Welcome

 
Hi there,
welcome to my personal website.
There is not much to see here, except some self-promotional stuff.

Research & Education

 

After graduating in 2002 with a "Diplom" in Biology from Heinrich-Heine-University Düsseldorf, I started a PhD in the Department of Physical Biology in Prof. Gerhard Steger's group. In 2006 I received my PhD degree (summa cum laude). The thesis titled "RNA-Alignments and RNA-Structure in silico" can be downloaded here (German only; an English abstract is available here.) During both, my studies and the PhD, I worked for several companies as a programmer and sys-admin.
Since October 2006, I have been working as a Postdoctoral Researcher in Professor Des Higgins's group at UCD Dublin.

Peer-Reviewed Publications

 
Sequence Embedding for fast Construction of Guide Trees for Multiple Sequence Alignment
Blackshields G, Sievers F, Weifeng S, Wilm A, Higgins DG.
Algorithms Mol Biol. 2010; May 14;5(1):21.
PMID: 20470396
mBed Source, Linux binaries: 32-bit, 64-bit
High DNA melting temperature predicts transcription start site location in human and mouse
Dineen DG, Wilm A, Cunningham P, Higgins DG.
Nucleic Acids Res. 2009 Dec; 37(22):7360-7.
PMID: 19820114
Profisi Website
R-Coffee: a web server for accurately aligning noncoding RNA sequences.
Moretti S, Wilm A, Higgins DG, Xenarios I, Notredame C.
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W10-3. Epub 2008 May 15.
PMID: 18483080
R-Coffee Webserver
Fast embedding methods for clustering tens of thousands of sequences.
Blackshields G, Larkin M, Wallace IM, Wilm A, Higgins DG.
Comput Biol Chem. 2008 Aug;32(4):282-6. Epub 2008 Mar 26.
PMID: 18450519
ConStruct: Improved construction of RNA consensus structures.
Wilm A, Linnenbrink K, Steger G.
BMC Bioinformatics. 2008 Apr 28;9:219.
PMID: 18442401
ConStruct Website
R-Coffee: a method for multiple alignment of non-coding RNA.
Wilm A, Higgins DG, Notredame C.
Nucleic Acids Res. 2008 May;36(9):e52. Epub 2008 Apr 17.
PMID: 18420654
R-Coffee Website
Clustal W and Clustal X version 2.0.
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG.
Bioinformatics./ 2007 Nov 1;23(21):2947-8. Epub 2007 Sep 10.
PMID: 17846036
Clustal Website
An enhanced RNA alignment benchmark for sequence alignment programs.
Wilm A, Mainz I, Steger G.
Algorithms Mol Biol. 2006 Oct 24;1:19.
PMID: 17062125
BRAliBase 2.1 website
STRAL: progressive alignment of non-coding RNA using base pairing probability vectors in quadratic time.
Dalli D, Wilm A, Mainz I, Steger G.
Bioinformatics. 2006 Jul 1;22(13):1593-9. Epub 2006 Apr 13.
PMID: 16613908
StrAl Website
A benchmark of multiple sequence alignment programs upon structural RNAs.
Gardner PP, Wilm A, Washietl S.
Nucleic Acids Res. 2005 Apr 28;33(8):2433-9. Print 2005.
PMID: 15860779
BRALiBase (III) website