Curriculum Vitae

Wolfgang Gerlach

Wolfgang Gerlach

Personal Information

Name	Wolfgang Ullrich Gerlach
Address	Wellensiek 70 [Coordinates: 52.03903 8.4882 Google Maps] 33619 Bielefeld Germany
E-mail	mail@XWolfgang-Gerlach.com (without 'X' !)
Phone	+49 521 5225799
Date of Birth	21.01.1981 in Offenbach/Main, Germany
Nationality	German
Family Status	Married

Education

University Education	Since 2007 Phd scholarship, Graduiertenkolleg Bioinformatik and Genome Informatics, Bielefeld University Topic: Taxonomic Classification of Metagenomic Sequences
	2001-2007 M.S. (Diploma) "Computer Science for Natural Sciences", Faculty of Technology, Bielefeld University Diploma thesis: Dynamic FM-Index for a Collection of Texts with Application to Space-efficient Construction of the Compressed Suffix Array
High School	1993-2000 Gymnasium Albert Einstein in Maintal

Languages

German	native speaker
English	fluent
French	notion
Programming	C/C++, Java, Perl, Haskell, Delphi

Teaching Experiences

Summer 2009	Lecturer: Data Compression Techniques ("Datenkompression")
Winter 2007/08	Assistant: Grundlagen der Sequenzanalyse ("Foundations of Sequence Analysis")
Winter 2005/06	Tutor: "Algorithmen und Datenstrukturen I" ("Algorithms and Data Structures I")
Summer 2005	Tutor: "Algorithmen und Datenstrukturen II" ("Algorithms and Data Structures II")
Summer 2004	Tutor: "Algorithmen und Datenstrukturen II" ("Algorithms and Data Structures II")

Research Stays Abroad

Summer 2006	Research stay at the Department of Computer Science, University of Helsinki, Finland (stay: 2 months, supervisor: Veli Mäkinen)
Fall 2004	Research stay at the Bioinformatics Group, School of Computer Science, University of Waterloo, Canada (stay: 4 months, supervisors: Ming Li and Dan Brown)

Research Interests

Metagenomics, Suffix Trees, Suffix Arrays, and Compressed Data Structures in general.

Publications

2011
Wolfgang Gerlach and Jens Stoye: Taxonomic classification of metagenomic shotgun sequences with CARMA3, in Nucleic Acids Research, May 17, 2011.
2009
Wolfgang Gerlach, Sebastian Junemann, Felix Tille, Alexander Goesmann, and Jens Stoye: WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads, in BMC Bioinformatics, 10:430, December 2009 [see also WebCARMA homepage]
Niko Välimäki, Veli Mäkinen , Wolfgang Gerlach and Kashyap Dixit : Engineering a Compressed Suffix Tree Implementation, in ACM Journal of Experimental Algorithmics, 14:4.2-4.23
2007
Niko Välimäki, Wolfgang Gerlach, Kashyap Dixit, and Veli Mäkinen: Engineering a Compressed Suffix Tree Implementation, 6th Workshop on Experimental Algorithms (WEA 2007), June 6-9, Rome, Italy.
Kashyap Dixit, Wolfgang Gerlach, Veli Mäkinen, and Niko Välimäki: Compressed Suffix Tree - A Basis for Genome-scale Sequence Analysis, in Bioinformatics, 23:629-630, 2007
2006
Wolfgang Gerlach and Robert Giegerich: GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairing, in Bioinformatics, 22(6):762-764, 2006 [see also GUUGle at BiBiServ]

Talks

2010

Gerlach, W.: Taxonomic Classification of Metagenomic Reads with CARMA3, Conference on High Throughput Sequencing Analysis and Algorithms (HiTSeq 2010) in Boston, 9 July, 2010

2008

Gerlach, W.: Taxonomical and Functional Characterization of Ultra-Short Reads from Microbial Metagenomes using the q-gram Index, Special Interest Group on Algorithms for Next Generation Sequencing Technologies (Short-SIG, ISMB 2008) in Toronto, 19 July, 2008

Posters

2007

Gerlach, W.: Dynamic FM-Index for a Collection of Texts with Application to Space-efficient Construction of the Compressed Suffix Array, Summer School on Algorithmic Data Analysis (SADA07) in Helsinki, Finland, 28 May - 1 June, 2007

Gerlach, W.: Dynamic FM-Index for a Collection of Texts with Application to Space-efficient Construction of the Compressed Suffix Array, German Conference on Bioinformatics 2007 (GCB07) in Potsdam, Germany, 26-28 September, 2007