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Items: 1 to 50 of 107

1.

Image Guided Brachytherapy for Cancer of the Nasal Vestibule: Local Control and Cosmesis.

Czerwinski MD, van Leeuwen RGH, Kaanders JHAM, Zwijnenburg EM, Lipman D, Takes RP, Verhoef CG.

Int J Radiat Oncol Biol Phys. 2019 Mar 15;103(4):913-921. doi: 10.1016/j.ijrobp.2018.11.018. Epub 2018 Nov 17.

PMID:
30458233
2.

SKESA: strategic k-mer extension for scrupulous assemblies.

Souvorov A, Agarwala R, Lipman DJ.

Genome Biol. 2018 Oct 4;19(1):153. doi: 10.1186/s13059-018-1540-z.

3.

How user intelligence is improving PubMed.

Fiorini N, Leaman R, Lipman DJ, Lu Z.

Nat Biotechnol. 2018 Oct 1. doi: 10.1038/nbt.4267. [Epub ahead of print]

PMID:
30272675
4.

Towards PubMed 2.0.

Fiorini N, Lipman DJ, Lu Z.

Elife. 2017 Oct 30;6. pii: e28801. doi: 10.7554/eLife.28801.

5.

Improving postoperative radiotherapy following radical prostatectomy.

Lipman D, Pieters BR, De Reijke TM.

Expert Rev Anticancer Ther. 2017 Oct;17(10):925-937. doi: 10.1080/14737140.2017.1364994. Epub 2017 Aug 17. Review.

PMID:
28787182
6.

GenBank.

Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2017 Jan 4;45(D1):D37-D42. doi: 10.1093/nar/gkw1070. Epub 2016 Nov 28.

7.

GenBank.

Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2016 Jan 4;44(D1):D67-72. doi: 10.1093/nar/gkv1276. Epub 2015 Nov 20.

8.

GenBank.

Benson DA, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2015 Jan;43(Database issue):D30-5. doi: 10.1093/nar/gku1216. Epub 2014 Nov 20.

9.

Outcome and toxicity profile after brachytherapy for squamous cell carcinoma of the nasal vestibule.

Lipman D, Verhoef LC, Takes RP, Kaanders JH, Janssens GO.

Head Neck. 2015 Sep;37(9):1297-303. doi: 10.1002/hed.23758. Epub 2014 Jul 19.

PMID:
24838690
10.

GenBank.

Benson DA, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2014 Jan;42(Database issue):D32-7. doi: 10.1093/nar/gkt1030. Epub 2013 Nov 11.

11.

Biology Direct: celebrating 7 years of open, published peer review.

Koonin EV, Landweber LF, Lipman DJ.

Biol Direct. 2013 Apr 30;8:11. doi: 10.1186/1745-6150-8-11. No abstract available.

12.

Why does a protein's evolutionary rate vary over time?

Du X, Lipman DJ, Cherry JL.

Genome Biol Evol. 2013;5(3):494-503. doi: 10.1093/gbe/evt024.

13.

NIH funding: Agency rebuts critique.

Santangelo G, Lipman DJ.

Nature. 2013 Jan 3;493(7430):26. doi: 10.1038/493026a. No abstract available.

PMID:
23282354
14.

GenBank.

Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. doi: 10.1093/nar/gks1195. Epub 2012 Nov 27.

15.

Sequential seasonal H1N1 influenza virus infections protect ferrets against novel 2009 H1N1 influenza virus.

Carter DM, Bloom CE, Nascimento EJ, Marques ET, Craigo JK, Cherry JL, Lipman DJ, Ross TM.

J Virol. 2013 Feb;87(3):1400-10. doi: 10.1128/JVI.02257-12. Epub 2012 Oct 31.

16.

Complex patterns of human antisera reactivity to novel 2009 H1N1 and historical H1N1 influenza strains.

Carter DM, Lu HR, Bloom CE, Crevar CJ, Cherry JL, Lipman DJ, Ross TM.

PLoS One. 2012;7(7):e39435. doi: 10.1371/journal.pone.0039435. Epub 2012 Jul 17.

17.

Domain enhanced lookup time accelerated BLAST.

Boratyn GM, Schäffer AA, Agarwala R, Altschul SF, Lipman DJ, Madden TL.

Biol Direct. 2012 Apr 17;7:12. doi: 10.1186/1745-6150-7-12.

18.

GenBank.

Benson DA, Karsch-Mizrachi I, Clark K, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2012 Jan;40(Database issue):D48-53. doi: 10.1093/nar/gkr1202. Epub 2011 Dec 5.

19.

Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Federhen S, Feolo M, Fingerman IM, Geer LY, Helmberg W, Kapustin Y, Krasnov S, Landsman D, Lipman DJ, Lu Z, Madden TL, Madej T, Maglott DR, Marchler-Bauer A, Miller V, Karsch-Mizrachi I, Ostell J, Panchenko A, Phan L, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Slotta D, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Wang Y, Wilbur WJ, Yaschenko E, Ye J.

Nucleic Acids Res. 2012 Jan;40(Database issue):D13-25. doi: 10.1093/nar/gkr1184. Epub 2011 Dec 2.

20.

Closure of the NCBI SRA and implications for the long-term future of genomics data storage.

Lipman D, Flicek P, Salzberg S, Gerstein M, Knight R.

Genome Biol. 2011;12(3):402. doi: 10.1186/gb-2011-12-3-402. Epub 2011 Mar 22. No abstract available.

21.

Projection of seasonal influenza severity from sequence and serological data.

Wolf YI, Nikolskaya A, Cherry JL, Viboud C, Koonin E, Lipman DJ.

PLoS Curr. 2010 Dec 3;2:RRN1200. doi: 10.1371/currents.RRN1200.

22.

Give life to values with stories. Six actions to make concepts concrete.

Lipman D.

Health Prog. 2010 Nov-Dec;91(6):22-9. No abstract available.

PMID:
21140839
23.

Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Federhen S, Feolo M, Fingerman IM, Geer LY, Helmberg W, Kapustin Y, Landsman D, Lipman DJ, Lu Z, Madden TL, Madej T, Maglott DR, Marchler-Bauer A, Miller V, Mizrachi I, Ostell J, Panchenko A, Phan L, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Slotta D, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Wang Y, Wilbur WJ, Yaschenko E, Ye J.

Nucleic Acids Res. 2011 Jan;39(Database issue):D38-51. doi: 10.1093/nar/gkq1172. Epub 2010 Nov 21.

24.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2011 Jan;39(Database issue):D32-7. doi: 10.1093/nar/gkq1079. Epub 2010 Nov 10.

25.

Relative contributions of intrinsic structural-functional constraints and translation rate to the evolution of protein-coding genes.

Wolf YI, Gopich IV, Lipman DJ, Koonin EV.

Genome Biol Evol. 2010 Jul 12;2:190-9. doi: 10.1093/gbe/evq010.

26.

Evolutionary dynamics of N-glycosylation sites of influenza virus hemagglutinin.

Cherry JL, Lipman DJ, Nikolskaya A, Wolf YI.

PLoS Curr. 2009 Aug 18;1:RRN1001.

27.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2010 Jan;38(Database issue):D46-51. doi: 10.1093/nar/gkp1024. Epub 2009 Nov 12.

28.

Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Federhen S, Feolo M, Geer LY, Helmberg W, Kapustin Y, Landsman D, Lipman DJ, Lu Z, Madden TL, Madej T, Maglott DR, Marchler-Bauer A, Miller V, Mizrachi I, Ostell J, Panchenko A, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Slotta D, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Wang Y, John Wilbur W, Yaschenko E, Ye J.

Nucleic Acids Res. 2010 Jan;38(Database issue):D5-16. doi: 10.1093/nar/gkp967. Epub 2009 Nov 12.

29.

Selection for minimization of translational frameshifting errors as a factor in the evolution of codon usage.

Huang Y, Koonin EV, Lipman DJ, Przytycka TM.

Nucleic Acids Res. 2009 Nov;37(20):6799-810. doi: 10.1093/nar/gkp712. Epub 2009 Sep 10.

30.

The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes.

Pruitt KD, Harrow J, Harte RA, Wallin C, Diekhans M, Maglott DR, Searle S, Farrell CM, Loveland JE, Ruef BJ, Hart E, Suner MM, Landrum MJ, Aken B, Ayling S, Baertsch R, Fernandez-Banet J, Cherry JL, Curwen V, Dicuccio M, Kellis M, Lee J, Lin MF, Schuster M, Shkeda A, Amid C, Brown G, Dukhanina O, Frankish A, Hart J, Maidak BL, Mudge J, Murphy MR, Murphy T, Rajan J, Rajput B, Riddick LD, Snow C, Steward C, Webb D, Weber JA, Wilming L, Wu W, Birney E, Haussler D, Hubbard T, Ostell J, Durbin R, Lipman D.

Genome Res. 2009 Jul;19(7):1316-23. doi: 10.1101/gr.080531.108. Epub 2009 Jun 4. Erratum in: Genome Res. 2009 Aug;19(8):1506.

31.

The universal distribution of evolutionary rates of genes and distinct characteristics of eukaryotic genes of different apparent ages.

Wolf YI, Novichkov PS, Karev GP, Koonin EV, Lipman DJ.

Proc Natl Acad Sci U S A. 2009 May 5;106(18):7273-80. doi: 10.1073/pnas.0901808106. Epub 2009 Apr 7.

32.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2009 Jan;37(Database issue):D26-31. doi: 10.1093/nar/gkn723. Epub 2008 Oct 21.

33.

Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Edgar R, Federhen S, Feolo M, Geer LY, Helmberg W, Kapustin Y, Landsman D, Lipman DJ, Madden TL, Maglott DR, Miller V, Mizrachi I, Ostell J, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Yaschenko E, Ye J.

Nucleic Acids Res. 2009 Jan;37(Database issue):D5-15. doi: 10.1093/nar/gkn741. Epub 2008 Oct 21. Erratum in: Nucleic Acids Res. 2009 May;37(9):3124.

34.

Differences in evolutionary pressure acting within highly conserved ortholog groups.

Przytycka TM, Jothi R, Aravind L, Lipman DJ.

BMC Evol Biol. 2008 Jul 17;8:208. doi: 10.1186/1471-2148-8-208.

35.

Splign: algorithms for computing spliced alignments with identification of paralogs.

Kapustin Y, Souvorov A, Tatusova T, Lipman D.

Biol Direct. 2008 May 21;3:20. doi: 10.1186/1745-6150-3-20.

36.

[The importance of the phenomenon 'Bokt.nl' for the equine veterinarian].

Lems S, Zeijlmaker A, Hess K, Pronk D, Lipman D.

Tijdschr Diergeneeskd. 2008 Jan 1;133(1):12-3. Dutch. No abstract available.

PMID:
18260555
37.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL.

Nucleic Acids Res. 2008 Jan;36(Database issue):D25-30. Epub 2007 Dec 11.

38.

Database resources of the National Center for Biotechnology Information.

Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Edgar R, Federhen S, Feolo M, Geer LY, Helmberg W, Kapustin Y, Khovayko O, Landsman D, Lipman DJ, Madden TL, Maglott DR, Miller V, Ostell J, Pruitt KD, Schuler GD, Shumway M, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Tatusov RL, Tatusova TA, Wagner L, Yaschenko E.

Nucleic Acids Res. 2008 Jan;36(Database issue):D13-21. Epub 2007 Nov 27.

39.

The influenza virus resource at the National Center for Biotechnology Information.

Bao Y, Bolotov P, Dernovoy D, Kiryutin B, Zaslavsky L, Tatusova T, Ostell J, Lipman D.

J Virol. 2008 Jan;82(2):596-601. Epub 2007 Oct 17. No abstract available.

40.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL.

Nucleic Acids Res. 2007 Jan;35(Database issue):D21-5.

41.

Database resources of the National Center for Biotechnology Information.

Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Edgar R, Federhen S, Geer LY, Kapustin Y, Khovayko O, Landsman D, Lipman DJ, Madden TL, Maglott DR, Ostell J, Miller V, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Tatusov RL, Tatusova TA, Wagner L, Yaschenko E.

Nucleic Acids Res. 2007 Jan;35(Database issue):D5-12. Epub 2006 Dec 14.

42.

Stochastic processes are key determinants of short-term evolution in influenza a virus.

Nelson MI, Simonsen L, Viboud C, Miller MA, Taylor J, George KS, Griesemer SB, Ghedin E, Sengamalay NA, Spiro DJ, Volkov I, Grenfell BT, Lipman DJ, Taubenberger JK, Holmes EC.

PLoS Pathog. 2006 Dec;2(12):e125. Erratum in: PLoS Pathog. 2006 Dec;2(12):e138. Ghedi, Elodie [corrected to Ghedin, Elodie].

43.
44.

Comment on "Large-scale sequence analysis of avian influenza isolates".

Holmes EC, Lipman DJ, Zamarin D, Yewdell JW.

Science. 2006 Sep 15;313(5793):1573; author reply 1573.

45.

A community experiment with fully open and published peer review.

Koonin EV, Landweber LF, Lipman DJ.

Biol Direct. 2006 Jan 31;1:1. No abstract available.

46.

Database resources of the National Center for Biotechnology Information.

Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Edgar R, Federhen S, Geer LY, Helmberg W, Kapustin Y, Kenton DL, Khovayko O, Lipman DJ, Madden TL, Maglott DR, Ostell J, Pruitt KD, Schuler GD, Schriml LM, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Suzek TO, Tatusov R, Tatusova TA, Wagner L, Yaschenko E.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D173-80.

47.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D16-20.

48.

Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution.

Ghedin E, Sengamalay NA, Shumway M, Zaborsky J, Feldblyum T, Subbu V, Spiro DJ, Sitz J, Koo H, Bolotov P, Dernovoy D, Tatusova T, Bao Y, St George K, Taylor J, Lipman DJ, Fraser CM, Taubenberger JK, Salzberg SL.

Nature. 2005 Oct 20;437(7062):1162-6. Epub 2005 Oct 5.

PMID:
16208317
49.

Whole-genome analysis of human influenza A virus reveals multiple persistent lineages and reassortment among recent H3N2 viruses.

Holmes EC, Ghedin E, Miller N, Taylor J, Bao Y, St George K, Grenfell BT, Salzberg SL, Fraser CM, Lipman DJ, Taubenberger JK.

PLoS Biol. 2005 Sep;3(9):e300. Epub 2005 Jul 26.

50.

Tonsillectomy techniques.

Lipman DS.

Arch Otolaryngol Head Neck Surg. 2005 Mar;131(3):279; author reply 279-80. No abstract available.

PMID:
15781778

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