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Inanç Birol
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- affiliation: University of British Columbia, Department of Medical Genetics, Vancouver, Canada
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2020 – today
- 2022
- [j36]Parham Kazemi
, Johnathan Wong
ntHash2: recursive spaced seed hashing for nucleotide sequences. Bioinform. 38(20): 4812-4813 (2022) - [j35]Vladimir Nikolic, Amirhossein Afshinfard, Justin Chu, Johnathan Wong
RResolver: efficient short-read repeat resolution within ABySS. BMC Bioinform. 23(1): 246 (2022) - [j34]Vladimir Nikolic
btllib: A C++ library with Python interface for efficient genomic sequence processing. J. Open Source Softw. 7(79): 4720 (2022) - 2021
- [j33]René L. Warren
HLA predictions from the bronchoalveolar lavage fluid and blood samples of eight COVID-19 patients at the pandemic onset. Bioinform. 36(21): 5271-5273 (2021) - [j32]Lauren Coombe
LongStitch: high-quality genome assembly correction and scaffolding using long reads. BMC Bioinform. 22(3): 534 (2021) - [j31]Eric Chen
GapPredict - A Language Model for Resolving Gaps in Draft Genome Assemblies. IEEE ACM Trans. Comput. Biol. Bioinform. 18(6): 2802-2808 (2021) - [i1]Eric Chen, Justin Chu, Jessica Zhang, René L. Warren, Inanç Birol:
GapPredict: A Language Model for Resolving Gaps in Draft Genome Assemblies. CoRR abs/2105.10552 (2021) - 2020
- [j30]Readman Chiu, Ka Ming Nip
Fusion-Bloom: fusion detection in assembled transcriptomes. Bioinform. 36(7): 2256-2257 (2020) - [j29]Lauren Coombe
ntJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs. Bioinform. 36(12): 3885-3887 (2020) - [j28]Marco Oliva, Franco Milicchio
Portable nanopore analytics: are we there yet? Bioinform. 36(16): 4399-4405 (2020) - [j27]Guillermo Dufort y Álvarez, Gadiel Seroussi, Pablo Smircich
ENANO: Encoder for NANOpore FASTQ files. Bioinform. 36(16): 4506-4507 (2020) - [j26]Justin Chu
Mismatch-tolerant, alignment-free sequence classification using multiple spaced seeds and multiindex Bloom filters. Proc. Natl. Acad. Sci. USA 117(29): 16961-16968 (2020)
2010 – 2019
- 2019
- [j25]René L. Warren
ntEdit: scalable genome sequence polishing. Bioinform. 35(21): 4430-4432 (2019) - [j24]Shaun D. Jackman
ORCA: a comprehensive bioinformatics container environment for education and research. Bioinform. 35(21): 4448-4450 (2019) - 2018
- [j23]Sarah Yeo, Lauren Coombe
ARCS: scaffolding genome drafts with linked reads. Bioinform. 34(5): 725-731 (2018) - [j22]Hamza Khan, Hamid Mohamadi, Benjamin P. Vandervalk, René L. Warren
ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data. Bioinform. 34(10): 1697-1704 (2018) - [j21]Lauren Coombe
ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers. BMC Bioinform. 19(1): 234:1-234:10 (2018) - [j20]Shaun D. Jackman
Tigmint: correcting assembly errors using linked reads from large molecules. BMC Bioinform. 19(1): 393:1-393:10 (2018) - [c11]Golnar Sheikhshab, Inanç Birol, Anoop Sarkar:
In-domain Context-aware Token Embeddings Improve Biomedical Named Entity Recognition. Louhi@EMNLP 2018: 160-164 - [c10]Inanç Birol, Hamid Mohamadi, Justin Chu:
ntPack: A Software Package for Big Data in Genomics. BDCAT 2018: 41-50 - [c9]Golnar Sheikhshab, Elizabeth Starks
GraphNER: Using Corpus Level Similarities and Graph Propagation for Named Entity Recognition. IPDPS Workshops 2018: 229-238 - 2017
- [j19]Justin Chu, Hamid Mohamadi, René L. Warren, Chen Yang, Inanç Birol
Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art. Bioinform. 33(8): 1261-1270 (2017) - [j18]Hamid Mohamadi, Hamza Khan, Inanç Birol
ntCard: a streaming algorithm for cardinality estimation in genomics data. Bioinform. 33(9): 1324-1330 (2017) - [j17]Erdi Kucuk
Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. 33(12): 1782-1788 (2017) - [j16]Erdi Kucuk, Justin Chu, Benjamin P. Vandervalk, S. Austin Hammond
Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. 33(17): 2789 (2017) - 2016
- [j15]Hamid Mohamadi, Justin Chu, Benjamin P. Vandervalk, Inanç Birol
ntHash: recursive nucleotide hashing. Bioinform. 32(22): 3492-3494 (2016) - [c8]Golnar Sheikhshab, Elizabeth Starks, Aly Karsan, Anoop Sarkar, Inanç Birol:
Graph-based Semi-supervised Gene Mention Tagging. BioNLP@ACL 2016: 27-35 - [c7]Djallel Bouneffouf, Inanç Birol:
Ensemble Minimum Sum of Squared Similarities sampling for Nyström-based spectral clustering. IJCNN 2016: 3851-3855 - [c6]Djallel Bouneffouf, Inanç Birol:
Theoretical analysis of the Minimum Sum of Squared Similarities sampling for Nyström-based spectral clustering. IJCNN 2016: 3856-3862 - 2015
- [j14]Daniel Paulino, René L. Warren, Benjamin P. Vandervalk, Anthony Raymond, Shaun D. Jackman
Sealer: a scalable gap-closing application for finishing draft genomes. BMC Bioinform. 16: 230:1-230:8 (2015) - [c5]Djallel Bouneffouf, Inanç Birol:
Sampling with Minimum Sum of Squared Similarities for Nystrom-Based Large Scale Spectral Clustering. IJCAI 2015: 2313-2319 - [c4]Inanç Birol, Anthony Raymond, Readman Chiu, Ka Ming Nip, Shaun D. Jackman, Maayan Kreitzman, T. Roderick Docking, Catherine A. Ennis, A. Gordon Robertson, Aly Karsan:
KLEAT: Cleavage Site Analysis of Transcriptomes. Pacific Symposium on Biocomputing 2015: 347-358 - 2014
- [j13]Justin Chu, Sara Sadeghi, Anthony Raymond, Shaun D. Jackman
BioBloom tools: fast, accurate and memory-efficient host species sequence screening using bloom filters. Bioinform. 30(23): 3402-3404 (2014) - [c3]Inanç Birol, Hamid Mohamadi, Anthony Raymond, Karthika Raghavan, Justin Chu, Benjamin P. Vandervalk, Shaun D. Jackman
Spaced seed data structures. BIBM 2014: 15-22 - [c2]Benjamin P. Vandervalk, Shaun D. Jackman
Konnector: Connecting paired-end reads using a bloom filter de Bruijn graph. BIBM 2014: 51-58 - 2013
- [j12]Inanç Birol
Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data. Bioinform. 29(12): 1492-1497 (2013) - [j11]Alireza Hadj Khodabakhshi, Anthony P. Fejes, Inanç Birol
Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline. BMC Bioinform. 14: 167 (2013) - 2012
- [j10]Martin Krzywinski, Inanç Birol
Hive plots - rational approach to visualizing networks. Briefings Bioinform. 13(5): 627-644 (2012) - [j9]Deniz Yörükoglu, Faraz Hach
Dissect: detection and characterization of novel structural alterations in transcribed sequences. Bioinform. 28(12): 179-187 (2012) - 2011
- [j8]Anthony P. Fejes, Alireza Hadj Khodabakhshi, Inanç Birol
Human variation database: an open-source database template for genomic discovery. Bioinform. 27(8): 1155-1156 (2011) - 2010
- [j7]Iman Hajirasouliha, Fereydoun Hormozdiari, Can Alkan
Detection and characterization of novel sequence insertions using paired-end next-generation sequencing. Bioinform. 26(10): 1277-1283 (2010) - [j6]Steven J. M. Jones
Genomic analysis of a rare human tumor. BMC Bioinform. 11(S-4): O3 (2010) - [j5]R. T. F. Wong, Stephane Flibotte
LaneRuler: Automated Lane Tracking for DNA Electrophoresis Gel Images. IEEE Trans Autom. Sci. Eng. 7(3): 706-708 (2010)
2000 – 2009
- 2009
- [j4]Inanç Birol
De novo transcriptome assembly with ABySS. Bioinform. 25(21): 2872-2877 (2009) - [j3]Cydney B. Nielsen
ABySS-Explorer: Visualizing Genome Sequence Assemblies. IEEE Trans. Vis. Comput. Graph. 15(6): 881-888 (2009) - 2008
- [c1]Iman Hajirasouliha, Fereydoun Hormozdiari, Süleyman Cenk Sahinalp, Inanç Birol
Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies. ISMB 2008: 32-40 - 2005
- [j2]Eric Tatara, Inanç Birol
Agent-based control of autocatalytic replicators in networks of reactors. Comput. Chem. Eng. 29(4): 807-815 (2005) - 2003
- [j1]Gülnur Birol, Inanç Birol
Investigating the fermentation dynamics structure of recombinant yeast YPB-G. Comput. Chem. Eng. 27(1): 45-54 (2003)
Coauthor Index
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last updated on 2024-10-07 21:18 CEST by the dblp team
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