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Ulcerative colitis mucosal transcriptomes reveal mitochondriopathy and personalized mechanisms underlying disease severity and treatment response.
Haberman Y, Karns R, Dexheimer PJ, Schirmer M, Somekh J, Jurickova I, Braun T, Novak E, Bauman L, Collins MH, Mo A, Rosen MJ, Bonkowski E, Gotman N, Marquis A, Nistel M, Rufo PA, Baker SS, Sauer CG, Markowitz J, Pfefferkorn MD, Rosh JR, Boyle BM, Mack DR, Baldassano RN, Shah S, Leleiko NS, Heyman MB, Grifiths AM, Patel AS, Noe JD, Aronow BJ, Kugathasan S, Walters TD, Gibson G, Thomas SD, Mollen K, Shen-Orr S, Huttenhower C, Xavier RJ, Hyams JS, Denson LA. Haberman Y, et al. Nat Commun. 2019 Jan 3;10(1):38. doi: 10.1038/s41467-018-07841-3. Nat Commun. 2019. PMID: 30604764 Free PMC article.
Cell type-specific gene expression differences in complex tissues.
Shen-Orr SS, Tibshirani R, Khatri P, Bodian DL, Staedtler F, Perry NM, Hastie T, Sarwal MM, Davis MM, Butte AJ. Shen-Orr SS, et al. Nat Methods. 2010 Apr;7(4):287-9. doi: 10.1038/nmeth.1439. Epub 2010 Mar 7. Nat Methods. 2010. PMID: 20208531 Free PMC article.
Systems immunology reveals markers of susceptibility to West Nile virus infection.
Qian F, Goel G, Meng H, Wang X, You F, Devine L, Raddassi K, Garcia MN, Murray KO, Bolen CR, Gaujoux R, Shen-Orr SS, Hafler D, Fikrig E, Xavier R, Kleinstein SH, Montgomery RR. Qian F, et al. Clin Vaccine Immunol. 2015 Jan;22(1):6-16. doi: 10.1128/CVI.00508-14. Epub 2014 Oct 29. Clin Vaccine Immunol. 2015. PMID: 25355795 Free PMC article.
Cell-centred meta-analysis reveals baseline predictors of anti-TNFα non-response in biopsy and blood of patients with IBD.
Gaujoux R, Starosvetsky E, Maimon N, Vallania F, Bar-Yoseph H, Pressman S, Weisshof R, Goren I, Rabinowitz K, Waterman M, Yanai H, Dotan I, Sabo E, Chowers Y, Khatri P, Shen-Orr SS; Israeli IBD research Network (IIRN). Gaujoux R, et al. Gut. 2019 Apr;68(4):604-614. doi: 10.1136/gutjnl-2017-315494. Epub 2018 Apr 4. Gut. 2019. PMID: 29618496 Free PMC article.
Reconstructing disease dynamics for mechanistic insights and clinical benefit.
Frishberg A, Milman N, Alpert A, Spitzer H, Asani B, Schiefelbein JB, Bakin E, Regev-Berman K, Priglinger SG, Schultze JL, Theis FJ, Shen-Orr SS. Frishberg A, et al. Among authors: shen orr ss. Nat Commun. 2023 Oct 27;14(1):6840. doi: 10.1038/s41467-023-42354-8. Nat Commun. 2023. PMID: 37891175 Free PMC article.
Infliximab-Tumor Necrosis Factor Complexes Elicit Formation of Anti-Drug Antibodies.
Bar-Yoseph H, Pressman S, Blatt A, Gerassy Vainberg S, Maimon N, Starosvetsky E, Ungar B, Ben-Horin S, Shen-Orr SS, Chowers Y; Israeli IBD Research Nucleus. Bar-Yoseph H, et al. Gastroenterology. 2019 Nov;157(5):1338-1351.e8. doi: 10.1053/j.gastro.2019.08.009. Epub 2019 Aug 8. Gastroenterology. 2019. PMID: 31401142
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