Iman Hajirasouliha
Check this short video by SFU Learning+Teaching featuring our lab.
I am
currently a Ph.D. candidate at the Lab for
Computational Biology, School of Computing
Science, SFU under Prof. S. Cenk Sahinalp.
My
email address is: ima...@sfu.ca (Please click on the dots to get my email address)
Research Interests
|
Structural variations in high-throughput sequenced genomes |
|
Topological properties of protein-protein interaction networks |
|
Algorithms, Randomized and Approximation Algorithms |
Check my advisor's lecture on YouTube! to get a flavor of the research in the Lab
Previous
Study
I
defended my M.Sc. thesis on the last day of August 2007. My thesis title was
"Convergence to Nash Equilibria in Distributed and Selfish Reallocation
Processes" under supervision of Dr. Petra Berenbrink.
When both my supervisors took sabbatical abroad in September 2007, I spent two
semesters at Bilkent and Sabanci universities in Turkey
and University of Durham in England. From
February to July 2009, I was a visiting scholar at the Eichler Lab, Genome
Sciences Department, University of
Washington in Seattle.
I have a B.Sc. in Computer Engineering from Sharif
University of Technology
, Tehran, Iran. My B.Sc. thesis title was Selfish Routing under supervision of Dr. Mohammad Ghodsi.
Selected
Publications
DBLP (computer science orientation)
Iman Hajirasouliha, Alexander Schonhuth, David Juan, Alfonso Valencia and S. Cenk Sahinalp
Mirroring co-evolving trees in the light of their topologies
Bioinformatics accepted with minor revision
Fereydoun Hormozdiari*, Iman Hajirasouliha*,
Andrew McPherson, Evan E. Eichler, S. Cenk Sahinalp
Simultaneous structural variation discovery in multiple paired-end
sequenced genomes [PREPRINT][RECOMB 2011 SLIDES]
RECOMB'11 (15th Annual International Conference on Research in Computational Molecular Biology), Vancouver, Canada, March 28-31 2011
(Also, Genome Research, 2011 Dec;21(12):2203-12. Epub 2011 Nov 2.) Featured on the cover!
Highlighted in: Nature Biotechnology, 29, 1101 (2011)
Andrew McPherson*, Chunxiao Wu*, Iman Hajirasouliha*, Fereydoun Hormozdiari*, Faraz Hach, Anna Lapuk, Stanislav Volik, Sohrab Shah, Colin Collins, S. Cenk Sahinalp
Comrad: a novel algorithmic framework for the integrated
analysis of RNA-Seq and WGSS data
ISMB-HitSeq'11 (High Throughput Sequencing Analysis and Algorithms, Special Interest Group of ISMB'11), Vienna, Austria, July 15-16 2011. Winner of the Best Paper Award
(Also, Bioinformatics 2011 Jun 1;27(11):1481-8. Epub 2011 Apr 9.)
Mills, R. E.*, K. Walter*, D. A. Stewart*, R. Handsaker*, K. Chen*, C. Alkan*, A. Abyzov*, S. C. Yoon*, K. Ye*, R. K. Cheetham, A. Chinwalla, D. F. Conrad, Y. Fu, F. Grubert., I. Hajirasouliha, F. Hormozdiari, L. M. Iakoucheva, Z. Iqbal, J. M. Kidd, M. K. Konkel, J. Korn, E. Khurana, D. Kura, H. J. K. Lam, J. Leng, R. Li, Y. Li, C.-Y. Lin, R. Luo, X. J. Mu, J. Nemesh, H. E. Peckham, T. Rausch, A. Scally, X. Shi, M. P. Stromberg, A. M. Stutz, A. E. Urban, J. A. Walker, J. Wu, Y. Zhang, Z. Zhang, M. A. Batzer, L. Ding, G. T. Marth, G. McVean, J. Sebat, M. Snyder, J. Wang, K. Ye, K. Ye, E. E. Eichler, M. B. Gerstein, M. E. Hurles, C. Lee, S. A. McCarroll and J. O. Korbel on behalf of the 1000 Genomes Project.
Mapping copy number variation at fine-scale by population-scale genome sequencing
Nature 470, 59-65 (03 February 2011)
Petra Berenbrink, Tom Friedetzky, Iman Hajirasouliha
and Zengjian Hu^
Convergence to Equilibria in Distributed,
Selfish Reallocation Processes with Weighted Tasks
Algorithmica, DOI: 10.1007/s00453-010-9482-1, Online First, 24 December 2010
A preliminary version of this work was appeared in the ESA'07 (15th Annual European
Symposium on Algorithms), October 8-10, 2007
Fereydoun Hormozdiari*, Can Alkan*, Mario Ventura*, Iman Hajirasouliha,
Maika Malig, Faraz Hach, Deniz Yorukoglu, Phuong Dao, Marzieh Bakhshi, S.
Cenk Sahinalp, Evan E. Eichler
Alu repeat discovery and characterization within human genomes
Genome Research, June 2011 21: 840-849; Published in Advance December 3, 2010, doi:10.1101/gr.115956.110
The 1000 Genomes Project Consortium
A map of human genome variation from population-scale sequencing
Nature 467, 1061-1073 (28 October 2010) Featured on the cover!
Comment in: Nature 2010 Oct 28;467(7319):1050-1.
(For a list of related publications, please see the 1000 Genomes Project special page in Nature.)
Fereydoun Hormozdiari, Iman Hajirasouliha, Phuong Dao, Faraz Hach, Deniz Yorukoglu, Can Alkan, Evan E. Eichler, S. Cenk Sahinalp
Next Generation VariationHunter: Combinatorial Algorithms for Transposon Insertion Discovery
ISMB'10 (18th Annual International Conference Intelligent Systems for Molecular Biology), Boston, USA, July 11-13 2010
(Also, Bioinformatics 2010 Jun 15;26(12):i350-i357) 
Iman Hajirasouliha*, Fereydoun Hormozdiari*, Can Alkan*, Jeffrey M. Kidd, Inanc Birol, Evan E. Eichler, S. Cenk Sahinalp
Detection and characterization of sequence insertions using paired-end next-generation sequencing
ISMB-HiTSeq'10 (High Throughput Sequencing Analysis and Algorithms, Special Interest Group of ISMB'10), Boston, USA, July 9-10 2010
(Also, Bioinformatics 2010 May 15;26(10):1277-83. Epub 2010 Apr 12.) 
Phuong Dao, Alexander Schönhuth, Fereydoun Hormozdiari, Iman
Hajirasouliha, S. Cenk Sahinalp, Martin Ester
Quantifying systemic evolutionary changes by color coding confidence-sored PPI
networks
WABI'09 (9th Workshop on Algorithms in Bioinformatics), Philadelphia, USA, September 12-13 2009
(Also, Lecture Notes in Computer Science, volume 5724, pages 37-48)
Rahele Salari*, Cagri Aksay*, Emre Karakoc, Peter Unrau, Iman
Hajirasouliha, and S. Cenk Sahinalp
smyRNA: A novel ab initio ncRNA gene finder
PLoS ONE, (5): e5433, doi:10.1371/journal.pone.0005433, May 2009
Iman Hajirasouliha*, Fereydoun Hormozdiari*, S. Cenk Sahinalp, and
Inanc Birol
Optimal pooling for genome re-sequencing with ultra-high-throughput short-read
technologies
ISMB'08 (16th Annual International Conference Intelligent Systems for Molecular Biology), Toronto, Canada, July 19-23 2008
(Also, Bioinformatics 2008 Jul 1;24 (13):i32-40)
Noga Alon, Phuong Dao, Iman Hajirasouliha, Fereydoun Hormozdiari and S.
Cenk Sahinalp^
Biomolecular Network Motif Counting and Discovery by Color Coding
ISMB'08 (16th Annual International
Conference Intelligent Systems for Molecular Biology), Toronto, Canada, July 19-23 2008
(Also, Bioinformatics 2008 Jul 1;24 (13):i241-9)
Iman Hajirasouliha, Hossein
Jowhari, Ravi Kumar, and Ravi Sundaram^
On Completing Latin Squares
STACS’07 (24th Annual Symposium on Theoretical Aspects of
Computer Science), Aachen, Germany, February 22-24 2007
(also,
Lecture Notes in Computer Science, volume 4393, pages 524-535)
*: Joint first authorship. ^: Author names are sorted in the alphabetical order.
Thesis
Convergence
to Nash Equilibria in Distributed, Selfish Reallocation Processes PDF
M.Sc. Thesis
Simon Fraser University, Canada, August 2007
B.Sc. Thesis
Sharif University of Technology, Tehran, Iran, July 2005
Recent
(upcoming) Presentations
Algorithmic Methods for Structural Variation Detection
Department of Genetics, Stanford University, Stanford, CA, USA, January 2012
Simultaneous structural variation discovery among multiple paired-end sequenced genomes
NCBI, NLM, NIH Computational Biology Branch, Bethesda, MD, USA, March 2011
The 15th Annual International Conference on Research in Computational Molecular Biology (RECOMB), Vancouver, Canada, March 2011 [SLIDES]
Bioinformatics Analysis of Pseudomonas Genomes and Transcriptomes Sequenced Through High Throughput Technologies
The BCID (Bioinformatics for Combating Infectious Dieseases) program, Simon Fraser University,
Vancouver, Canada, June 2010 (Joint with Faraz Hach)
Detection of locus and content of novel sequence insertions usingpaired-end next-generation sequencing technology
ISMB-HiTSeq (High Throughput Sequencing Analysis and Algorithms, Special Interest Group of ISMB), Boston, USA, July 2010
Poster Presentation Frontiers in Biophysics'10, Simon Fraser University, March 2010
Detection of locus and content of novel sequence insertions
The MoCSSy (Modelling of Complex Social Systems) program at Simon Fraser University,
Vancouver, Canada, March 2010
Combinatorial algorithms
help discovering structural variants in high-throughput sequenced genomes
Sharif University of Technology, Tehran, Iran,
January 2010
Biomolecular Network
Motif Counting and Discovery by Color Coding
Simon Fraser University, Vancouver, Canada, October 2008 (joint with Phuong Dao)
The 16th Annual International Conference
Intelligent Systems for Molecular Biology (ISMB), Toronto, Canada, July 2008
University of Durham, Durham, England, May
2008
Sabanci University, Istanbul, Turkey, April
2008
Convergence
to Nash Equilibria in Distributed, Selfish Reallocation Processes
M.Sc. Thesis, Simon Fraser University, Vancouver,
Canada, August 2007
Convergence
to Nash Equilibria
Northeastern University, Boston, USA, May 2007
On Completing Latin Squares
The 24th Annual Symposium on Theoretical Aspects of Computer Science
(STACS), Aachen, Germany, Feb 2007
Other
Publications
Inanc Birol, Shaun Jackman, Matthew Field, Karen Mungall, Kim Wong,
Readman Chiu, Andy Chu, Richard Corbett, Carrie Hirst, Andy Mungall, Thomas
Zeng, Angela Tam, Irene Li, Iman Hajirasoulia, Fereydoun Hormozdiari, S Cenk
Sahinalp, Richard Varhol, Yongjun Zhao, Martin Hirst, Jacqueline E Schein, Doug
E Horsman, Randy D Gascoyne, Joseph M Connors, Marco A Marra, Steven JM Jones
Assembling Pooled Bac Sequences
Genome Informatics, 2009
F. Antonacci, J. M. Kidd, N. Sampas, N. A. Yamada, P. Tsang, H.
S. Hayden, W. Gillett, T. Graves, C. Alkan, I. Hajirasouliha, M. Ventura, R. K.
Wilson, L. Bruhn, R. Kaul, E. E. Eichler
Characterization of "new" human genome sequences variable among
individuals
ASHG '09 (The 59th American Society of Human Genetics)
