Department of Genetics faculty, postdocs, students and collaborators published fourteen papers during Feb. 23 – March 7, 2020.

 

A framework for transcriptome-wide association studies in breast cancer in diverse study populations.
Bhattacharya A, García-Closas M, Olshan AF, Perou CM, Troester MA, Love MI.
Genome Biol. 2020 Feb 20;21(1):42. doi: 10.1186/s13059-020-1942-6.
PMID: 32079541

 

HER2-enriched subtype and pathological complete response in HER2-positive breast cancer: A systematic review and meta-analysis.
Schettini F, Pascual T, Conte B, Chic N, Brasó-Maristany F, Galván P, Martínez O, Adamo B, Vidal M, Muñoz M, Fernández-Martinez A, Rognoni C, Griguolo G, Guarneri V, Conte PF, Locci M, Brase JC, Gonzalez-Farre B, Villagrasa P, De Placido S, Schiff R, Veeraraghavan J, Rimawi MF, Osborne CK, Pernas S, Perou CM, Carey LA, Prat A.
Cancer Treat Rev. 2020 Mar;84:101965. doi: 10.1016/j.ctrv.2020.101965. Epub 2020 Jan 17.
PMID: 32000054

 

Danger-associated extracellular ATP counters MDSC therapeutic efficacy in acute GVHD.
Koehn BH, Saha A, McDonald-Hyman C, Loschi M, Thangavelu G, Ma L, Zaiken M, Dysthe J, Krepps W, Panthera J, Hippen K, Jameson SC, Miller JS, Cooper MA, Farady CJ, Iwawaki T, Ting JP, Serody JS, Murphy WJ, Hill GR, Murray PJ, Bronte V, Munn DH, Zeiser R, Blazar BR.
Blood. 2019 Nov 7;134(19):1670-1682. doi: 10.1182/blood.2019001950.
PMID: 31533918

 

Inferring Regulatory Networks From Mixed Observational Data Using Directed Acyclic Graphs.
Zhong W, Dong L, Poston TB, Darville T, Spracklen CN, Wu D, Mohlke KL, Li Y, Li Q, Zheng X.
Front Genet. 2020 Feb 7;11:8. doi: 10.3389/fgene.2020.00008. eCollection 2020.
PMID: 32127796

 

Assessing the implications of positive genomic screening results.
Waltz M, Meagher KM, Henderson GE, Goddard KA, Muessig K, Berg JS, Weck KE, Cadigan RJ.
Per Med. 2020 Mar 3. doi: 10.2217/pme-2019-0067. [Epub ahead of print]
PMID: 32125936

 

A Pan-Cancer and Polygenic Bayesian Hierarchical Model for the Effect of Somatic Mutations on Survival.
Samorodnitsky S, Hoadley KA, Lock EF.
Cancer Inform. 2020 Feb 17;19:1176935120907399. doi: 10.1177/1176935120907399. eCollection 2020.
PMID: 32116467

 

Genetic diversity and thermal performance in invasive and native populations of African fig flies.
Comeault AA, Wang J, Tittes S, Isbell K, Ingley S, Hurlbert AH, Matute DR.
Mol Biol Evol. 2020 Feb 28. pii: msaa050. doi: 10.1093/molbev/msaa050. [Epub ahead of print]
PMID: 32109281

 

BK-Polyomavirus Nephropathy with Systemic Viral Spread: Whole Genome Sequencing Data from a Fatal Case of BKPyV Infection.
Roy S, Mieczkowski PA, Weida C, Huo J, Roehrs P, Singh HK, Nickeleit V.
Transpl Infect Dis. 2020 Feb 23:e13269. doi: 10.1111/tid.13269. [Epub ahead of print]
PMID: 32090422

 

Glanzmann thrombasthenia: genetic basis and clinical correlates.
Perez Botero J, Lee K, Branchford BR, Bray PF, Freson K, Lambert MP, Luo M, Mohan S, Ross JE, Bergmeier W, Di Paola J; ClinGen Platelet Disorder Variant Curation Expert Panel.
Haematologica. 2020 Mar 5. pii: haematol.2018.214239. doi: 10.3324/haematol.2018.214239. [Epub ahead of print]
PMID: 32139434

 

Mutation signatures specific to DNA alkylating agents in yeast and cancers.
Saini N, Sterling JF, Sakofsky CJ, Giacobone CK, Klimczak LJ, Burkholder AB, Malc EP, Mieczkowski PA, Gordenin DA.
Nucleic Acids Res . 2020 Mar 5. pii: gkaa150. doi: 10.1093/nar/gkaa150. [Epub ahead of print]
PMID: 32133535

 

Tximeta: Reference sequence checksums for provenance identification in RNA-seq.
Love MI, Soneson C, Hickey PF, Johnson LK, Pierce NT, Shepherd L, Morgan M, Patro R.
PLoS Comput Biol. 2020 Feb 25;16(2):e1007664. doi: 10.1371/journal.pcbi.1007664. [Epub ahead of print]
PMID: 32097405

 

Expression of E93 provides an instructive cue to control dynamic enhancer activity and chromatin accessibility during development.
Nystrom SL, Niederhuber MJ, McKay DJ.
Development. 2020 Feb 24. pii: dev.181909. doi: 10.1242/dev.181909. [Epub ahead of print]
PMID: 32094114

 

Adrenomedullin Is Necessary to Resolve Hyperoxia-Induced Experimental Bronchopulmonary Dysplasia and Pulmonary Hypertension in Mice.
Menon RT, Shrestha AK, Reynolds CL, Barrios R, Caron KM, Shivanna B.
Am J Pathol. 2020 Feb 20. pii: S0002-9440(20)30014-6. doi: 10.1016/j.ajpath.2019.11.011. [Epub ahead of print]
PMID: 32093901

 

Dawn of a New RAMPage.
Serafin DS, Harris NR, Nielsen NR, Mackie DI, Caron KM.
Trends Pharmacol Sci. 2020 Feb 27. pii: S0165-6147(20)30023-7. doi: 10.1016/j.tips.2020.01.009. [Epub ahead of print] Review.
PMID: 32115276