Publications

TITLE

CITED BY
YEAR

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), 1157-1160

2011

The treatment-naive microbiome in new-onset Crohn’s disease

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

690

2014

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), 292-298

622

2012

The microbiome in inflammatory bowel disease: current status and the future ahead

AD Kostic, RJ Xavier, D Gevers • Gastroenterology 146 (6), 1489-1499

438

2014

Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment

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

400

2013

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), 517-525

226

2013

The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes

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

209

2015

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), 393-396

165

2011

Exploring host-microbiota interactions in animal models and humans

AD Kostic, MR Howitt, WS Garrett • Genes & Development 27, 701-718

134

2013

Inflammatory bowel disease as a model for translating the microbiome

C Huttenhower, AD Kostic, RJ Xavier • Immunity 40 (6), 843-854

128

2014

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), 842-853

114

2016

Fusobacterium nucleatum and T cells in colorectal carcinoma

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

81

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, 1973-1980

74

2015

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), 517-528

74

2013

An integrative view of microbiome-host interactions in inflammatory bowel diseases

M Wlodarska, AD Kostic, RJ Xavier • Cell Host & Microbe 17 (5), 577-591

69

2015

Human genome-wide RNAi screen identifies an essential role for inositol pyrophosphates in Type-I interferon response

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

35

2014

Microbes and inflammation in colorectal cancer

AD Kostic, E Chun, M Meyerson, WS Garrett • Cancer Immunology Research 1 (3), 150-157

29

2013

Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease

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

15

2016

The TPR-containing domain within Est1 homologs exhibits species-specific roles in telomerase interaction and telomere length homeostasis

DCF Sealey, AD Kostic, C LeBel, F Pryde, L Harrington • BMC Molecular Biology 12 (1), 1

12

2011

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, 200

11

2016

Association of Dietary Patterns With Risk of Colorectal Cancer Subtypes Classified by Fusobacterium nucleatum in Tumor Tissue

RS Mehta, R Nishihara, Y Cao, M Song, K Mima, ... • JAMA Oncology 3 (7), 921-927

7

2017

Gut Microbiota: Small Molecules Modulate Host Cellular Functions

JM Luber, AD Kostic • Current Biology 27 (8), R307 - R310

1

2017

Aether: Leveraging Linear Programming For Optimal Cloud Computing In Genomics

JM Luber, BT Tierney, EM Cofer, CJ Patel, AD Kostic

2017

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

Keystone microbiome meeting 2012: a mountaintop experience

AD Kostic, WS Garrett • EMBO Reports 13 (6), 478-480

2012