Department of Genetics Publications for August 28th – September 10th, 2022

Department of Genetics faculty, postdocs, students and collaborators published 11 papers during August 28^th – September 10^th, 2022.

 

Integrating transcriptomics, metabolomics, and GWAS helps reveal molecular mechanisms for metabolite levels and disease risk. 

Yin X, Bose D, Kwon A, Hanks SC, Jackson AU, Stringham HM, Welch R, Oravilahti A, Fernandes Silva L; FinnGen, Locke AE, Fuchsberger C, Service SK, Erdos MR, Bonnycastle LL, Kuusisto J, Stitziel NO, Hall IM, Morrison J, Ripatti S, Palotie A, Freimer NB, Collins FS, Mohlke KL, Scott LJ, Fauman EB, Burant C, Boehnke M, Laakso M, Wen X.

Am J Hum Genet. 2022 Aug 30:S0002-9297(22)00359-7. doi: 10.1016/j.ajhg.2022.08.007. Online ahead of print.

PMID: 36055244

 

Predicting remission after internet-delivered psychotherapy in patients with depression using machine learning and multi-modal data. 

Wallert J, Boberg J, Kaldo V, Mataix-Cols D, Flygare O, Crowley JJ, Halvorsen M, Ben Abdesslem F, Boman M, Andersson E, Hentati Isacsson N, Ivanova E, Rück C.

Transl Psychiatry. 2022 Sep 1;12(1):357. doi: 10.1038/s41398-022-02133-3.

PMID: 36050305

 

USP13 promotes deubiquitination of ZHX2 and tumorigenesis in kidney cancer. 

Xie H, Zhou J, Liu X, Xu Y, Hepperla AJ, Simon JM, Wang T, Yao H, Liao C, Baldwin AS, Gong K, Zhang Q.

Proc Natl Acad Sci U S A. 2022 Sep 6;119(36):e2119854119. doi: 10.1073/pnas.2119854119. Epub 2022 Aug 29.

PMID: 36037364

 

Nonparametric single-cell multiomic characterization of trio relationships between transcription factors, target genes, and cis-regulatory regions. 

Jiang Y, Harigaya Y, Zhang Z, Zhang H, Zang C, Zhang NR.

Cell Syst. 2022 Aug 29:S2405-4712(22)00348-9. doi: 10.1016/j.cels.2022.08.004. Online ahead of print.

PMID: 36055233

 

Large-scale sequencing identifies multiple genes and rare variants associated with Crohn’s disease susceptibility. 

Sazonovs A, Stevens CR, Venkataraman GR, Yuan K, Avila B, Abreu MT, Ahmad T, Allez M, Ananthakrishnan AN, Atzmon G, Baras A, Barrett JC, Barzilai N, Beaugerie L, Beecham A, Bernstein CN, Bitton A, Bokemeyer B, Chan A, Chung D, Cleynen I, Cosnes J, Cutler DJ, Daly A, Damas OM, Datta LW, Dawany N, Devoto M, Dodge S, Ellinghaus E, Fachal L, Farkkila M, Faubion W, Ferreira M, Franchimont D, Gabriel SB, Ge T, Georges M, Gettler K, Giri M, Glaser B, Goerg S, Goyette P, Graham D, Hämäläinen E, Haritunians T, Heap GA, Hiltunen M, Hoeppner M, Horowitz JE, Irving P, Iyer V, Jalas C, Kelsen J, Khalili H, Kirschner BS, Kontula K, Koskela JT, Kugathasan S, Kupcinskas J, Lamb CA, Laudes M, Lévesque C, Levine AP, Lewis JD, Liefferinckx C, Loescher BS, Louis E, Mansfield J, May S, McCauley JL, Mengesha E, Mni M, Moayyedi P, Moran CJ, Newberry RD, O’Charoen S, Okou DT, Oldenburg B, Ostrer H, Palotie A, Paquette J, Pekow J, Peter I, Pierik MJ, Ponsioen CY, Pontikos N, Prescott N, Pulver AE, Rahmouni S, Rice DL, Saavalainen P, Sands B, Sartor RB, Schiff ER, Schreiber S, Schumm LP, Segal AW, Seksik P, Shawky R, Sheikh SZ, Silverberg MS, Simmons A, Skeiceviciene J, Sokol H, Solomonson M, Somineni H, Sun D, Targan S, Turner D, Uhlig HH, van der Meulen AE, Vermeire S, Verstockt S, Voskuil MD, Winter HS, Young J; Belgium IBD Consortium; Cedars-Sinai IBD; International IBD Genetics Consortium; NIDDK IBD Genetics Consortium; NIHR IBD BioResource; Regeneron Genetics Center; SHARE Consortium; SPARC IBD Network; UK IBD Genetics Consortium, Duerr RH, Franke A, Brant SR, Cho J, Weersma RK, Parkes M, Xavier RJ, Rivas MA, Rioux JD, McGovern DPB, Huang H, Anderson CA, Daly MJ.

Nat Genet. 2022 Aug 29. doi: 10.1038/s41588-022-01156-2. Online ahead of print.

PMID: 36038634

 

DNA Damage Repair Classifier Defines Distinct Groups in Hepatocellular Carcinoma. 

Smith MA, Van Alsten SC, Walens A, Damrauer JS, Maduekwe UN, Broaddus RR, Love MI, Troester MA, Hoadley KA.

Cancers (Basel). 2022 Sep 1;14(17):4282. doi: 10.3390/cancers14174282.

PMID: 36077818

 

Integrating temporal single-cell gene expression modalities for trajectory inference and disease prediction. 

Ranek JS, Stanley N, Purvis JE.

Genome Biol. 2022 Sep 5;23(1):186. doi: 10.1186/s13059-022-02749-0.

PMID: 36064614 Free PMC article.

 

Understanding the function of regulatory DNA interactions in the interpretation of non-coding GWAS variants. 

Zhong W, Liu W, Chen J, Sun Q, Hu M, Li Y.

Front Cell Dev Biol. 2022 Aug 19;10:957292. doi: 10.3389/fcell.2022.957292. eCollection 2022.

PMID: 36060805 Free PMC article. Review.

 

Inadvertent Transfer of Murine VL30 Retrotransposons to CAR-T Cells. 

Lee SH, Hao Y, Gui T, Dotti G, Savoldo B, Zou F, Kafri T.

Adv Cell Gene Ther. 2022;2022:6435077. doi: 10.1155/2022/6435077. Epub 2022 May 31.

PMID: 36081760 Free PMC article.

 

Post-Ebola Symptoms 7 Years after Infection: The natural history of Long Ebola. 

Wohl DA, Fischer WA, Mei W, Zou F, Tozay S, Reeves E, Pewu K, Demarco J, Schieffelin J, Johnson H, Conneh T, Williams G, McMillian D, Brown J.

Clin Infect Dis. 2022 Sep 6:ciac732. doi: 10.1093/cid/ciac732. Online ahead of print.

PMID: 36065768

 

Chronic stress-driven glucocorticoid receptor activation programs key cell phenotypes and functional epigenomic patterns in human fibroblasts. 

Leung CS, Kosyk O, Welter EM, Dietrich N, Archer TK, Zannas AS.

iScience. 2022 Aug 17;25(9):104960. doi: 10.1016/j.isci.2022.104960. eCollection 2022 Sep 16.

PMID: 36065188 Free PMC article.