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Items: 8

1.

B-cell receptor reconstruction from single-cell RNA-seq with VDJPuzzle.

Rizzetto S, Koppstein DNP, Samir J, Singh M, Reed JH, Cai CH, Lloyd AR, Eltahla AA, Goodnow CC, Luciani F.

Bioinformatics. 2018 Apr 5. doi: 10.1093/bioinformatics/bty203. [Epub ahead of print]

PMID:
29659703
2.

Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species.

Hezroni H, Koppstein D, Schwartz MG, Avrutin A, Bartel DP, Ulitsky I.

Cell Rep. 2015 May 19;11(7):1110-22. doi: 10.1016/j.celrep.2015.04.023. Epub 2015 May 7.

3.

Sequencing the cap-snatching repertoire of H1N1 influenza provides insight into the mechanism of viral transcription initiation.

Koppstein D, Ashour J, Bartel DP.

Nucleic Acids Res. 2015 May 26;43(10):5052-64. doi: 10.1093/nar/gkv333. Epub 2015 Apr 21.

4.

Global analyses of the effect of different cellular contexts on microRNA targeting.

Nam JW, Rissland OS, Koppstein D, Abreu-Goodger C, Jan CH, Agarwal V, Yildirim MA, Rodriguez A, Bartel DP.

Mol Cell. 2014 Mar 20;53(6):1031-1043. doi: 10.1016/j.molcel.2014.02.013. Epub 2014 Mar 13.

5.

Extensive alternative polyadenylation during zebrafish development.

Ulitsky I, Shkumatava A, Jan CH, Subtelny AO, Koppstein D, Bell GW, Sive H, Bartel DP.

Genome Res. 2012 Oct;22(10):2054-66. doi: 10.1101/gr.139733.112. Epub 2012 Jun 21.

6.

Biodegradation of polyester polyurethane by endophytic fungi.

Russell JR, Huang J, Anand P, Kucera K, Sandoval AG, Dantzler KW, Hickman D, Jee J, Kimovec FM, Koppstein D, Marks DH, Mittermiller PA, Núñez SJ, Santiago M, Townes MA, Vishnevetsky M, Williams NE, Vargas MP, Boulanger LA, Bascom-Slack C, Strobel SA.

Appl Environ Microbiol. 2011 Sep;77(17):6076-84. doi: 10.1128/AEM.00521-11. Epub 2011 Jul 15.

7.

Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays.

Agarwal A, Koppstein D, Rozowsky J, Sboner A, Habegger L, Hillier LW, Sasidharan R, Reinke V, Waterston RH, Gerstein M.

BMC Genomics. 2010 Jun 17;11:383. doi: 10.1186/1471-2164-11-383.

8.

The RNA polymerase "switch region" is a target for inhibitors.

Mukhopadhyay J, Das K, Ismail S, Koppstein D, Jang M, Hudson B, Sarafianos S, Tuske S, Patel J, Jansen R, Irschik H, Arnold E, Ebright RH.

Cell. 2008 Oct 17;135(2):295-307. doi: 10.1016/j.cell.2008.09.033.

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