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Items: 1 to 20 of 32

1.

The Pathway Coexpression Network: Revealing pathway relationships.

Pita-Juárez Y, Altschuler G, Kariotis S, Wei W, Koler K, Green C, Tanzi RE, Hide W.

PLoS Comput Biol. 2018 Mar 19;14(3):e1006042. doi: 10.1371/journal.pcbi.1006042. eCollection 2018 Mar.

2.

Correction to: Relatively frequent switching of transcription start sites during cerebellar development.

Zhang P, Dimont E, Ha T, Swanson DJ, Itoh M, Kawaji H, Lassmann T, Daub CO, Arner E; FANTOM Consortium, Carninci P, Hayashizaki Y, Forrest ARR, Hide W, Goldowitz D.

BMC Genomics. 2018 Jan 11;19(1):39. doi: 10.1186/s12864-017-4291-4.

3.

Relatively frequent switching of transcription start sites during cerebellar development.

Zhang P, Dimont E, Ha T, Swanson DJ; FANTOM Consortium, Hide W, Goldowitz D.

BMC Genomics. 2017 Jun 13;18(1):461. doi: 10.1186/s12864-017-3834-z. Erratum in: BMC Genomics. 2018 Jan 11;19(1):39.

4.

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives.

Daily K, Ho Sui SJ, Schriml LM, Dexheimer PJ, Salomonis N, Schroll R, Bush S, Keddache M, Mayhew C, Lotia S, Perumal TM, Dang K, Pantano L, Pico AR, Grassman E, Nordling D, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Lutzko C, Aronow BJ, Omberg L.

Sci Data. 2017 Mar 28;4:170030. doi: 10.1038/sdata.2017.30.

5.

A data-driven approach links microglia to pathology and prognosis in amyotrophic lateral sclerosis.

Cooper-Knock J, Green C, Altschuler G, Wei W, Bury JJ, Heath PR, Wyles M, Gelsthorpe C, Highley JR, Lorente-Pons A, Beck T, Doyle K, Otero K, Traynor B, Kirby J, Shaw PJ, Hide W.

Acta Neuropathol Commun. 2017 Mar 16;5(1):23. doi: 10.1186/s40478-017-0424-x.

6.

Silencing of the Drosophila ortholog of SOX5 leads to abnormal neuronal development and behavioral impairment.

Li A, Hooli B, Mullin K, Tate RE, Bubnys A, Kirchner R, Chapman B, Hofmann O, Hide W, Tanzi RE.

Hum Mol Genet. 2017 Apr 15;26(8):1472-1482. doi: 10.1093/hmg/ddx051.

7.

Iterative sorting reveals CD133+ and CD133- melanoma cells as phenotypically distinct populations.

Grasso C, Anaka M, Hofmann O, Sompallae R, Broadley K, Hide W, Berridge MV, Cebon J, Behren A, McConnell MJ.

BMC Cancer. 2016 Sep 9;16(1):726. doi: 10.1186/s12885-016-2759-2.

8.

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium.

Salomonis N, Dexheimer PJ, Omberg L, Schroll R, Bush S, Huo J, Schriml L, Ho Sui S, Keddache M, Mayhew C, Shanmukhappa SK, Wells J, Daily K, Hubler S, Wang Y, Zambidis E, Margolin A, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Aronow BJ, Lutzko C.

Stem Cell Reports. 2016 Jul 12;7(1):110-25. doi: 10.1016/j.stemcr.2016.05.006. Epub 2016 Jun 9.

9.

Exome sequencing reveals recurrent germ line variants in patients with familial Waldenström macroglobulinemia.

Roccaro AM, Sacco A, Shi J, Chiarini M, Perilla-Glen A, Manier S, Glavey S, Aljawai Y, Mishima Y, Kawano Y, Moschetta M, Correll M, Improgo MR, Brown JR, Imberti L, Rossi G, Castillo JJ, Treon SP, Freedman ML, Van Allen EM, Hide W, Hiller E, Rainville I, Ghobrial IM.

Blood. 2016 May 26;127(21):2598-606. doi: 10.1182/blood-2015-11-680199. Epub 2016 Feb 22.

PMID:
26903547
10.

H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa.

Mulder NJ, Adebiyi E, Alami R, Benkahla A, Brandful J, Doumbia S, Everett D, Fadlelmola FM, Gaboun F, Gaseitsiwe S, Ghazal H, Hazelhurst S, Hide W, Ibrahimi A, Jaufeerally Fakim Y, Jongeneel CV, Joubert F, Kassim S, Kayondo J, Kumuthini J, Lyantagaye S, Makani J, Mansour Alzohairy A, Masiga D, Moussa A, Nash O, Ouwe Missi Oukem-Boyer O, Owusu-Dabo E, Panji S, Patterton H, Radouani F, Sadki K, Seghrouchni F, Tastan Bishop Ö, Tiffin N, Ulenga N; H3ABioNet Consortium.

Genome Res. 2016 Feb;26(2):271-7. doi: 10.1101/gr.196295.115. Epub 2015 Dec 1.

11.

Inferring an Evolutionary Tree of Uveal Melanoma From Genomic Copy Number Aberrations.

Singh N, Singh AD, Hide W.

Invest Ophthalmol Vis Sci. 2015 Oct;56(11):6801-9. doi: 10.1167/iovs.15-16822.

PMID:
26567793
12.

Mycoplasma Infection Alters Cancer Stem Cell Properties in Vitro.

Gedye C, Cardwell T, Dimopoulos N, Tan BS, Jackson H, Svobodová S, Anaka M, Behren A, Maher C, Hofmann O, Hide W, Caballero O, Davis ID, Cebon J.

Stem Cell Rev Rep. 2016 Feb;12(1):156-61. doi: 10.1007/s12015-015-9630-8.

PMID:
26514153
13.

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus.

Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B.

F1000Res. 2015 Jan 15;4:12. doi: 10.12688/f1000research.6038.1. eCollection 2015.

14.

edgeRun: an R package for sensitive, functionally relevant differential expression discovery using an unconditional exact test.

Dimont E, Shi J, Kirchner R, Hide W.

Bioinformatics. 2015 Aug 1;31(15):2589-90. doi: 10.1093/bioinformatics/btv209. Epub 2015 Apr 21.

15.

miR-200 promotes the mesenchymal to epithelial transition by suppressing multiple members of the Zeb2 and Snail1 transcriptional repressor complexes.

Perdigão-Henriques R, Petrocca F, Altschuler G, Thomas MP, Le MT, Tan SM, Hide W, Lieberman J.

Oncogene. 2016 Jan 14;35(2):158-72. doi: 10.1038/onc.2015.69. Epub 2015 Mar 23.

16.

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus.

Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B.

Bioinformatics. 2015 Feb 15;31(4):616-7. doi: 10.1093/bioinformatics/btv019. Epub 2015 Feb 2.

PMID:
25644272
17.

Sequencing of captive target transcripts identifies the network of regulated genes and functions of primate-specific miR-522.

Tan SM, Kirchner R, Jin J, Hofmann O, McReynolds L, Hide W, Lieberman J.

Cell Rep. 2014 Aug 21;8(4):1225-39. doi: 10.1016/j.celrep.2014.07.023. Epub 2014 Aug 14.

18.

Divergent LIN28-mRNA associations result in translational suppression upon the initiation of differentiation.

Tan SM, Altschuler G, Zhao TY, Ang HS, Yang H, Lim B, Vardy L, Hide W, Thomson AM, Lareu RR.

Nucleic Acids Res. 2014 Jul;42(12):7997-8007. doi: 10.1093/nar/gku430. Epub 2014 May 23.

19.

CAGExploreR: an R package for the analysis and visualization of promoter dynamics across multiple experiments.

Dimont E, Hofmann O, Ho Sui SJ, Forrest AR, Kawaji H; FANTOM Consortium, Hide W.

Bioinformatics. 2014 Apr 15;30(8):1183-1184. Epub 2014 Mar 27.

PMID:
24675730
20.

Comparison of illumina and 454 deep sequencing in participants failing raltegravir-based antiretroviral therapy.

Li JZ, Chapman B, Charlebois P, Hofmann O, Weiner B, Porter AJ, Samuel R, Vardhanabhuti S, Zheng L, Eron J, Taiwo B, Zody MC, Henn MR, Kuritzkes DR, Hide W; ACTG A5262 Study Team, Wilson CC, Berzins BI, Acosta EP, Bastow B, Kim PS, Read SW, Janik J, Meres DS, Lederman MM, Mong-Kryspin L, Shaw KE, Zimmerman LG, Leavitt R, De La Rosa G, Jennings A.

PLoS One. 2014 Mar 6;9(3):e90485. doi: 10.1371/journal.pone.0090485. eCollection 2014.

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