoma tissue and patient prognosis
K Mima, R Nishihara, ZR Qian, Y Cao, Y Sukawa, JA Nowak, J Yang, R Dou, Y Masugi, M Song, AD Kostic, M Giannakis, S Bullman, DA Milner, H Baba, EL Giovannucci, LA Garraway, GJ Freeman, G Dranoff, WS Garrett, C Huttenhower, M Meyerson, JA Meyerhardt, AT Chan, CS Fuchs, S Ogino • Gut 65, 1973-19802015
NK Pulloor, S Nair, AD Kostic, P Bist, JD Weaver, AM Riley, R Tyagi, PD Uchil, JD York, SH Snyder, A Garcia-Sastre, BVL Potter, R Lin, SB Shears, RJ Xavier, MN Krishnan • PLoS Pathog 10 (2), e1003981
2014
D Gevers, S Kugathasan, LA Denson, Y Vázquez-Baeza, W Van Treuren, B Ren, E Schwager, D Knights, SJ Song, M Yassour, XC Morgan, AD Kostic, C Luo, A Gonzalez, D McDonald, Y Haberman, T Walters, S Baker, J Rosh, M Stephens, M Heyman, J Markowitz, R Baldassano, A Griffiths, F Sylvester, D Mack, S Kim, W Crandall, J Hyams, C Huttenhower, R Knight, RJ Xavier • Cell Host & Microbe 15 (3), 382-392
2014
The microbiome in inflammatory bowel disease: current status and the future ahead
AD Kostic, RJ Xavier, D Gevers • Gastroenterology 146 (6), 1489-14992014
Inflammatory bowel disease as a model for translating the microbiome
C Huttenhower, AD Kostic, RJ Xavier • Immunity 40 (6), 843-8542014
AD Kostic, E Chun, L Robertson, JN Glickman, CA Gallini, M Michaud, TE Clancy, DC Chung, P Lochhead, GL Hold, EM El-Omar, D Brenner, CS Fuchs, M Meyerson, WS Garrett • Cell Host & Microbe 14 (2), 207-215
2013
AD Kostic, E Chun, M Meyerson, WS Garrett • Cancer Immunology Research 1 (3), 150-157
2013
Exploring host-microbiota interactions in animal models and humans
AD Kostic, MR Howitt, WS Garrett • Genes & Development 27, 701-7182013
Prognostically relevant gene signatures of high-grade serous ovarian carcinoma
RGW Verhaak, P Tamayo, JY Yang, D Hubbard, H Zhang, CJ Creighton, S Fereday, M Lawrence, SL Carter, CH Mermel, AD Kostic, D Etemadmoghadam, G Saskena, K Cibulski, S Duraisamy, K Levanon, C Sougnez, A Tsherniak, S Gomez, R Onofrio, S Gabriel, L Chin, N Zhang, PT Spellman, Y Zhang, R Akbani, KA Hoadley, A Kahn, M Köbel, D Huntsman, RA Soslow, A Defazio, MJ Birrer, JW Gray, JN Weinstein, DD Bowtell, R Drapkin, JP Mesirov, G Getz, DA Levine, M Meyerson • The Journal of Clinical Investigation 123 (1), 517-5252013
Sequence-based discovery of Bradyrhizobium enterica in cord colitis syndrome
AS Bhatt, SS Freeman, AF Herrera, CS Pedamallu, D Gevers, F Duke, J Jung, M Michaud, BJ Walker, S Young, AM Earl, AD Kostic, AI Ojesina, R Hasserjian, KK Ballen, YB Chen, G Hobbs, JH Antin, RJ Soiffer, LR Baden, WS Garrett, JL Hornick, FM Marty, M Meyerson • New England Journal of Medicine 369 (6), 517-5282013
Genomic analysis identifies association of Fusobacterium with colorectal carcinoma
AD Kostic, D Gevers, CS Pedamallu, M Michaud, F Duke, AM Earl, AI Ojesina, J Jung, AJ Bass, J Tabernero, Baselga J, C Liu, RA Shivdasani, S Ogino, BW Birren, C Huttenhower, WS Garrett, M Meyerson • Genome Research 22 (2), 292-2982012
AD Kostic, WS Garrett • EMBO Reports 13 (6), 478-480
2012
PathSeq: software to identify or discover microbes by deep sequencing of human tissue
AD Kostic, AI Ojesina, CS Pedamallu, J Jung, RG Verhaak, G Getz, M Meyerson • Nature Biotechnology 29 (5), 393-3962011
The mutational landscape of head and neck squamous cell carcinoma
N Stransky, AM Egloff, AD Tward, AD Kostic, K Cibulskis, A Sivachenko, GV Kryukov, MS Lawrence, C Sougnez, A McKenna, E Shefler, AH Ramos, P Stojanov, SL Carter, D Voet, ML Cortés, D Auclair, MF Berger, G Saksena, C Guiducci, RC Onofrio, M Parkin, M Romkes, JL Weissfeld, RR Seethala, L Wang, C Rangel-Escareño, JC Fernandez-Lopez, A Hidalgo-Miranda, J Melendez-Zajgla, W Winckler, K Ardlie, SB Gabriel, M Meyerson, ES Lander, G Getz, TR Golub, LA Garraway, JR Grandis • Science 333 (6046), 1157-11602011
DCF Sealey, AD Kostic, C LeBel, F Pryde, L Harrington • BMC Molecular Biology 12 (1), 1
2011