Alexander Schliep

Head

Mailing address:
Department of Computer Science
Rutgers University
110 Frelinghuysen Road
Piscataway, NJ, 08854, USA

Visiting address:
Department of Computer Science
Rutgers University
Hill 264
110 Frelinghuysen Road
Piscataway, NJ, 08854, USA

Phone: +1-732-445-2001 ext.1166
Fax: +1-732-445-0537
E-mail: schliep@cs.rutgers.edu

Alexander Schliep received a PhD degree in computer science from the Center for Applied Computer Science (ZAIK/ZPR) at the Universität zu Kön, Germany (2001), working in collaboration with the Theoretical Biology and Biophysics Group (T-10) at Los Alamos National Laboratory. From 2002-2009 he was the group leader of the Bioinformatics Algorithms Group in the Department for Computational Molecular Biology at the Max Planck Institute for Molecular Genetics in Berlin.

In August 2009 he joined Rutgers University as an associate professor. The position is jointly between the Department of Computer Science and the BioMaPS Institute for Quantitative Biology. He is on the graduate faculty in Computer Science and the Program in Computational Biology and Molecular Biophysics. He is also a permanent member of DIMACS, the Center for Discrete Mathematics and Theoretical Computer Science.

He serves as an associate editor for BMC Bioinformatics and for Discrete Mathematics, Algorithms and Applications.

Upcoming/Recent presentations

Dec. 7, 2011. Efficient Full Bayesian HMM for CNV Detection. Invited Talk at DIMACS, Rutgers http://dimacs.rutgers.edu/Workshops/Medicine/program.html

Nov. 21, 2011. Efficient Full Bayesian HMM for CNV Detection. Invited Talk at NJIT, Department of Computer Science

Oct. 27, 2010. Analyzing gene expression during development. Invited Talk at Department of Statistics, Rutgers

Oct. 18, 2010. Clustering time-course data. Invited Talk at Stevens Institute of Technology, Hoboken, NJ

Oct. 8, 2010. Heterogenous data and mixture models. Invited Talk at CUNY Statistics Seminar, The Graduate Center, CUNY, NYC, NYC

Recent publications

T. Marshall, I. Costa, S. Canzar, M. Bauer, G. Klau, A. Schliep and A. Schönhuth CLEVER: Clique-Enumerating Variant Finder. 2012. Submitted (arXiv:1203.0937v1 [q-bio.GN]).

C. Hafemeister, R. Krause and A. Schliep Selecting oligonucleotide probes for whole-genome tiling arrays with a cross-hybridization potential. IEEE/ACM Transactions on Computational Biology and Bioinformatics 2011. In press.

C. Hafemeister, I.G. Costa, A. Schönhuth and A. Schliep Classifying short gene expression time-courses with Bayesian estimation of piecewise constant functions. Bioinformatics 2011, 27:7, 946–52.

R.B. Schilling, I.G. Costa and A. Schliep pGQL: A Probabilistic Graphical Query Language for Gene Expression Time Courses. BioData Mining 2011, 4:9.

M. Seifert, M. Strickert, A. Schliep and I. Grosse Exploiting prior knowledge and gene distances in the analysis of tumor expression profiles with extended Hidden Markov Models. Bioinformatics 2011, 27:12, 1645–1652.

Project lead

GenExpTimecourses: Analysis of gene expression time-courses.

ArrayCGH: Analyzing comparative genomic hybridization data.

Assembler: De Novo Assembly .

Tiling: Design of Tiling Arrays.

MicrorarrayDetection: Detecting biological agents with DNA Micorarray.

HomologyClassification: Detecting remote homologs as a classification problem.

RemoteHomologues: Identifying clusters of remote homologues.

AlgorithmAnimations: displaying how algorithms compute.

Software lead

MVQueries: Classifying short gene expression time-courses.

Tileomatic: Design of oligonucleotide arrays.

GHMM: General Hidden Markov Model library .

Gato: Graph Animation Toolbox.

MCPD: Markov Chain Pooling Decoder.

Proclust: Protein clustering by transitive homology.

PBQ: The Python Batch Queue.