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Items: 15

1.

Genome-wide evidence supports mitochondrial relationships and pervasive parallel phenotypic evolution in open-habitat chats.

Schweizer M, Warmuth VM, Alaei Kakhki N, Aliabadian M, Förschler M, Shirihai H, Ewels P, Gruselius J, Olsen RA, Schielzeth H, Suh A, Burri R.

Mol Phylogenet Evol. 2019 Jul 23;139:106568. doi: 10.1016/j.ympev.2019.106568. [Epub ahead of print]

PMID:
31349102
2.

Cluster Flow: A user-friendly bioinformatics workflow tool.

Ewels P, Krueger F, Käller M, Andrews S.

Version 2. F1000Res. 2016 Dec 6 [revised 2017 Jan 1];5:2824. doi: 10.12688/f1000research.10335.2. eCollection 2016.

3.

Transcriptomics and methylomics of CD4-positive T cells in arsenic-exposed women.

Engström K, Wojdacz TK, Marabita F, Ewels P, Käller M, Vezzi F, Prezza N, Gruselius J, Vahter M, Broberg K.

Arch Toxicol. 2017 May;91(5):2067-2078. doi: 10.1007/s00204-016-1879-4. Epub 2016 Nov 12.

4.

MultiQC: summarize analysis results for multiple tools and samples in a single report.

Ewels P, Magnusson M, Lundin S, Käller M.

Bioinformatics. 2016 Oct 1;32(19):3047-8. doi: 10.1093/bioinformatics/btw354. Epub 2016 Jun 16.

5.

Single base resolution analysis of 5-hydroxymethylcytosine in 188 human genes: implications for hepatic gene expression.

Ivanov M, Kals M, Lauschke V, Barragan I, Ewels P, Käller M, Axelsson T, Lehtiö J, Milani L, Ingelman-Sundberg M.

Nucleic Acids Res. 2016 Aug 19;44(14):6756-69. doi: 10.1093/nar/gkw316. Epub 2016 Apr 29.

6.

A Complete Overhaul of the Electron Energy-Loss Spectroscopy and X-Ray Absorption Spectroscopy Database: eelsdb.eu.

Ewels P, Sikora T, Serin V, Ewels CP, Lajaunie L.

Microsc Microanal. 2016 Jun;22(3):717-24. doi: 10.1017/S1431927616000179. Epub 2016 Feb 22.

PMID:
26899024
7.

HiCUP: pipeline for mapping and processing Hi-C data.

Wingett S, Ewels P, Furlan-Magaril M, Nagano T, Schoenfelder S, Fraser P, Andrews S.

F1000Res. 2015 Nov 20;4:1310. doi: 10.12688/f1000research.7334.1. eCollection 2015.

8.

Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies.

Patalano S, Vlasova A, Wyatt C, Ewels P, Camara F, Ferreira PG, Asher CL, Jurkowski TP, Segonds-Pichon A, Bachman M, González-Navarrete I, Minoche AE, Krueger F, Lowy E, Marcet-Houben M, Rodriguez-Ales JL, Nascimento FS, Balasubramanian S, Gabaldon T, Tarver JE, Andrews S, Himmelbauer H, Hughes WO, Guigó R, Reik W, Sumner S.

Proc Natl Acad Sci U S A. 2015 Nov 10;112(45):13970-5. doi: 10.1073/pnas.1515937112. Epub 2015 Oct 19.

9.

Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C.

Mifsud B, Tavares-Cadete F, Young AN, Sugar R, Schoenfelder S, Ferreira L, Wingett SW, Andrews S, Grey W, Ewels PA, Herman B, Happe S, Higgs A, LeProust E, Follows GA, Fraser P, Luscombe NM, Osborne CS.

Nat Genet. 2015 Jun;47(6):598-606. doi: 10.1038/ng.3286. Epub 2015 May 4.

PMID:
25938943
10.

Global reorganization of the nuclear landscape in senescent cells.

Chandra T, Ewels PA, Schoenfelder S, Furlan-Magaril M, Wingett SW, Kirschner K, Thuret JY, Andrews S, Fraser P, Reik W.

Cell Rep. 2015 Feb 3;10(4):471-83. doi: 10.1016/j.celrep.2014.12.055. Epub 2015 Jan 29.

11.

Understanding functional miRNA-target interactions in vivo by site-specific genome engineering.

Bassett AR, Azzam G, Wheatley L, Tibbit C, Rajakumar T, McGowan S, Stanger N, Ewels PA, Taylor S, Ponting CP, Liu JL, Sauka-Spengler T, Fulga TA.

Nat Commun. 2014 Aug 19;5:4640. doi: 10.1038/ncomms5640.

12.

Meet the neighbours: tools to dissect nuclear structure and function.

Osborne CS, Ewels PA, Young AN.

Brief Funct Genomics. 2011 Jan;10(1):11-7. doi: 10.1093/bfgp/elq034. Epub 2011 Jan 21. Review.

13.

Sorting nexin-1 defines an early phase of Salmonella-containing vacuole-remodeling during Salmonella infection.

Bujny MV, Ewels PA, Humphrey S, Attar N, Jepson MA, Cullen PJ.

J Cell Sci. 2008 Jun 15;121(Pt 12):2027-36. doi: 10.1242/jcs.018432. Epub 2008 May 27.

14.

Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease.

Fisher SA, Tremelling M, Anderson CA, Gwilliam R, Bumpstead S, Prescott NJ, Nimmo ER, Massey D, Berzuini C, Johnson C, Barrett JC, Cummings FR, Drummond H, Lees CW, Onnie CM, Hanson CE, Blaszczyk K, Inouye M, Ewels P, Ravindrarajah R, Keniry A, Hunt S, Carter M, Watkins N, Ouwehand W, Lewis CM, Cardon L; Wellcome Trust Case Control Consortium, Lobo A, Forbes A, Sanderson J, Jewell DP, Mansfield JC, Deloukas P, Mathew CG, Parkes M, Satsangi J.

Nat Genet. 2008 Jun;40(6):710-2. doi: 10.1038/ng.145. Epub 2008 Apr 27.

15.

High-throughput genotyping of Salmonella enterica serovar Typhi allowing geographical assignment of haplotypes and pathotypes within an urban District of Jakarta, Indonesia.

Baker S, Holt K, van de Vosse E, Roumagnac P, Whitehead S, King E, Ewels P, Keniry A, Weill FX, Lightfoot D, van Dissel JT, Sanderson KE, Farrar J, Achtman M, Deloukas P, Dougan G.

J Clin Microbiol. 2008 May;46(5):1741-6. doi: 10.1128/JCM.02249-07. Epub 2008 Mar 5.

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