Department of Computer Science
 Rutgers University

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John Wiedenhoeft

Doctoral Student

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

Visiting address:
Department of Computer Science
Rutgers University
Hill Center 270
110 Frelinghuysen Road
Piscataway, NJ, 08854, USA

Phone: (732) 445-2001 ext. 9502
Fax:
E-mail: john.wiedenhoeft@cs.rutgers.edu

2011-pres: Ph.D. student of Computer Science at Rutgers, The State University of New Jersey, Teaching Assistant for CS

2010-2011: Research assistant at Max Planck Institute for Molecular Genetics Berlin, Department of Computational Molecular Biology (Martin Vingron): phylogeny of multidomain proteins, biclustering of gene expression data

2010: Visiting scholar at Iowa State University, guest lecture at BCB faculty seminar

2009-2011: M.Sc. in Bioinformatics from Freie Universität Berlin and Charité

2009-2010: Splicing analysis for RNA-Seq in zebra finch genome project at Max Planck Institute for Molecular Genetics in Berlin

2008-2010: Research assistant at Freie Universität Berlin, Department of Animal Behaviour (Constanze Scharff): "Do birds tango? Biological origins of rhythm as a carrier of emotions" (Cluster of Excellence "Languages of Emotion")

2008: Research assistant at the Max Planck Institute for Evolutionary Anthropology (Mark Stoneking): Algorithms for human genomic diversity in population genetics (Marc Bauchet); Phylogenetic approaches towards the evolution of Bantu languages (Brigitte Pakendorf)

2007-2009: B.Sc. in Bioinformatics from Freie Universität Berlin and Charité

2004: Ethnomusicological field research with the Newār people in Bhaktapur, Kathmandu valley, Nepal (Gert-Matthias Wegner): "The role of the dhimay in ritual and processional music during biskaḥ jātrā"

2003-2006: Magister studies, majoring in musicology (Humboldt-Universität Berlin), ethnomusicology (Freie Universität Berlin) and communication research (Technische Universität Berlin)

2002: Civilian service at the home für speech and hearing impaired children in Chemnitz

Upcoming/Recent presentations

April 18, 2016. Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. Contributed Talk at RECOMB 2016, Santa Monica, CA

Recent publications

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.

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

D. Günzel, S.S. Zakrzewski, T. Schmid, M. Pangalos, J. Wiedenhoeft, C. Blasse, C. Ozboda and S.M. Krug From TER to trans- and paracellular resistance: Lessons from impedance spectroscopy. Annals of the New York Academy of Science 2012, 1257, 142–151.

M. Mahmud, J. Wiedenhoeft and A. Schliep Indel-tolerant Read Mapping with Trinucleotide Frequencies using Cache-Oblivious kd-Trees. Bioinformatics 2012, 28:18, i325–i332.

Software lead

HaMMLET: Dynamically compressed Bayesian Hidden Markov Model using Haar Wavelet Shrinkage.