On Completing Latin Squares. - Iman Hajirasouliha; Hossein Jowhari; Ravi Kumar 001; Ravi Sundaram (STACS, 2007)

Biomolecular network motif counting and discovery by color coding. - Noga Alon; Phuong Dao; Iman Hajirasouliha; Fereydoun Hormozdiari; Süleyman Cenk Sahinalp (ISMB, 2008)

Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies. - Iman Hajirasouliha; Fereydoun Hormozdiari; Süleyman Cenk Sahinalp; Inanç Birol (ISMB, 2008)

Quantifying Systemic Evolutionary Changes by Color Coding Confidence-Scored PPI Networks. - Phuong Dao; Alexander Schönhuth; Fereydoun Hormozdiari; Iman Hajirasouliha; Süleyman Cenk Sahinalp; Martin Ester (WABI, 2009)

A simplified model for seismic response prediction of concentrically braced frames. - Iman Hajirasouliha; Alireza Doostan (Adv. Eng. Softw., 2010)

Detection and characterization of novel sequence insertions using paired-end next-generation sequencing. - Iman Hajirasouliha; Fereydoun Hormozdiari; Can Alkan; Jeffrey M. Kidd; Inanç Birol; Evan E. Eichler; Süleyman Cenk Sahinalp (Bioinform., 2010)

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery. - Fereydoun Hormozdiari; Iman Hajirasouliha; Phuong Dao; Faraz Hach; Deniz Yörükoglu; Can Alkan; Evan E. Eichler; Süleyman Cenk Sahinalp (Bioinform., 2010)

Simultaneous Structural Variation Discovery in Multiple Paired-End Sequenced Genomes. - Fereydoun Hormozdiari; Iman Hajirasouliha; Andrew W. McPherson; Evan E. Eichler; Süleyman Cenk Sahinalp (RECOMB, 2011)

Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data. - Andrew W. McPherson; Chunxiao Wu; Iman Hajirasouliha; Fereydoun Hormozdiari; Faraz Hach; Anna Lapuk; Stanislav Volik; Sohrab P. Shah; Colin C. Collins; Süleyman Cenk Sahinalp (Bioinform., 2011)

Convergence to Equilibria in Distributed, Selfish Reallocation Processes with Weighted Tasks. - Petra Berenbrink; Tom Friedetzky; Iman Hajirasouliha; Zengjian Hu (Algorithmica, 2012)

Mirroring co-evolving trees in the light of their topologies. - Iman Hajirasouliha; Alexander Schönhuth; David de Juan; Alfonso Valencia; Süleyman Cenk Sahinalp (Bioinform., 2012)

MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels. - Tobias Marschall; Iman Hajirasouliha; Alexander Schönhuth (Bioinform., 2013)

A combinatorial algorithm to identify independent and recurrent copy number aberrations across cancer types. - Hsin-Ta Wu; Iman Hajirasouliha; Benjamin J. Raphael (ICCABS, 2014)

Reconstructing Mutational History in Multiply Sampled Tumors Using Perfect Phylogeny Mixtures. - Iman Hajirasouliha; Benjamin J. Raphael (WABI, 2014)

A combinatorial approach for analyzing intra-tumor heterogeneity from high-throughput sequencing data. - Iman Hajirasouliha; Ahmad Mahmoody; Benjamin J. Raphael (Bioinform., 2014)

Characterization of structural variants with single molecule and hybrid sequencing approaches. - Anna M. Ritz; Ali Bashir; Suzanne S. Sindi; David Hsu; Iman Hajirasouliha; Benjamin J. Raphael (Bioinform., 2014)

Detecting independent and recurrent copy number aberrations using interval graphs. - Hsin-Ta Wu; Iman Hajirasouliha; Benjamin J. Raphael (Bioinform., 2014)

Fast and Scalable Inference of Multi-Sample Cancer Lineages. - Victoria Popic; Raheleh Salari; Iman Hajirasouliha; Dorna Kashef Haghighi; Robert B. West; Serafim Batzoglou (CoRR, 2014)

BAMSE: Bayesian model selection for tumor phylogeny inference among multiple tumor samples. - Hosein Toosi; Ali Moeini; Iman Hajirasouliha (ICCABS, 2017)

Breast Cancer Histopathological Image Classification: A Deep Learning Approach. - Mahboubeh Jannesari; Mehdi Habibzadeh; HamidReza Aboulkheyr; Pegah Khosravi; Olivier Elemento; Mehdi Totonchi; Iman Hajirasouliha (BIBM, 2018)

BAMSE: Bayesian model selection for tumor phylogeny inference among multiple samples. - Hosein Toosi; Ali Moeini; Iman Hajirasouliha (BMC Bioinform., 2019)

Deep learning enables robust assessment and selection of human blastocysts after in vitro fertilization. - Pegah Khosravi; Ehsan Kazemi 001; Qiansheng Zhan; Jonas Malmsten; Marco Toschi; Pantelis Zisimopoulos; Alexandros Sigaras; Stuart Lavery; Lee A. D. Cooper; Cristina Hickman; Marcos Meseguer; Zev Rosenwaks; et al. (npj Digit. Medicine, 2019)

Meltos: multi-sample tumor phylogeny reconstruction for structural variants. - Camir Ricketts; Daniel Seidman; Victoria Popic; Fereydoun Hormozdiari; Serafim Batzoglou; Iman Hajirasouliha (Bioinform., 2020)

gpps: an ILP-based approach for inferring cancer progression with mutation losses from single cell data. - Simone Ciccolella; Mauricio Soto Gomez; Murray D. Patterson; Gianluca Della Vedova; Iman Hajirasouliha; Paola Bonizzoni (BMC Bioinform., 2020)

Reliability of water distribution networks subjected to seismic hazard: Application of an improved entropy function. - Hossein Emamjomeh; Roohollah Ahmady Jazany; Hossein Kayhani; Iman Hajirasouliha; Mohammad Reza Bazargan-Lari (Reliab. Eng. Syst. Saf., 2020)

Inferring cancer progression from Single-Cell Sequencing while allowing mutation losses. - Simone Ciccolella; Camir Ricketts; Mauricio Soto Gomez; Murray Patterson; Dana Silverbush; Paola Bonizzoni; Iman Hajirasouliha; Gianluca Della Vedova (Bioinform., 2021)

coronaSPAdes: from biosynthetic gene clusters to RNA viral assemblies. - Dmitry Meleshko; Iman Hajirasouliha; Anton I. Korobeynikov (Bioinform., 2021)

Influence zones for continuous beam systems. - Adrien Gallet; Andrew Liew; Iman Hajirasouliha; Danny Smyl (CoRR, 2023)

Machine learning for structural design models of continuous beam systems via influence zones. - Adrien Gallet; Andrew Liew; Iman Hajirasouliha; Danny Smyl (CoRR, 2024)

Cancer progression inference using a finite-state model to allow recurrences and losses of mutations. - Simone Ciccolella; Murray Patterson; Iman Hajirasouliha; Gianluca Della Vedova (Neural Comput. Appl., 2025)