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2020 – today
- 2022
[j16]Vladimir Nikolic, Amirhossein Afshinfard, Justin Chu, Johnathan Wong
, Lauren Coombe, Ka Ming Nip, René L. Warren, Inanç Birol:
RResolver: efficient short-read repeat resolution within ABySS. BMC Bioinform. 23(1): 246 (2022)- [j15]Vladimir Nikolic, Parham Kazemi, Lauren Coombe, Johnathan Wong, Amirhossein Afshinfard, Justin Chu, René L. Warren, Inanç Birol:
btllib: A C++ library with Python interface for efficient genomic sequence processing. J. Open Source Softw. 7(79): 4720 (2022) - [j14]Justin Chu, Tingting Yu, Jane Huffman Hayes, Xue Han, Yu Zhao:
Effective fault localization and context-aware debugging for concurrent programs. Softw. Test. Verification Reliab. 32(1) (2022) - 2021
- [j13]Justin Chu, Wen-Tse Yang, Wei-Ru Lu, Yao-Ting Chang, Tung-Han Hsieh, Fu-Liang Yang:
90% Accuracy for Photoplethysmography-Based Non-Invasive Blood Glucose Prediction by Deep Learning with Cohort Arrangement and Quarterly Measured HbA1c. Sensors 21(23): 7815 (2021) - [j12]Eric Chen, Justin Chu, Jessica Zhang, René L. Warren, Inanç Birol:
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
- [j11]Lauren Coombe, Vladimir Nikolic, Justin Chu, Inanç Birol, René L. Warren:
ntJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs. Bioinform. 36(12): 3885-3887 (2020) - [j10]Justin Chu, Hamid Mohamadi, Emre Erhan, Jeffery Tse, Readman Chiu, Sarah Yeo, Inanç Birol:
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
- 2018
- [j9]Sarah Yeo, Lauren Coombe, René L. Warren, Justin Chu, Inanç Birol:
ARCS: scaffolding genome drafts with linked reads. Bioinform. 34(5): 725-731 (2018) - [j8]Hamza Khan, Hamid Mohamadi, Benjamin P. Vandervalk, René L. Warren, Justin Chu, Inanç Birol:
ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data. Bioinform. 34(10): 1697-1704 (2018) - [j7]Lauren Coombe, Jessica Zhang, Benjamin P. Vandervalk, Justin Chu, Shaun D. Jackman, Inanç Birol, René L. Warren:
ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers. BMC Bioinform. 19(1): 234:1-234:10 (2018) - [j6]Shaun D. Jackman, Lauren Coombe, Justin Chu, René L. Warren, Benjamin P. Vandervalk, Sarah Yeo, Zhuyi Xue, Hamid Mohamadi, Jörg Bohlmann, Steven J. M. Jones, Inanç Birol:
Tigmint: correcting assembly errors using linked reads from large molecules. BMC Bioinform. 19(1): 393:1-393:10 (2018) - [c3]Inanç Birol, Hamid Mohamadi, Justin Chu:
ntPack: A Software Package for Big Data in Genomics. BDCAT 2018: 41-50 - 2017
- [j5]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) - [j4]Erdi Kucuk, Justin Chu, Benjamin P. Vandervalk, S. Austin Hammond, René L. Warren, Inanç Birol:
Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. 33(12): 1782-1788 (2017) - [j3]Erdi Kucuk, Justin Chu, Benjamin P. Vandervalk, S. Austin Hammond, René L. Warren, Inanç Birol:
Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinform. 33(17): 2789 (2017) - 2016
- [j2]Hamid Mohamadi, Justin Chu, Benjamin P. Vandervalk, Inanç Birol:
ntHash: recursive nucleotide hashing. Bioinform. 32(22): 3492-3494 (2016) - 2014
- [j1]Justin Chu, Sara Sadeghi, Anthony Raymond, Shaun D. Jackman, Ka Ming Nip, Richard Mar, Hamid Mohamadi, Yaron S. N. Butterfield, A. Gordon Robertson, Inanç Birol:
BioBloom tools: fast, accurate and memory-efficient host species sequence screening using bloom filters. Bioinform. 30(23): 3402-3404 (2014) - [c2]Inanç Birol, Hamid Mohamadi, Anthony Raymond, Karthika Raghavan, Justin Chu, Benjamin P. Vandervalk, Shaun D. Jackman, René L. Warren:
Spaced seed data structures. BIBM 2014: 15-22 - [c1]Benjamin P. Vandervalk, Shaun D. Jackman, Anthony Raymond, Hamid Mohamadi, Chen Yang, Dean A. Attali, Justin Chu, René L. Warren, Inanç Birol:
Konnector: Connecting paired-end reads using a bloom filter de Bruijn graph. BIBM 2014: 51-58
Coauthor Index
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