Current Position

Max Planck Institute for Informatics

Cluster of Excellence Multimodal Computing and Interaction

Campus E1 4, Saarbrücken 66123, Germany

http://hgsb.mpi-inf.mpg.de/research.php

Education

• College / University
  • 2003-2005 Free University of Berlin, Germany
• Highest Degree
  • B.Sc. (Bioinformatics)
• Major Subjects
  • Bioinformatics
• Scholarships
  • 2005 - 2006 Preparatory Program, IMPRS-CBSC
    10/2006 qualifying exam passed
  • 2005 - 2010 PhD at IMPRS-CBSC

Dissertation

• Submitted July 2010
• Data Structures and Algorithms for Analysis of Alternative Splicing with RNA-seq Data

Publications from time as IMPRS fellow

• S Bauer, S Köhler, MH Schulz, PN Robinson (2012)
  Bayesian Ontology Querying for accurate and noise-tolerant semantic searches.
  Bioinformatics, 28 (19): 2502-8
• MH Schulz, DR Zerbino, M Vingron, E Birney (2012)
  Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels.
  Bioinformatics, 28 (8): 1086-92
• S Roepcke, S Stahlberg, H Klein, MH Schulz, L Theobald, S Gohlke, M Vingron, DJ Walther
  A tandem sequence motif acts as a distance-dependent enhancer in a set of genes involved in translation by binding the proteins NonO and SFPQ.
  BMC Genomics, 12 (1): 624
• MH Schulz, S Kohler, S Bauer, PN Robinson (2011)
  Exact score distribution computation for ontological similarity searches.
  BMC Bioinformatics, 12 (1): 441
• C Rödelsperger, G Guo, M Kolanczyk, A Pletschacher, S Köhler, S Bauer, MH Schulz, PN Robinson (2010)
  Integrative analysis of genomic, functional and protein interaction data predicts long-range enhancer-target gene interactions.
  Nucleic Acids Res.39, (7): 2492-502
• H Richard, MH Schulz, M Sultan, A Nürnberger, S Schrinner, D Balzereit, E Dagand, A Rasche, H Lehrach, M Vingron, SA Haas, ML Yaspo (2010)
  Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments.
  Nucleic Acids Res., 38 (10): e112
• S Koehler, MH Schulz, P Krawitz, S Bauer, S Doelken, CE Ott, C Mundlos, D Horn, S Mundlos and PN Robinson (2009)
  Clinical Diagnostics with Semantic Similarity Searches in Ontologies.
  The American Journal of Human Genetics, 85 (4): 457-64 [full text]
• MH Schulz, S Köhler, S Bauer, M Vingron and PN Robinson
  Exact Score Distribution Computation for Similarity Searches in Ontologies.
  Proceedings WABI 2009 , Springer LNCS, Volume 5724, 2009 [full text]
• C Rödelsperger, S Köhler, MH Schulz, T Manke, S Bauer and PN Robinson (2009)
  Short Ultraconserved Promoter Regions Delineate a Class of Ancient, Preferentially Expressed Alternatively Spliced Transcripts.
  Genomics, 94(5): 308-16
• K Ye, MH Schulz, Q Long, R Apweiler and Z Ning
  Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short read data.
  Bioinformatics, 25 (21):2865-71 Best Paper Award Special Interest Group on Short Read Sequencing ISMB 2009 [Article]
• M Sultan*, MH Schulz*, H Richard*, A Magen, A Klingenhoff, M Scherf, M Seifert, T Borodina, A Soldatov, D Parkhomchuk, D Schmidt, S O'Keeffe, S Haas, M Vingron, H Lehrach and ML Yaspo (2008)
  A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome.
  Science, 321 (5891): 956-60 [Advance Access]
  *shared first authorship
• MH Schulz, D Weese, T Rausch, A Doering, K Reinert and M Vingron
  Fast and adaptive variable order Markov chain construction.
  Proceedings WABI 2008, Springer LNCS, Volume 5251
• D Weese and MH Schulz
  Efficient string mining under constraints via the deferred frequency index.
  Industrial Conference for Data Mining (ICDM 2008), LNAI 5077, pp. 374-388 [Article]
• W Chen, V Kalscheu, A Tzschach, C Menzel, R Ullmann, MH Schulz, F Erdogan, N Li, Z Kijas, G Arkesteijn, IL Pajares, M Goetz-Sothmann, U Heinrich, I Rost, A Dufke, U Grasshoff, BG Glaeser, M Vingron and HH Ropers
  Mapping translocation breakpoints by next-generation sequencing.
  Genome Research18: 1143-1149 [Article]
• G Guo, S Bauer, J Hecht, MH Schulz, A Busche and PN Robinson (2008)
  A short ultraconserved sequence drives transcription from an alternate FBN1 promoter
  The International Journal of Biochemistry & Cell Biology ,40 (4): 638-50 [Article]
• MH Schulz*, S Bauer* and PN Robinson (2008)
  The generalised k-Truncated Suffix Tree for time- and space- efficient searches in multiple DNA or protein sequences.
  International Journal of Bioinformatics Research and Applications , 4 (1): 81-95 [Article]
  *shared first authorship
• Characterisation of Mitochondrial Ribosomal Protein Gene Promoters (2005)
  Bachelor's thesis at Max Planck Institute for Molecular Genetics (Dep. Computational Molecular Biology) and the Free University of Berlin

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