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Items: 1 to 20 of 187

1.

HIV Trends: Defining "The Middle East".

Berger SA.

Int J Infect Dis. 2016 Jul;48:123. doi: 10.1016/j.ijid.2016.03.026. Epub 2016 Apr 21. No abstract available.

2.

Discovery, Prevalence, and Persistence of Novel Circular Single-Stranded DNA Viruses in the Ctenophores Mnemiopsis leidyi and Beroe ovata.

Breitbart M, Benner BE, Jernigan PE, Rosario K, Birsa LM, Harbeitner RC, Fulford S, Graham C, Walters A, Goldsmith DB, Berger SA, Nejstgaard JC.

Front Microbiol. 2015 Dec 18;6:1427. doi: 10.3389/fmicb.2015.01427. eCollection 2015.

3.

Future climate scenarios for a coastal productive planktonic food web resulting in microplankton phenology changes and decreased trophic transfer efficiency.

Calbet A, Sazhin AF, Nejstgaard JC, Berger SA, Tait ZS, Olmos L, Sousoni D, Isari S, Martínez RA, Bouquet JM, Thompson EM, Båmstedt U, Jakobsen HH.

PLoS One. 2014 Apr 10;9(4):e94388. doi: 10.1371/journal.pone.0094388. eCollection 2014.

4.

Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context.

Dunthorn M, Otto J, Berger SA, Stamatakis A, Mahé F, Romac S, de Vargas C, Audic S; Biomarks Consortium, Stock A, Kauff F, Stoeck T.

Mol Biol Evol. 2014 Apr;31(4):993-1009. doi: 10.1093/molbev/msu055. Epub 2014 Jan 27.

5.

Multiple ITS haplotypes in the genome of the lichenized basidiomycete Cora inversa (Hygrophoraceae): fact or artifact?

Lücking R, Lawrey JD, Gillevet PM, Sikaroodi M, Dal-Forno M, Berger SA.

J Mol Evol. 2014 Feb;78(2):148-62. doi: 10.1007/s00239-013-9603-y. Epub 2013 Dec 17.

PMID:
24343640
6.

Metagenomic species profiling using universal phylogenetic marker genes.

Sunagawa S, Mende DR, Zeller G, Izquierdo-Carrasco F, Berger SA, Kultima JR, Coelho LP, Arumugam M, Tap J, Nielsen HB, Rasmussen S, Brunak S, Pedersen O, Guarner F, de Vos WM, Wang J, Li J, Doré J, Ehrlich SD, Stamatakis A, Bork P.

Nat Methods. 2013 Dec;10(12):1196-9. doi: 10.1038/nmeth.2693. Epub 2013 Oct 20.

PMID:
24141494
7.

Unraveling graft-versus-host disease and graft-versus-leukemia responses using TCR Vβ spectratype analysis in a murine bone marrow transplantation model.

Fanning SL, Zilberberg J, Stein J, Vazzana K, Berger SA, Korngold R, Friedman TM.

J Immunol. 2013 Jan 1;190(1):447-57. doi: 10.4049/jimmunol.1201641. Epub 2012 Nov 30.

8.

Coupling SIMD and SIMT architectures to boost performance of a phylogeny-aware alignment kernel.

Alachiotis N, Berger SA, Stamatakis A.

BMC Bioinformatics. 2012 Aug 9;13:196. doi: 10.1186/1471-2105-13-196.

9.

Elevated calpain activity in acute myelogenous leukemia correlates with decreased calpastatin expression.

Niapour M, Farr C, Minden M, Berger SA.

Blood Cancer J. 2012 Jan;2(1):e51. doi: 10.1038/bcj.2011.50. Epub 2012 Jan 13.

10.

RAxML-Light: a tool for computing terabyte phylogenies.

Stamatakis A, Aberer AJ, Goll C, Smith SA, Berger SA, Izquierdo-Carrasco F.

Bioinformatics. 2012 Aug 1;28(15):2064-6. doi: 10.1093/bioinformatics/bts309. Epub 2012 May 24.

11.

TNFα modulates protein degradation pathways in rheumatoid arthritis synovial fibroblasts.

Connor AM, Mahomed N, Gandhi R, Keystone EC, Berger SA.

Arthritis Res Ther. 2012 Mar 14;14(2):R62. doi: 10.1186/ar3778.

12.

Induction of apoptosis in Eμ-myc lymphoma cells in vitro and in vivo through calpain inhibition.

Li H, Nepal RM, Martin A, Berger SA.

Exp Hematol. 2012 Jul;40(7):548-563.e2. doi: 10.1016/j.exphem.2012.02.002. Epub 2012 Feb 23.

PMID:
22366408
13.

Aligning short reads to reference alignments and trees.

Berger SA, Stamatakis A.

Bioinformatics. 2011 Aug 1;27(15):2068-75. doi: 10.1093/bioinformatics/btr320. Epub 2011 Jun 2.

14.

Performance, accuracy, and Web server for evolutionary placement of short sequence reads under maximum likelihood.

Berger SA, Krompass D, Stamatakis A.

Syst Biol. 2011 May;60(3):291-302. doi: 10.1093/sysbio/syr010. Epub 2011 Mar 23.

15.

ABC50 modulates sensitivity of HL60 leukemic cells to endoplasmic reticulum (ER) stress-induced cell death.

Yu Y, Zhang Y, Zhu Z, Berger SA.

Biochem Pharmacol. 2011 Feb 15;81(4):488-97. doi: 10.1016/j.bcp.2010.11.007. Epub 2010 Nov 16.

PMID:
21087599
16.

Pemphigus vulgaris: bilateral plica semilunaris involvement.

Fiore JM, Perry HD, Donnenfeld ED, Berger SA.

Cornea. 2011 Mar;30(3):357-9. doi: 10.1097/ICO.0b013e3181eadba3.

PMID:
21045669
17.

MLTreeMap--accurate Maximum Likelihood placement of environmental DNA sequences into taxonomic and functional reference phylogenies.

Stark M, Berger SA, Stamatakis A, von Mering C.

BMC Genomics. 2010 Aug 5;11:461. doi: 10.1186/1471-2164-11-461.

18.

The immunological impact of genetic drift in the B10.BR congenic inbred mouse strain.

Fanning SL, Appel MY, Berger SA, Korngold R, Friedman TM.

J Immunol. 2009 Oct 1;183(7):4261-72. doi: 10.4049/jimmunol.0900971. Epub 2009 Sep 14.

19.

Anti-tumor immunity in a model of acute myeloid leukemia.

Cheuk AT, Wells JW, Chan L, Westwood NB, Berger SA, Yagita H, Okumura K, Farzaneh F, Mufti GJ, Guinn BA.

Leuk Lymphoma. 2009 Mar;50(3):447-54. doi: 10.1080/10428190802653776.

PMID:
19197726
20.

Regulation of calpain activity by c-Myc through calpastatin and promotion of transformation in c-Myc-negative cells by calpastatin suppression.

Niapour M, Yu Y, Berger SA.

J Biol Chem. 2008 Aug 1;283(31):21371-81. doi: 10.1074/jbc.M801462200. Epub 2008 Jun 10.

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