Department of Genetics Faculty Publications for April 1-14

Department of Genetics faculty and collaborators published nine papers during the first half of April 2017.

Energy balance modulation impacts epigenetic reprogramming, ERα and ERβ expression and mammary tumor development in MMTV-neu transgenic mice.

Rossi EL, Dunlap SM, Bowers LW, Khatib SA, Doerstling SS, Smith LA, Sharma MA, , Holley D, Brown PH, Estecio MR, Kusewitt DF, deGraffenried LA, Bultman SJ, Hursting SD.
Cancer Res. 2017 Apr 3. pii: canres.2795.2016. doi: 10.1158/0008-5472.CAN-16-2795. [Epub ahead of print] PMID: 28373182

NLR members NLRC4 and NLRP3 mediate sterile inflammasome activation in microglia and astrocytes.

Freeman L, Guo H, David CN, Brickey WJ, Jha S, Ting JP.
J Exp Med. 2017 Apr 12. pii: jem.20150237. doi: 10.1084/jem.20150237. [Epub ahead of print] PMID: 28404595

SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling.

Silva GO, Siegel MB, Mose LE, Parker JS, Sun W, Perou CM, Chen M.
Genome Biol. 2017 Apr 8;18(1):66. doi: 10.1186/s13059-017-1193-3.
PMID: 28390427

Lkb1 inactivation drives lung cancer lineage switching governed by Polycomb Repressive Complex 2.

Zhang H, Fillmore Brainson C, Koyama S, Redig AJ, Chen T, Li S, Gupta M, Garcia-de-Alba C, Paschini M, Herter-Sprie GS, Lu G, Zhang X, Marsh BP, Tuminello SJ, Xu C, Chen Z, Wang X, Akbay EA, Zheng M, Palakurthi S, Sholl LM, Rustgi AK, Kwiatkowski DJ, Diehl JA, Bass AJ, Sharpless NE, Dranoff G, Hammerman PS, Ji H, Bardeesy N, Saur D, Watanabe H, Kim CF, Wong KK.
Nat Commun. 2017 Apr 7;8:14922. doi: 10.1038/ncomms14922.
PMID: 28387316

Substrate preference of Gen endonucleases highlights the importance of branched structures as DNA damage repair intermediates.

Bellendir SP, Rognstad DJ, Morris LP, Zapotoczny G, Walton WG, Redinbo MR, Ramsden DA, Sekelsky J, Erie DA.
Nucleic Acids Res. 2017 Mar 28. doi: 10.1093/nar/gkx214. [Epub ahead of print] PMID: 28369583

Genetic Alterations in the Molecular Subtypes of Bladder Cancer: Illustration in the Cancer Genome Atlas Dataset.

Choi W, Ochoa A, McConkey DJ, Aine M, Höglund M, Kim WY, Real FX, Kiltie AE, Milsom I, Dyrskjøt L, Lerner SP.
Eur Urol. 2017 Mar 29. pii: S0302-2838(17)30175-6. doi: 10.1016/j.eururo.2017.03.010. [Epub ahead of print] Review.
PMID: 28365159

Engineering and expressing circular RNAs via tRNA splicing.

Noto JJ, Schmidt CA, Matera AG.
RNA Biol. 2017 Apr 12:0. doi: 10.1080/15476286.2017.1317911. [Epub ahead of print] PMID: 28402213

Impact of Molecular Subtypes in Muscle-invasive Bladder Cancer on Predicting Response and Survival after Neoadjuvant Chemotherapy.

Seiler R, Ashab HA, Erho N, van Rhijn BW, Winters B, Douglas J, Van Kessel KE, Fransen van de Putte EE, Sommerlad M, Wang NQ, Choeurng V, Gibb EA, Palmer-Aronsten B, Lam LL, Buerki C, Davicioni E, Sjödahl G, Kardos J, Hoadley KA, Lerner SP, McConkey DJ, Choi W, Kim WY, Kiss B, Thalmann GN, Todenhöfer T, Crabb SJ, North S, Zwarthoff EC, Boormans JL, Wright J, Dall’Era M, van der Heijden MS, Black PC.
Eur Urol. 2017 Apr 5. pii: S0302-2838(17)30251-8. doi: 10.1016/j.eururo.2017.03.030. [Epub ahead of print] PMID: 28390739

Epigenome-wide association data implicates DNA methylation-mediated genetic risk in psoriasis.

Zhou F, Shen C, Xu J, Gao J, Zheng X, Ko R, Dou J, Cheng Y, Zhu C, Xu S, Tang X, Zuo X, Yin X, Cui Y, Sun L, Tsoi LC, Hsu YH, Yang S, Zhang X.
Clin Epigenetics. 2016 Dec 5;8:131. eCollection 2016.
PMID: 27980695