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Author Details

Can Alkan
Bilkent University
2001
95
48
PMIDPaper TitleJournal TitlePublished Year
36685727BLEND: a fast, memory-efficient and accurate mechanism to find fuzzy seed matches in genome analysis.NAR Genom Bioinform2023
37018152Identification of protein-protein interaction bridges for multiple sclerosis.Bioinformatics2023
35303886Fast characterization of segmental duplication structure in multiple genome assemblies.Algorithms Mol Biol2022
35697522Polishing copy number variant calls on exome sequencing data via deep learning.Genome Res2022
36516232CONGA: Copy number variation genotyping in ancient genomes and low-coverage sequencing data.PLoS Comput Biol2022
35962045Author Correction: Comparative and demographic analysis of orang-utan genomes.Nature2022
35976109FastRemap: a tool for quickly remapping reads between genome assemblies.Bioinformatics2022
33315064SneakySnake: a fast and accurate universal genome pre-alignment filter for CPUs, GPUs and FPGAs.Bioinformatics2021
34446078Technology dictates algorithms: recent developments in read alignment.Genome Biol2021
32192518VALOR2: characterization of large-scale structural variants using linked-reads.Genome Biol2020
32699374Author Correction: A robust benchmark for detection of germline large deletions and insertions.Nat Biotechnol2020
32541955A robust benchmark for detection of germline large deletions and insertions.Nat Biotechnol2020
29617724Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions.Brief Bioinform2019
31496881Characterizing microsatellite polymorphisms using assembly-based and mapping-based tools.Turk J Biol2019
30923804Shouji: a fast and efficient pre-alignment filter for sequence alignment.Bioinformatics2019
30937433Discovery of tandem and interspersed segmental duplications using high-throughput sequencing.Bioinformatics2019
29764378GRIM-Filter: Fast seed location filtering in DNA read mapping using processing-in-memory technologies.BMC Genomics2018
30076130Realizing the potential of blockchain technologies in genomics.Genome Res2018
30124947Hercules: a profile HMM-based hybrid error correction algorithm for long reads.Nucleic Acids Res2018
30039363Whole-Genome Shotgun Sequence CNV Detection Using Read Depth.Methods Mol Biol2018
30983868Evaluation of genome scaffolding tools using pooled clone sequencing.Turk J Biol2018
30423092Fast characterization of segmental duplications in genome assemblies.Bioinformatics2018
29391599Targeting PLK1 overcomes T-DM1 resistance via CDK1-dependent phosphorylation and inactivation of Bcl-2/xL in HER2-positive breast cancer.Oncogene2018
28073353Discovery of large genomic inversions using long range information.BMC Genomics2017
28881988Discovery and genotyping of novel sequence insertions in many sequenced individuals.Bioinformatics2017
28583483Toolkit for automated and rapid discovery of structural variants.Methods2017
28575161GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping.Bioinformatics2017
26943675Demographically-Based Evaluation of Genomic Regions under Selection in Domestic Dogs.PLoS Genet2016
26568624Optimal seed solver: optimizing seed selection in read mapping.Bioinformatics2016
27419916Inter-varietal structural variation in grapevine genomes.Plant J2016
27153582On genomic repeats and reproducibility.Bioinformatics2016
25586472Activating mutations of STAT5B and STAT3 in lymphomas derived from γδ-T or NK cells.Nat Commun2015
26382624Robustness of Massively Parallel Sequencing Platforms.PLoS One2015
26432246An integrated map of structural variation in 2,504 human genomes.Nature2015
26553077Determining the origin of synchronous multifocal bladder cancer by exome sequencing.BMC Cancer2015
25461772Fast and accurate mapping of Complete Genomics reads.Methods2015
25577434Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping.Bioinformatics2015
24418700Reconstructing complex regions of genomes using long-read sequencing technology.Genome Res2014
25385592Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication.Proc Natl Acad Sci U S A2014
25376095Whole genome sequencing of Turkish genomes reveals functional private alleles and impact of genetic interactions with Europe, Asia and Africa.BMC Genomics2014
25143822Annotated features of domestic cat - Felis catus genome.Gigascience2014
24810850mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications.Nucleic Acids Res2014
24764354Early postzygotic mutations contribute to de novo variation in a healthy monozygotic twin pair.J Med Genet2014
24453982Genome sequencing highlights the dynamic early history of dogs.PLoS Genet2014
23375656Refinement and discovery of new hotspots of copy-number variation associated with autism spectrum disorder.Am J Hum Genet2013
23884656Rates and patterns of great ape retrotransposition.Proc Natl Acad Sci U S A2013
23823723Great ape genetic diversity and population history.Nature2013
23721540The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild.BMC Genomics2013
23369189Accelerating read mapping with FastHASH.BMC Genomics2013
22398555Insights into hominid evolution from the gorilla genome sequence.Nature2012
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Collaborators

Evan E Eichler
University of Washington
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National Cancer Institute, National Institutes of Health
Co-authored papers 20
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University of California san francisco
Co-authored papers 18
Fereydoun Hormozdiari
University of California davis
Co-authored papers 15
Jeffrey M Kidd
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University of British Columbia
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Tina Graves
McDonnell Genome Institute, Washington University
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James C Mullikin
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Farhad Hormozdiari
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Iman Hajirasouliha
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Stanford University
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University of Washington
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Miriam K Konkel
Clemson University
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Nick Patterson
Harvard University
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Mark A Batzer
Louisiana State University
Co-authored papers 5
Nancy F Hansen
National Human Genome Research Institute, National Institutes of Health
Co-authored papers 4
Donna M Muzny
Baylor College of Medicine
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Arda Soylev
Konya Food and Agriculture University
Co-authored papers 4
Ali Bashir
Google Accelerated Science Team, Google Inc
Co-authored papers 4
Stephen M J Searle
Wellcome Trust Sanger Institute
Co-authored papers 4
Adam Siepel
Co-authored papers 4
Webb Miller
Co-authored papers 4
Chris P Ponting
The University of Edinburgh
Co-authored papers 4
Ken Chen
University of Texas MD Anderson Cancer Center
Co-authored papers 4
Ryan E Mills
University of Michigan Medical School ann arbor
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Release 1.2