Department of Computer Science
 Rutgers University

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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: +1-848-445-7286
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 Köln, 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. He is also an editor of http://peerj.com.

Upcoming/Recent presentations

July 11, 2016. Meaningful Data Compression and Reduction of High-Throughput Sequencing Data. Invited Talk at ISMB 2016 Special Session on Compressive Omics: Making Big Data Manageable through Data Compression (SST02), Orlando, FL

June 17, 2016. Compressive Genomics: Statistical Bioinformatics for Genome-Scale Data. Invited Talk at Weill Cornell Medicine, Institute for Computational Biomedicine, New York, NY

April 20, 2016. Big Data Science with Applications in Genomics. Invited Talk at Interuniversity Institute of Bioinformatics in Brussels, Université libre de Bruxelles, Brussels, Belgium

Feb. 3, 2016. Big Data in der Genomik. Invited Talk at Institut für Informatik, Philipps-Universität Marburg, Marburg, Germany

Nov. 16, 2015. Single-cell Genomics and Bayesian Statistics at Genome Scale. Invited Talk at C3BI Mini Symposium - New Data, New Questions, New Methods. Center of Bioinformatics, Biostatistics and Integrative Biology, Institute Pasteur, Paris, France

Recent publications

I.O.N. Lopes, A. Schliep and A.P.L.F. Carvalho Automatic learning of pre-miRNAs from different species. BMC Bioinformatics 2016. To appear.

J. Wiedenhoeft, E. Brugel and A. Schliep Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. In Research in Computational Molecular Biology: 20th Annual Conference, RECOMB 2016, Santa Monica, CA, USA, April 17-21, 2016, Proceedings, Springer, 9649, 263, 2016.

J. Wiedenhoeft, E. Brugel and A. Schliep Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. PLoS Computational Biology 2016, 12:5, e1004871.

I.O.N. Lopes, A. Schliep and A.P.L.F. Carvalho Automatic learning of pre-miRNAs from different species. ArXiv 2015. arXiv:1508.00412.

J. Wiedenhoeft, E. Brugel and A. Schliep Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. biorXiv 2015.

Project lead

GenExpTimecourses: Analysis of gene expression time-courses.

ArrayCGH: Analyzing comparative genomic hybridization data.

SCG: Bioinformatics for Single-Cell Genomics.

Tiling: Design of Tiling Arrays.

MicrorarrayDetection: Detecting biological agents with DNA Micorarray.

HomologyClassification: Detecting remote homologs as a classification problem.

AlgorithmAnimations: Displaying how algorithms compute.

RemoteHomologues: Identifying clusters of remote homologues.

Tuberculosis: Image processing and systems biology of macrophage infection.

AlgoEngineering: Reduced representations and cache-efficient algorithms and data structures for bioinformatics.

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.