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Iman Hajirasouliha, B.S. - Publications

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32 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Mak L, Meleshko D, Danko DC, Barakzai WN, Maharjan S, Belchikov N, Hajirasouliha I. Ariadne: synthetic long read deconvolution using assembly graphs. Genome Biology. 24: 197. PMID 37641111 DOI: 10.1186/s13059-023-03033-5  0.304
2023 Mak L, Tierney B, Ronkowski C, Toomey M, Andrade Martinez JS, Zimmerman S, Fu C, Kopbayeva M, Noyvert A, Farthing B, Tang S, Mason C, Hajirasouliha I. A modular metagenomics analysis system for integrated multi-step data exploration. Biorxiv : the Preprint Server For Biology. PMID 37066359 DOI: 10.1101/2023.04.09.536171  0.31
2023 Hajirasouliha I, Semrau S. Back in 3D-a report on Genome Informatics 2022. Genome Biology. 24: 57. PMID 36978161 DOI: 10.1186/s13059-023-02870-8  0.327
2023 Popic V, Rohlicek C, Cunial F, Hajirasouliha I, Meleshko D, Garimella K, Maheshwari A. Cue: a deep-learning framework for structural variant discovery and genotyping. Nature Methods. 20: 559-568. PMID 36959322 DOI: 10.1038/s41592-023-01799-x  0.312
2022 Meleshko D, Yang R, Marks P, Williams S, Hajirasouliha I. Efficient detection and assembly of non-reference DNA sequences with synthetic long reads. Nucleic Acids Research. PMID 35924489 DOI: 10.1093/nar/gkac653  0.402
2020 Hajirasouliha I, Elemento O. Precision medicine and artificial intelligence: overview and relevance to reproductive medicine. Fertility and Sterility. 114: 908-913. PMID 33160512 DOI: 10.1016/j.fertnstert.2020.09.156  0.304
2020 Ciccolella S, Ricketts C, Soto Gomez M, Patterson M, Silverbush D, Bonizzoni P, Hajirasouliha I, Della Vedova G. Inferring Cancer Progression from Single-Cell Sequencing while Allowing Mutation Losses. Bioinformatics (Oxford, England). PMID 32805010 DOI: 10.1093/Bioinformatics/Btaa722  0.357
2020 Zook JM, Hansen NF, Olson ND, Chapman L, Mullikin JC, Xiao C, Sherry S, Koren S, Phillippy AM, Boutros PC, Sahraeian SME, Huang V, Rouette A, Alexander N, Mason CE, ... Hajirasouliha I, et al. A robust benchmark for detection of germline large deletions and insertions. Nature Biotechnology. PMID 32541955 DOI: 10.1038/S41587-020-0538-8  0.5
2020 Karaoğlanoğlu F, Ricketts C, Ebren E, Rasekh ME, Hajirasouliha I, Alkan C. VALOR2: characterization of large-scale structural variants using linked-reads. Genome Biology. 21: 72. PMID 32192518 DOI: 10.1186/S13059-020-01975-8  0.415
2019 Malikic S, Mehrabadi FR, Ciccolella S, Rahman MK, Ricketts C, Haghshenas E, Seidman D, Hach F, Hajirasouliha I, Sahinalp SC. PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data. Genome Research. PMID 31628256 DOI: 10.1101/Gr.234435.118  0.439
2019 Ricketts C, Seidman D, Popic V, Hormozdiari F, Batzoglou S, Hajirasouliha I. Meltos: Multi-Sample Tumor Phylogeny Reconstruction for Structural Variants. Bioinformatics (Oxford, England). PMID 31584621 DOI: 10.1093/Bioinformatics/Btz737  0.423
2019 Meleshko D, Mohimani H, Traccana V, Hajirasouliha I, Medema MH, Korobeynikov A, Pevzner PA. BiosyntheticSPAdes: Reconstructing Biosynthetic Gene Clusters From Assembly Graphs. Genome Research. PMID 31160374 DOI: 10.1101/Gr.243477.118  0.427
2019 Hajirasouliha I, Tilgner HU. The tech for the next decade: promises and challenges in genome biology. Genome Biology. 20: 86. PMID 31039798 DOI: 10.1186/S13059-019-1695-2  0.428
2019 Danko DC, Meleshko D, Bezdan D, Mason C, Hajirasouliha I. Minerva: an alignment- and reference-free approach to deconvolve Linked-Reads for metagenomics. Genome Research. 29: 116-124. PMID 30523036 DOI: 10.1101/Gr.235499.118  0.396
2018 Ricketts C, Popic V, Toosi H, Hajirasouliha I. Using LICHeE and BAMSE for Reconstructing Cancer Phylogenetic Trees. Current Protocols in Bioinformatics. e49. PMID 29927069 DOI: 10.1002/Cpbi.49  0.314
2015 Popic V, Salari R, Hajirasouliha I, Kashef-Haghighi D, West RB, Batzoglou S. Fast and scalable inference of multi-sample cancer lineages. Genome Biology. 16: 91. PMID 25944252 DOI: 10.1186/S13059-015-0647-8  0.351
2014 Ritz A, Bashir A, Sindi S, Hsu D, Hajirasouliha I, Raphael BJ. Characterization of structural variants with single molecule and hybrid sequencing approaches. Bioinformatics (Oxford, England). 30: 3458-66. PMID 25355789 DOI: 10.1093/Bioinformatics/Btu714  0.499
2014 Hajirasouliha I, Mahmoody A, Raphael BJ. A combinatorial approach for analyzing intra-tumor heterogeneity from high-throughput sequencing data. Bioinformatics (Oxford, England). 30: i78-86. PMID 24932008 DOI: 10.1093/Bioinformatics/Btu284  0.368
2014 Wu HT, Hajirasouliha I, Raphael BJ. Detecting independent and recurrent copy number aberrations using interval graphs. Bioinformatics (Oxford, England). 30: i195-203. PMID 24931984 DOI: 10.1093/Bioinformatics/Btu276  0.391
2013 Marschall T, Hajirasouliha I, Schönhuth A. MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels. Bioinformatics (Oxford, England). 29: 3143-50. PMID 24072733 DOI: 10.1093/Bioinformatics/Btt556  0.415
2012 Lapuk AV, Wu C, Wyatt AW, McPherson A, McConeghy BJ, Brahmbhatt S, Mo F, Zoubeidi A, Anderson S, Bell RH, Haegert A, Shukin R, Wang Y, Fazli L, Hurtado-Coll A, ... ... Hajirasouliha I, et al. From sequence to molecular pathology, and a mechanism driving the neuroendocrine phenotype in prostate cancer. The Journal of Pathology. 227: 286-97. PMID 22553170 DOI: 10.1002/Path.4047  0.322
2012 Hajirasouliha I, Schönhuth A, de Juan D, Valencia A, Sahinalp SC. Mirroring co-evolving trees in the light of their topologies. Bioinformatics (Oxford, England). 28: 1202-8. PMID 22399677 DOI: 10.1093/Bioinformatics/Bts109  0.305
2012 Wu C, Wyatt AW, Lapuk AV, McPherson A, McConeghy BJ, Bell RH, Anderson S, Haegert A, Brahmbhatt S, Shukin R, Mo F, Li E, Fazli L, Hurtado-Coll A, Jones EC, ... ... Hajirasouliha I, et al. Integrated genome and transcriptome sequencing identifies a novel form of hybrid and aggressive prostate cancer. The Journal of Pathology. 227: 53-61. PMID 22294438 DOI: 10.1002/Path.3987  0.443
2011 Hormozdiari F, Hajirasouliha I, McPherson A, Eichler EE, Sahinalp SC. Simultaneous structural variation discovery among multiple paired-end sequenced genomes. Genome Research. 21: 2203-12. PMID 22048523 DOI: 10.1101/Gr.120501.111  0.604
2011 McPherson A, Wu C, Hajirasouliha I, Hormozdiari F, Hach F, Lapuk A, Volik S, Shah S, Collins C, Sahinalp SC. Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data. Bioinformatics (Oxford, England). 27: 1481-8. PMID 21478487 DOI: 10.1093/Bioinformatics/Btr184  0.458
2011 Mills RE, Walter K, Stewart C, Handsaker RE, Chen K, Alkan C, Abyzov A, Yoon SC, Ye K, Cheetham RK, Chinwalla A, Conrad DF, Fu Y, Grubert F, Hajirasouliha I, et al. Mapping copy number variation by population-scale genome sequencing. Nature. 470: 59-65. PMID 21293372 DOI: 10.1038/Nature09708  0.555
2011 Hormozdiari F, Alkan C, Ventura M, Hajirasouliha I, Malig M, Hach F, Yorukoglu D, Dao P, Bakhshi M, Sahinalp SC, Eichler EE. Alu repeat discovery and characterization within human genomes. Genome Research. 21: 840-9. PMID 21131385 DOI: 10.1101/Gr.115956.110  0.584
2011 Hormozdiari F, Hajirasouliha I, McPherson A, Eichler EE, Sahinalp SC. Simultaneous structural variation discovery in multiple paired-end sequenced genomes Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6577: 104-105. DOI: 10.1007/978-3-642-20036-6_11  0.555
2010 Hormozdiari F, Hajirasouliha I, Dao P, Hach F, Yorukoglu D, Alkan C, Eichler EE, Sahinalp SC. Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery. Bioinformatics (Oxford, England). 26: i350-7. PMID 20529927 DOI: 10.1093/Bioinformatics/Btq216  0.57
2010 Hajirasouliha I, Hormozdiari F, Alkan C, Kidd JM, Birol I, Eichler EE, Sahinalp SC. Detection and characterization of novel sequence insertions using paired-end next-generation sequencing. Bioinformatics (Oxford, England). 26: 1277-83. PMID 20385726 DOI: 10.1093/Bioinformatics/Btq152  0.601
2009 Salari R, Aksay C, Karakoc E, Unrau PJ, Hajirasouliha I, Sahinalp SC. smyRNA: a novel Ab initio ncRNA gene finder. Plos One. 4: e5433. PMID 19415115 DOI: 10.1371/Journal.Pone.0005433  0.468
2008 Hajirasouliha I, Hormozdiari F, Sahinalp SC, Birol I. Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies. Bioinformatics (Oxford, England). 24: i32-40. PMID 18586730 DOI: 10.1093/bioinformatics/btn173  0.396
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