Haroon Naeem

E-Mail:	haroon.naeem * at * campus.lmu.de
Phone:	+49-89-2180-4051
Fax:	+49-89-2180-99-4051
Address:	Teaching and Research Unit Bioinformatics Institut für Informatik Ludwig-Maximilians-Universität München
	Amalienstr. 17, 80333 Munich, Germany
Raum:	302 3. Etage

Research

microRNA/transcription factor gene regulatory networks
Gene expression analysis
Text mining
Databases

Publications

2011

Papers

Naeem H, Küffner R, Zimmer R.. MIRTFnet: analysis of miRNA regulated transcription factors. PLoS One, pp. 6(8):e22519, August 2011.

BibTex

2012

Papers

Haroon Naeem, Ralf Zimmer, Pegah Tavakkolkhah, Robert Küffner. Rigorous assessment of gene set enrichment tests. Bioinformatics, vol bts164v1-bts164, pp. 7, April 2012.

BibTex

Theses

Haroon Naeem. Activity of microRNAs and transcription factors in Gene Regulatory Networks. PhD Thesis, LMU München, 2012.

BibTex

2010

Papers

Haroon Naeem, Robert Küffner, Gergely Csaba, Ralf Zimmer. miRSel: automated extraction of associations between microRNAs and genes from the biomedical literature. BMC Bioinformatics, vol 11, pp. 135, 16 March 2010 2010.

BibTex

Curriculum Vitae

Education
since Sep 2007	PhD Student, Bioinformatics, University of Munich (LMU Munich)
2003-2005	Masters of Science in Computer Science, Lahore University of Management Sciences (LUMS Pakistan)
1999-2003	Bachelors of Computer Science (Honors), University of Lahore (UOL Pakistan)
Working experiences
Sep 2007	Ph.D. student, Bioinformatics research group, University of Munich (LMU Munich) - Text mining, gene expression Data Analysis, microRNAs and transcription factors gene regulatory network
2005-2007	Software Engineer, The Resource Group (TRG Pakistan, trgwork.com), designing, developing and maintaining software solutions
2004-2005	Teaching Assistant, Lahore University of Management Sciences
Jul 2004 - Aug 2004	Technical Writer (Intern), State Bank of Pakistan

MIRTFnet

We develop the method MIRTFnet to determine the experimental conditions where certain regulators like miRNAs become active and how they regulate the transcriptome via cascades of other miRNAs, transcription factors (TFs) or kinases. Based on the identified TFs, databases, computational predictions and the literature we construct regulatory models downstream of miRNA actions.

Details can be found at the MIRTFNET webpage.

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