Publications

The Plant cell. 2017-08-01; 29.8: 2047-2070.

Nitrate Reductase Knockout Uncouples Nitrate Transport from Nitrate Assimilation and Drives Repartitioning of Carbon Flux in a Model Pennate Diatom

McCarthy JK, McCarthy JK, Smith SR, McCrow JP, Tan M, Zheng H, Beeri K, Roth RA, Roth R, Lichtle C, Lichtle C, Goodenough U, Bowler C, Bowler CP, Dupont CL, Dupont CL, Allen AE

PMID: 28765511

Genome announcements. 2017-07-27; 5.30:

Identification of Dezidougou Virus in a DAK AR 41524 Zika Virus Stock

Shrivastava S, Puri V, Fedorova N, Amedeo P, Stockwell TB, Shabman RS, Rashid S, Pickett BE

PMID: 28751385

Proceedings of the National Academy of Sciences of the United States of America. 2017-07-25; 114.30: 8059-8064.

Fast and accurate HLA typing from short-read next-generation sequence data with xHLA

Xie C, Yeo ZX, Wong M, Piper J, Long T, Kirkness EF, Biggs WH, Bloom K, Spellman S, Vierra-Green C, Brady C, Scheuermann RH, Telenti A, Howard S, Brewerton S, Turpaz Y, Venter JC

PMID: 28674023

BMC genomics. 2017-07-19; 18.1: 541.

Hybrid assembly with long and short reads improves discovery of gene family expansions

Miller JR, Zhou P, Mudge J, Gurtowski J, Lee H, Ramaraj T, Walenz BP, Liu J, Stupar RM, Denny R, Song L, Singh N, Maron LG, McCouch SR, McCombie WR, Schatz MC, Tiffin P, Young ND, Silverstein KAT

PMID: 28724409

mSystems. 2017-07-18; 2.4:

Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules

Edlund A, Garg N, Mohimani H, Gurevich A, He X, Shi W, Dorrestein PC, McLean JS

PMID: 28761934

Proceedings of the National Academy of Sciences of the United States of America. 2017-07-18; 114.29: E6015-E6024.

Diatom centromeres suggest a mechanism for nuclear DNA acquisition

Diner RE, Noddings CM, Lian NC, Kang AK, McQuaid JB, Jablanovic J, Espinoza JL, Nguyen NA, Anzelmatti MA, Jansson J, Bielinski VA, Karas BJ, Dupont CL, Allen AE, Weyman PD

PMID: 28673987

Virus research. 2017-07-15; 239.55-68.

Exploring viral infection using single-cell sequencing

Rato S, Golumbeanu M, Telenti A, Ciuffi A

PMID: 27816430

Theranostics. 2017-07-07; 7.10: 2704-2717.

Type 1 Diabetes: Urinary Proteomics and Protein Network Analysis Support Perturbation of Lysosomal Function

Singh H, Yu Y, Suh MJ, Torralba MG, Stenzel RD, Tovchigrechko A, Thovarai V, Harkins DM, Rajagopala SV, Osborne W, Cogen FR, Kaplowitz PB, Nelson KE, Madupu R, Pieper R

PMID: 28819457

Environmental microbiology. 2017-07-01; 19.7: 2769-2784.

The metabolic potential of the single cell genomes obtained from the Challenger Deep, Mariana Trench within the candidate superphylum Parcubacteria (OD1)

León-Zayas R, Peoples L, Biddle JF, Podell S, Novotny M, Cameron J, Lasken RS, Bartlett DH

PMID: 28474498

Bioinformatics (Oxford, England). 2017-07-01; 33.13: 1944-1952.

FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis

Zhang Y, Topham DJ, Thakar J, Qiu X

PMID: 28334094