| Year |
Citation |
Score |
| 2023 |
Lo T, Coombe L, Gagalova KK, Marr A, Warren RL, Kirk H, Pandoh P, Zhao Y, Moore RA, Mungall AJ, Ritland C, Pavy N, Jones SJM, Bohlmann J, Bousquet J, ... Birol I, et al. Assembly and annotation of the black spruce genome provide insights on spruce phylogeny and evolution of stress response. G3 (Bethesda, Md.). PMID 37875130 DOI: 10.1093/g3journal/jkad247 |
0.426 |
|
| 2023 |
Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez JM, Hunt T, Lagarde J, Liang CE, ... ... Birol I, et al. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Biorxiv : the Preprint Server For Biology. PMID 37546854 DOI: 10.1101/2023.07.25.550582 |
0.365 |
|
| 2023 |
Nip KM, Hafezqorani S, Gagalova KK, Chiu R, Yang C, Warren RL, Birol I. Reference-free assembly of long-read transcriptome sequencing data with RNA-Bloom2. Nature Communications. 14: 2940. PMID 37217540 DOI: 10.1038/s41467-023-38553-y |
0.304 |
|
| 2023 |
Wong J, Coombe L, Nikolić V, Zhang E, Nip KM, Sidhu P, Warren RL, Birol I. Linear time complexity de novo long read genome assembly with GoldRush. Nature Communications. 14: 2906. PMID 37217507 DOI: 10.1038/s41467-023-38716-x |
0.444 |
|
| 2023 |
Coombe L, Warren RL, Wong J, Nikolic V, Birol I. ntLink: A Toolkit for De Novo Genome Assembly Scaffolding and Mapping Using Long Reads. Current Protocols. 3: e733. PMID 37039735 DOI: 10.1002/cpz1.733 |
0.453 |
|
| 2023 |
Yang C, Lo T, Nip KM, Hafezqorani S, Warren RL, Birol I. Characterization and simulation of metagenomic nanopore sequencing data with Meta-NanoSim. Gigascience. 12. PMID 36939007 DOI: 10.1093/gigascience/giad013 |
0.38 |
|
| 2022 |
Shalev TJ, Gamal El-Dien O, Yuen MMS, Shengqiang S, Jackman SD, Warren RL, Coombe L, van der Merwe L, Stewart A, Boston LB, Plott C, Jenkins J, He G, Yan J, Yan M, ... ... Birol I, et al. The western redcedar genome reveals low genetic diversity in a self-compatible conifer. Genome Research. PMID 36109148 DOI: 10.1101/gr.276358.121 |
0.669 |
|
| 2022 |
Kazemi P, Wong J, Nikolić V, Mohamadi H, Warren RL, Birol I. ntHash2: recursive spaced seed hashing for nucleotide sequences. Bioinformatics (Oxford, England). PMID 36000872 DOI: 10.1093/bioinformatics/btac564 |
0.338 |
|
| 2022 |
Gagalova KK, Warren RL, Coombe L, Wong J, Nip KM, Yuen MMS, Whitehill JG, Celedon JM, Ritland C, Taylor GA, Cheng D, Plettner P, Hammond SA, Mohamadi H, Zhao Y, ... ... Birol I, et al. Spruce giga-genomes: structurally similar yet distinctive with differentially expanding gene families and rapidly evolving genes. The Plant Journal : For Cell and Molecular Biology. PMID 35789009 DOI: 10.1111/tpj.15889 |
0.423 |
|
| 2022 |
Nikolić V, Afshinfard A, Chu J, Wong J, Coombe L, Nip KM, Warren RL, Birol I. RResolver: efficient short-read repeat resolution within ABySS. Bmc Bioinformatics. 23: 246. PMID 35729491 DOI: 10.1186/s12859-022-04790-z |
0.333 |
|
| 2022 |
Chiu R, Rajan-Babu IS, Birol I, Friedman JM. Linked-read sequencing for detecting short tandem repeat expansions. Scientific Reports. 12: 9352. PMID 35672336 DOI: 10.1038/s41598-022-13024-4 |
0.358 |
|
| 2022 |
Li JX, Coombe L, Wong J, Birol I, Warren RL. ntEdit+Sealer: Efficient Targeted Error Resolution and Automated Finishing of Long-Read Genome Assemblies. Current Protocols. 2: e442. PMID 35567771 DOI: 10.1002/cpz1.442 |
0.422 |
|
| 2022 |
Gagalova KK, Whitehill JGA, Culibrk L, Lin D, Lévesque-Tremblay V, Keeling CI, Coombe L, Yuen MMS, Birol I, Bohlmann J, Jones SJM. The genome of the forest insect pest Pissodes strobi reveals genome expansion and evidence of a Wolbachia endosymbiont. G3 (Bethesda, Md.). PMID 35171977 DOI: 10.1093/g3journal/jkac038 |
0.315 |
|
| 2021 |
Coombe L, Li JX, Lo T, Wong J, Nikolic V, Warren RL, Birol I. LongStitch: high-quality genome assembly correction and scaffolding using long reads. Bmc Bioinformatics. 22: 534. PMID 34717540 DOI: 10.1186/s12859-021-04451-7 |
0.443 |
|
| 2021 |
Rajan-Babu IS, Peng JJ, Chiu R, Li C, Mohajeri A, Dolzhenko E, Eberle MA, Birol I, Friedman JM. Correction to: Genome-wide sequencing as a first-tier screening test for short tandem repeat expansions. Genome Medicine. 13: 151. PMID 34517885 DOI: 10.1186/s13073-021-00961-4 |
0.374 |
|
| 2021 |
Chen E, Chu J, Zhang J, Warren R, Birol I. GapPredict A Language Model for Resolving Gaps in Draft Genome Assemblies. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34478378 DOI: 10.1109/TCBB.2021.3109557 |
0.445 |
|
| 2021 |
Chiu R, Rajan-Babu IS, Friedman JM, Birol I. Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences. Genome Biology. 22: 224. PMID 34389037 DOI: 10.1186/s13059-021-02447-3 |
0.394 |
|
| 2021 |
Rajan-Babu IS, Peng JJ, Chiu R, Li C, Mohajeri A, Dolzhenko E, Eberle MA, Birol I, Friedman JM. Genome-wide sequencing as a first-tier screening test for short tandem repeat expansions. Genome Medicine. 13: 126. PMID 34372915 DOI: 10.1186/s13073-021-00932-9 |
0.305 |
|
| 2020 |
Lo T, Coombe L, Lin D, Warren RL, Kirk H, Pandoh P, Zhao Y, Moore RA, Mungall AJ, Ritland C, Bousquet J, Jones SJM, Bohlmann J, Thomson A, Birol I. Complete Chloroplast Genome Sequence of a Black Spruce (Picea mariana) from Eastern Canada. Microbiology Resource Announcements. 9. PMID 32972944 DOI: 10.1128/MRA.00877-20 |
0.422 |
|
| 2020 |
Nip KM, Chiu R, Yang C, Chu J, Mohamadi H, Warren RL, Birol I. RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes. Genome Research. PMID 32817073 DOI: 10.1101/Gr.260174.119 |
0.358 |
|
| 2020 |
Chu J, Mohamadi H, Erhan E, Tse J, Chiu R, Yeo S, Birol I. Mismatch-tolerant, alignment-free sequence classification using multiple spaced seeds and multiindex Bloom filters. Proceedings of the National Academy of Sciences of the United States of America. PMID 32641514 DOI: 10.1073/Pnas.1903436117 |
0.383 |
|
| 2020 |
Hafezqorani S, Yang C, Lo T, Nip KM, Warren RL, Birol I. Trans-NanoSim characterizes and simulates nanopore RNA-sequencing data. Gigascience. 9. PMID 32520350 DOI: 10.1093/Gigascience/Giaa061 |
0.415 |
|
| 2020 |
Jackman SD, Coombe L, Warren RL, Kirk H, Trinh E, MacLeod T, Pleasance S, Pandoh P, Zhao Y, Coope RJ, Bousquet J, Bohlmann J, Jones SJM, Birol I. Complete mitochondrial genome of a gymnosperm, Sitka spruce (Picea sitchensis), indicates a complex physical structure. Genome Biology and Evolution. PMID 32449750 DOI: 10.1093/Gbe/Evaa108 |
0.743 |
|
| 2020 |
Coombe L, Nikolić V, Chu J, Birol I, Warren RL. ntJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs. Bioinformatics (Oxford, England). PMID 32311025 DOI: 10.1093/Bioinformatics/Btaa253 |
0.521 |
|
| 2019 |
Chiu R, Nip KM, Birol I. Fusion-Bloom: fusion detection in assembled transcriptomes. Bioinformatics (Oxford, England). PMID 31790154 DOI: 10.1093/Bioinformatics/Btz902 |
0.354 |
|
| 2019 |
Homola JJ, Loftin CS, Cammen KM, Helbing CC, Birol I, Schultz TF, Kinnison MT. Replicated landscape genomics identifies evidence of local adaptation to urbanization in wood frogs. The Journal of Heredity. PMID 31278891 DOI: 10.1093/Jhered/Esz041 |
0.39 |
|
| 2019 |
Kwan HH, Culibrk L, Taylor GA, Leelakumari S, Tan R, Jackman SD, Tse K, MacLeod T, Cheng D, Chuah E, Kirk H, Pandoh P, Carlsen R, Zhao Y, Mungall AJ, ... ... Birol I, et al. The Genome of the Steller Sea Lion (). Genes. 10. PMID 31248052 DOI: 10.3390/Genes10070486 |
0.76 |
|
| 2019 |
Lin D, Coombe L, Jackman SD, Gagalova KK, Warren RL, Hammond SA, McDonald H, Kirk H, Pandoh P, Zhao Y, Moore RA, Mungall AJ, Ritland C, Doerksen T, Jaquish B, ... ... Birol I, et al. Complete Chloroplast Genome Sequence of an Engelmann Spruce (, Genotype Se404-851) from Western Canada. Microbiology Resource Announcements. 8. PMID 31196920 DOI: 10.1128/MRA.00382-19 |
0.745 |
|
| 2019 |
Lin D, Coombe L, Jackman SD, Gagalova KK, Warren RL, Hammond SA, Kirk H, Pandoh P, Zhao Y, Moore RA, Mungall AJ, Ritland C, Jaquish B, Isabel N, Bousquet J, ... ... Birol I, et al. Complete Chloroplast Genome Sequence of a White Spruce (Picea glauca, Genotype WS77111) from Eastern Canada. Microbiology Resource Announcements. 8. PMID 31171622 DOI: 10.1128/MRA.00381-19 |
0.738 |
|
| 2019 |
Warren RL, Coombe L, Mohamadi H, Zhang J, Jaquish B, Isabel N, Jones SJM, Bousquet J, Bohlmann J, Birol I. ntEdit: scalable genome sequence polishing. Bioinformatics (Oxford, England). PMID 31095290 DOI: 10.1093/Bioinformatics/Btz400 |
0.553 |
|
| 2019 |
Jackman SD, Mozgacheva T, Chen S, O'Huiginn B, Bailey L, Birol I, Jones SJM. ORCA: A Comprehensive Bioinformatics Container Environment for Education and Research. Bioinformatics (Oxford, England). PMID 31004474 DOI: 10.1093/Bioinformatics/Btz278 |
0.647 |
|
| 2019 |
Helbing CC, Hammond SA, Jackman SH, Houston S, Warren RL, Cameron CE, Birol I. Antimicrobial peptides from Rana [Lithobates] catesbeiana: Gene structure and bioinformatic identification of novel forms from tadpoles. Scientific Reports. 9: 1529. PMID 30728430 DOI: 10.1038/S41598-018-38442-1 |
0.412 |
|
| 2019 |
Jackman S, Chu J, Nikolić V, Afshinfard A, Coombe L, Dilek G, Palchowdhury S, Mohamadi H, Warren R, Bohlmann J, Birol İ. Physlr: Construct a physical map from linked reads F1000research. 8. DOI: 10.7490/F1000Research.1117235.1 |
0.623 |
|
| 2018 |
Taylor GA, Kirk H, Coombe L, Jackman SD, Chu J, Tse K, Cheng D, Chuah E, Pandoh P, Carlsen R, Zhao Y, Mungall AJ, Moore R, Birol I, Franke M, et al. The Genome of the North American Brown Bear or Grizzly: Ursus arctos ssp. horribilis. Genes. 9. PMID 30513700 DOI: 10.3390/Genes9120598 |
0.781 |
|
| 2018 |
Jackman SD, Coombe L, Chu J, Warren RL, Vandervalk BP, Yeo S, Xue Z, Mohamadi H, Bohlmann J, Jones SJM, Birol I. Tigmint: correcting assembly errors using linked reads from large molecules. Bmc Bioinformatics. 19: 393. PMID 30367597 DOI: 10.1186/s12859-018-2425-6 |
0.761 |
|
| 2018 |
Chiu R, Nip KM, Chu J, Birol I. TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data. Bmc Medical Genomics. 11: 79. PMID 30200994 DOI: 10.1186/S12920-018-0402-6 |
0.387 |
|
| 2018 |
Coombe L, Zhang J, Vandervalk BP, Chu J, Jackman SD, Birol I, Warren RL. ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers. Bmc Bioinformatics. 19: 234. PMID 29925315 DOI: 10.1186/S12859-018-2243-X |
0.772 |
|
| 2018 |
Feau N, Beauseigle S, Bergeron MJ, Bilodeau GJ, Birol I, Cervantes-Arango S, Dhillon B, Dale AL, Herath P, Jones SJM, Lamarche J, Ojeda DI, Sakalidis ML, Taylor G, Tsui CKM, et al. Genome-Enhanced Detection and Identification (GEDI) of plant pathogens. Peerj. 6: e4392. PMID 29492338 DOI: 10.7717/Peerj.4392 |
0.481 |
|
| 2018 |
Chandak S, Tatwawadi K, Weissman T, Birol I. Compression of genomic sequencing reads via hash-based reordering: algorithm and analysis. Bioinformatics (Oxford, England). 34: 558-567. PMID 29444237 DOI: 10.1093/Bioinformatics/Btx639 |
0.455 |
|
| 2018 |
Campbell LJ, Hammond SA, Price SJ, Sharma MD, Garner TWJ, Birol I, Helbing CC, Wilfert L, Griffiths AGF. A novel approach to wildlife transcriptomics provides evidence of disease-mediated differential expression and changes to the microbiome of amphibian populations. Molecular Ecology. PMID 29420865 DOI: 10.1111/Mec.14528 |
0.305 |
|
| 2018 |
Molnar M, Haghshenas E, Ilie L, Birol I. SAGE2: parallel human genome assembly. Bioinformatics (Oxford, England). 34: 678-680. PMID 29045591 DOI: 10.1093/bioinformatics/btx648 |
0.429 |
|
| 2018 |
Pericard P, Dufresne Y, Couderc L, Blanquart S, Touzet H, Birol I. MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes. Bioinformatics (Oxford, England). 34: 585-591. PMID 29040406 DOI: 10.1093/bioinformatics/btx644 |
0.34 |
|
| 2018 |
Jackman SD, Coombe L, Chu J, Warren RL, Vandervalk BP, Yeo S, Xue Z, Mohamadi H, Bohlmann J, Jones SJM, Birol İ. Tigmint: correct assembly errors using linked reads from large molecules F1000research. 7. DOI: 10.7490/F1000Research.1115395.1 |
0.646 |
|
| 2017 |
Khan H, Mohamadi H, Vandervalk BP, Warren RL, Chu J, Birol I. ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data. Bioinformatics (Oxford, England). PMID 29300846 DOI: 10.1093/Bioinformatics/Btx839 |
0.534 |
|
| 2017 |
Jones SJM, Taylor GA, Chan S, Warren RL, Hammond SA, Bilobram S, Mordecai G, Suttle CA, Miller KM, Schulze A, Chan AM, Jones SJ, Tse K, Li I, Cheung D, ... ... Birol I, et al. The Genome of the Beluga Whale (Delphinapterus leucas). Genes. 8. PMID 29232881 DOI: 10.3390/Genes8120378 |
0.498 |
|
| 2017 |
Jones SJ, Haulena M, Taylor GA, Chan S, Bilobram S, Warren RL, Hammond SA, Mungall KL, Choo C, Kirk H, Pandoh P, Ally A, Dhalla N, Tam AKY, Troussard A, ... ... Birol I, et al. The Genome of the Northern Sea Otter (Enhydra lutris kenyoni). Genes. 8. PMID 29232880 DOI: 10.3390/Genes8120379 |
0.541 |
|
| 2017 |
Hammond SA, Warren RL, Vandervalk BP, Kucuk E, Khan H, Gibb EA, Pandoh P, Kirk H, Zhao Y, Jones M, Mungall AJ, Coope R, Pleasance S, Moore RA, Holt RA, ... ... Birol I, et al. The North American bullfrog draft genome provides insight into hormonal regulation of long noncoding RNA. Nature Communications. 8: 1433. PMID 29127278 DOI: 10.1038/S41467-017-01316-7 |
0.458 |
|
| 2017 |
Yeo S, Coombe L, Chu J, Warren RL, Birol I. ARCS: Scaffolding Genome Drafts with Linked Reads. Bioinformatics (Oxford, England). PMID 29069293 DOI: 10.1093/Bioinformatics/Btx675 |
0.53 |
|
| 2017 |
Hasan NA, Warren RL, Epperson LE, Malecha A, Alexander DC, Turenne CY, MacMillan D, Birol I, Pleasance S, Coope R, Jones SJM, Romney MG, Ng M, Chan T, Rodrigues M, et al. Complete Genome Sequence of Mycobacterium chimaera SJ42, a Nonoutbreak Strain from an Immunocompromised Patient with Pulmonary Disease. Genome Announcements. 5. PMID 28912319 DOI: 10.1128/Genomea.00963-17 |
0.442 |
|
| 2017 |
Thibodeau ML, Steinraths M, Brown L, Zong Z, Shomer N, Taubert S, Mungall KL, Ma YP, Mueller R, Birol I, Lehman A. Genomic and Cytogenetic Characterization of a Balanced Translocation Disrupting NUP98. Cytogenetic and Genome Research. PMID 28854430 DOI: 10.1159/000479463 |
0.387 |
|
| 2017 |
Mohamadi H, Khan H, Birol I. ntCard: a streaming algorithm for cardinality estimation in genomics data. Bioinformatics (Oxford, England). 33: 1324-1330. PMID 28453674 DOI: 10.1093/Bioinformatics/Btw832 |
0.429 |
|
| 2017 |
Yang C, Chu J, Warren RL, Birol I. NanoSim: nanopore sequence read simulator based on statistical characterization. Gigascience. PMID 28327957 DOI: 10.1093/Gigascience/Gix010 |
0.47 |
|
| 2017 |
Jackman SD, Vandervalk BP, Mohamadi H, Chu J, Yeo S, Hammond SA, Jahesh G, Khan H, Coombe L, Warren RL, Birol I. ABySS 2.0: Resource-efficient assembly of large genomes using a Bloom filter. Genome Research. PMID 28232478 DOI: 10.1101/Gr.214346.116 |
0.777 |
|
| 2017 |
Kucuk E, Chu J, Vandervalk BP, Austin Hammond S, Warren RL, Birol I. Kollector: transcript-informed, targeted de novo assembly of gene loci. Bioinformatics (Oxford, England). PMID 28186221 DOI: 10.1093/Bioinformatics/Btx078 |
0.543 |
|
| 2017 |
Pavy N, Lamothe M, Pelgas B, Gagnon F, Birol I, Bohlmann J, Mackay J, Isabel N, Bousquet J. A high resolution reference genetic map positioning 8.8K genes for the conifer white spruce: Structural genomics implications and correspondence with physical distance. The Plant Journal : For Cell and Molecular Biology. PMID 28090692 DOI: 10.1111/Tpj.13478 |
0.506 |
|
| 2017 |
Mohamadi H, Khan H, Birol I. ntCard: A streaming algorithm for cardinality estimation in genomics data. Bioinformatics (Oxford, England). PMID 28057681 DOI: 10.1093/bioinformatics/btw832 |
0.318 |
|
| 2017 |
Jackman SD, Vandervalk BP, Warren RL, Mohamadi H, Chu J, Yeo S, Coombe L, Bohlmann J, Jones SJM, Birol I. Tigmint: correct misassemblies using linked reads from large molecules F1000research. 6. DOI: 10.7490/F1000Research.1114646.1 |
0.645 |
|
| 2017 |
Chu J, Coombe L, Yeo S, Vandervalk B, Warren R, Jackman S, Küçük E, Birol I. 10x genomics chromium targetted molecule assembly and genome scaffolding F1000research. 6. DOI: 10.7490/F1000Research.1113689.1 |
0.734 |
|
| 2017 |
Jackman SD, Vandervalk BP, Warren RL, Mohamadi H, Chu J, Yeo S, Coombe L, Pleasance S, Coope RJ, Bohlmann J, Jones SJ, Birol İ. Mitochondrial genome of Sitka spruce assembled using chromium reads F1000research. 6. DOI: 10.7490/F1000Research.1113648.1 |
0.722 |
|
| 2016 |
Chu J, Mohamadi H, Warren RL, Yang C, Birol I. Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art. Bioinformatics (Oxford, England). PMID 28003261 DOI: 10.1093/Bioinformatics/Btw811 |
0.35 |
|
| 2016 |
Feau N, Taylor G, Dale AL, Dhillon B, Bilodeau GJ, Birol I, Jones SJ, Hamelin RC. Genome sequences of six Phytophthora species threatening forest ecosystems. Genomics Data. 10: 85-88. PMID 27752469 DOI: 10.1016/J.Gdata.2016.09.013 |
0.476 |
|
| 2016 |
Coombe L, Warren RL, Jackman SD, Yang C, Vandervalk BP, Moore RA, Pleasance S, Coope RJ, Bohlmann J, Holt RA, Jones SJ, Birol I. Assembly of the Complete Sitka Spruce Chloroplast Genome Using 10X Genomics' GemCode Sequencing Data. Plos One. 11: e0163059. PMID 27632164 DOI: 10.1371/Journal.Pone.0163059 |
0.779 |
|
| 2016 |
Mohamadi H, Chu J, Vandervalk BP, Birol I. ntHash: recursive nucleotide hashing. Bioinformatics (Oxford, England). PMID 27423894 DOI: 10.1093/Bioinformatics/Btw397 |
0.457 |
|
| 2016 |
Morrissy AS, Garzia L, Shih DJ, Zuyderduyn S, Huang X, Skowron P, Remke M, Cavalli FM, Ramaswamy V, Lindsay PE, Jelveh S, Donovan LK, Wang X, Luu B, Zayne K, ... ... Birol I, et al. Divergent clonal selection dominates medulloblastoma at recurrence. Nature. PMID 26760213 DOI: 10.1038/Nature16478 |
0.351 |
|
| 2016 |
Jackman S, Birol I. Linuxbrew and Homebrew for cross-platform package management F1000research. 5. DOI: 10.7490/F1000Research.1112681.1 |
0.6 |
|
| 2015 |
Jackman SD, Warren RL, Gibb EA, Vandervalk BP, Mohamadi H, Chu J, Raymond A, Pleasance S, Coope R, Wildung MR, Ritland CE, Bousquet J, Jones SJ, Bohlmann J, Birol I. Organellar Genomes of White Spruce (Picea glauca): Assembly and Annotation. Genome Biology and Evolution. PMID 26645680 DOI: 10.7490/F1000Research.1112919.1 |
0.766 |
|
| 2015 |
Birol I, Chu J, Mohamadi H, Jackman SD, Raghavan K, Vandervalk BP, Raymond A, Warren RL. Spaced Seed Data Structures for De Novo Assembly. International Journal of Genomics. 2015: 196591. PMID 26539459 DOI: 10.1155/2015/196591 |
0.758 |
|
| 2015 |
Vandervalk BP, Yang C, Xue Z, Raghavan K, Chu J, Mohamadi H, Jackman SD, Chiu R, Warren RL, Birol I. Konnector v2.0: pseudo-long reads from paired-end sequencing data. Bmc Medical Genomics. 8: S1. PMID 26399504 DOI: 10.1186/1755-8794-8-S3-S1 |
0.719 |
|
| 2015 |
Chu A, Robertson G, Brooks D, Mungall AJ, Birol I, Coope R, Ma Y, Jones S, Marra MA. Large-scale profiling of microRNAs for The Cancer Genome Atlas. Nucleic Acids Research. PMID 26271990 DOI: 10.1093/Nar/Gkv808 |
0.443 |
|
| 2015 |
Warren RL, Yang C, Vandervalk BP, Behsaz B, Lagman A, Jones SJ, Birol I. LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads. Gigascience. 4: 35. PMID 26244089 DOI: 10.1186/S13742-015-0076-3 |
0.557 |
|
| 2015 |
Paulino D, Warren RL, Vandervalk BP, Raymond A, Jackman SD, Birol I. Sealer: a scalable gap-closing application for finishing draft genomes. Bmc Bioinformatics. 16: 230. PMID 26209068 DOI: 10.1186/S12859-015-0663-4 |
0.778 |
|
| 2015 |
Birol I, Behsaz B, Hammond SA, Kucuk E, Veldhoen N, Helbing CC. De novo Transcriptome Assemblies of Rana (Lithobates) catesbeiana and Xenopus laevis Tadpole Livers for Comparative Genomics without Reference Genomes. Plos One. 10: e0130720. PMID 26121473 DOI: 10.1371/Journal.Pone.0130720 |
0.418 |
|
| 2015 |
Jackman SD, Bohlmann J, Birol İ. UniqTag: Content-Derived Unique and Stable Identifiers for Gene Annotation. Plos One. 10: e0128026. PMID 26020645 DOI: 10.1371/Journal.Pone.0128026 |
0.742 |
|
| 2015 |
Warren RL, Keeling CI, Yuen MM, Raymond A, Taylor GA, Vandervalk BP, Mohamadi H, Paulino D, Chiu R, Jackman SD, Robertson G, Yang C, Boyle B, Hoffmann M, Weigel D, ... ... Birol I, et al. Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism. The Plant Journal : For Cell and Molecular Biology. 83: 189-212. PMID 26017574 DOI: 10.1111/Tpj.12886 |
0.754 |
|
| 2015 |
Mohamadi H, Vandervalk BP, Raymond A, Jackman SD, Chu J, Breshears CP, Birol I. DIDA: Distributed Indexing Dispatched Alignment. Plos One. 10: e0126409. PMID 25923767 DOI: 10.1371/Journal.Pone.0126409 |
0.721 |
|
| 2015 |
Birol I, Raymond A, Chiu R, Nip KM, Jackman SD, Kreitzman M, Docking TR, Ennis CA, Robertson AG, Karsan A. Kleat: cleavage site analysis of transcriptomes. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 347-58. PMID 25592595 |
0.649 |
|
| 2015 |
Jackman S, Raghavan K, Vandervalk B, Paulino D, Chu J, Mohamadi H, Raymond A, Warren R, Birol I. Scaling ABySS to longer reads using spaced k -mers and Bloom filters F1000research. 6. DOI: 10.7490/F1000Research.1097878.1 |
0.622 |
|
| 2015 |
Jackman SD, Bohlmann J, Birol I. UniqTag: Content-derived unique and stable identifiers for gene annotation Plos One. 10. DOI: 10.1371/journal.pone.0128026 |
0.631 |
|
| 2015 |
Paulino D, Warren RL, Vandervalk BP, Raymond A, Jackman SD, Birol I. Sealer: A scalable gap-closing application for finishing draft genomes Bmc Bioinformatics. 16. DOI: 10.1186/s12859-015-0663-4 |
0.722 |
|
| 2014 |
De La Torre AR, Birol I, Bousquet J, Ingvarsson PK, Jansson S, Jones SJ, Keeling CI, MacKay J, Nilsson O, Ritland K, Street N, Yanchuk A, Zerbe P, Bohlmann J. Insights into conifer giga-genomes. Plant Physiology. 166: 1724-32. PMID 25349325 DOI: 10.1104/Pp.114.248708 |
0.536 |
|
| 2014 |
Chu J, Sadeghi S, Raymond A, Jackman SD, Nip KM, Mar R, Mohamadi H, Butterfield YS, Robertson AG, Birol I. BioBloom tools: fast, accurate and memory-efficient host species sequence screening using bloom filters. Bioinformatics (Oxford, England). 30: 3402-4. PMID 25143290 DOI: 10.1093/Bioinformatics/Btu558 |
0.661 |
|
| 2014 |
Stival Sena J, Giguère I, Boyle B, Rigault P, Birol I, Zuccolo A, Ritland K, Ritland C, Bohlmann J, Jones S, Bousquet J, Mackay J. Evolution of gene structure in the conifer Picea glauca: a comparative analysis of the impact of intron size. Bmc Plant Biology. 14: 95. PMID 24734980 DOI: 10.1186/1471-2229-14-95 |
0.487 |
|
| 2014 |
Jackman S, Vandervalk B, Raymond A, Mohamadi H, Yang C, Attali D, Chu J, Warren R, Birol I. ABySS-Konnector: connect paired-end reads by navigating a Bloom filter de Bruijn graph F1000research. 5. DOI: 10.7490/F1000Research.1096524.1 |
0.626 |
|
| 2014 |
Birol I, Mohamadi H, Raymond A, Raghavan K, Chu J, Vandervalk BP, Jackman SD, Warren RL. Spaced seed data structures Proceedings - 2014 Ieee International Conference On Bioinformatics and Biomedicine, Ieee Bibm 2014. 15-22. DOI: 10.1109/BIBM.2014.6999305 |
0.579 |
|
| 2014 |
Vandervalk BP, Jackman SD, Raymond A, Mohamadi H, Yang C, Attali DA, Chu J, Warren RL, Birol I. Konnector: Connecting paired-end reads using a bloom filter de Bruijn graph Proceedings - 2014 Ieee International Conference On Bioinformatics and Biomedicine, Ieee Bibm 2014. 51-58. DOI: 10.1109/BIBM.2014.6999126 |
0.597 |
|
| 2013 |
Bosdet IE, Docking TR, Butterfield YS, Mungall AJ, Zeng T, Coope RJ, Yorida E, Chow K, Bala M, Young SS, Hirst M, Birol I, Moore RA, Jones SJ, Marra MA, et al. A clinically validated diagnostic second-generation sequencing assay for detection of hereditary BRCA1 and BRCA2 mutations. The Journal of Molecular Diagnostics : Jmd. 15: 796-809. PMID 24094589 DOI: 10.1016/J.Jmoldx.2013.07.004 |
0.407 |
|
| 2013 |
Jjingo D, Wang J, Conley AB, Lunyak VV, Jordan IK, Birol I. Compound cis-regulatory elements with both boundary and enhancer sequences in the human genome Bioinformatics. 29: 3109-3112. PMID 24085569 DOI: 10.1093/Bioinformatics/Btt542 |
0.348 |
|
| 2013 |
Lenassi M, Gostinčar C, Jackman S, Turk M, Sadowski I, Nislow C, Jones S, Birol I, Cimerman NG, Plemenitaš A. Whole Genome Duplication and Enrichment of Metal Cation Transporters Revealed by De Novo Genome Sequencing of Extremely Halotolerant Black Yeast Hortaea werneckii Plos One. 8. PMID 23977017 DOI: 10.1371/Journal.Pone.0071328 |
0.739 |
|
| 2013 |
Swanson L, Robertson G, Mungall KL, Butterfield YS, Chiu R, Corbett RD, Docking TR, Hogge D, Jackman SD, Moore RA, Mungall AJ, Nip KM, Parker JD, Qian JQ, Raymond A, ... ... Birol I, et al. Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assemblies. Bmc Genomics. 14: 550. PMID 23941359 DOI: 10.1186/1471-2164-14-550 |
0.674 |
|
| 2013 |
Bradnam KR, Fass JN, Alexandrov A, Baranay P, Bechner M, Birol I, Boisvert S, Chapman JA, Chapuis G, Chikhi R, Chitsaz H, Chou WC, Corbeil J, Del Fabbro C, Docking TR, et al. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. Gigascience. 2: 10. PMID 23870653 DOI: 10.1186/2047-217X-2-10 |
0.772 |
|
| 2013 |
Haridas S, Wang Y, Lim L, Massoumi Alamouti S, Jackman S, Docking R, Robertson G, Birol I, Bohlmann J, Breuil C. The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera. Bmc Genomics. 14: 373. PMID 23725015 DOI: 10.1186/1471-2164-14-373 |
0.736 |
|
| 2013 |
Hadj Khodabakhshi A, Fejes AP, Birol I, Jones SJM. Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline Bmc Bioinformatics. 14. PMID 23714400 DOI: 10.1186/1471-2105-14-167 |
0.412 |
|
| 2013 |
Morin RD, Mungall K, Pleasance E, Mungall AJ, Goya R, Huff RD, Scott DW, Ding J, Roth A, Chiu R, Corbett RD, Chan FC, Mendez-Lago M, Trinh DL, Bolger-Munro M, ... ... Birol I, et al. Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 122: 1256-65. PMID 23699601 DOI: 10.1182/Blood-2013-02-483727 |
0.415 |
|
| 2013 |
Birol I, Raymond A, Jackman SD, Pleasance S, Coope R, Taylor GA, Yuen MM, Keeling CI, Brand D, Vandervalk BP, Kirk H, Pandoh P, Moore RA, Zhao Y, Mungall AJ, et al. Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data. Bioinformatics (Oxford, England). 29: 1492-7. PMID 23698863 DOI: 10.1093/Bioinformatics/Btt178 |
0.779 |
|
| 2013 |
Ley TJ, Miller C, Ding L, Raphael BJ, Mungall AJ, Robertson G, Hoadley K, Triche TJ, Laird PW, Baty JD, Fulton LL, Fulton R, Heath SE, Kalicki-Veizer J, Kandoth C, ... ... Birol I, et al. Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia New England Journal of Medicine. 368: 2059-2074. PMID 23634996 DOI: 10.1056/Nejmoa1301689 |
0.305 |
|
| 2013 |
Kasaian K, Wiseman SM, Thiessen N, Mungall KL, Corbett RD, Qian JQ, Nip KM, He A, Tse K, Chuah E, Varhol RJ, Pandoh P, McDonald H, Zeng T, Tam A, ... ... Birol I, et al. Complete genomic landscape of a recurring sporadic parathyroid carcinoma. The Journal of Pathology. 230: 249-60. PMID 23616356 DOI: 10.1002/Path.4203 |
0.334 |
|
| 2013 |
Keeling CI, Yuen MM, Liao NY, Docking TR, Chan SK, Taylor GA, Palmquist DL, Jackman SD, Nguyen A, Li M, Henderson H, Janes JK, Zhao Y, Pandoh P, Moore R, ... ... Birol I, et al. Draft genome of the mountain pine beetle, Dendroctonus ponderosae Hopkins, a major forest pest. Genome Biology. 14: R27. PMID 23537049 DOI: 10.1186/Gb-2013-14-3-R27 |
0.75 |
|
| 2013 |
Pugh TJ, Morozova O, Attiyeh EF, Asgharzadeh S, Wei JS, Auclair D, Carter SL, Cibulskis K, Hanna M, Kiezun A, Kim J, Lawrence MS, Lichenstein L, McKenna A, Pedamallu CS, ... ... Birol I, et al. The genetic landscape of high-risk neuroblastoma. Nature Genetics. 45: 279-84. PMID 23334666 DOI: 10.1038/Ng.2529 |
0.667 |
|
| 2012 |
Khodabakhshi AH, Morin RD, Fejes AP, Mungall AJ, Mungall KL, Bolger-Munro M, Johnson NA, Connors JM, Gascoyne RD, Marra MA, Birol I, Jones SJM. Recurrent targets of aberrant somatic hypermutation in lymphoma Oncotarget. 3: 1308-1319. PMID 23131835 DOI: 10.18632/Oncotarget.653 |
0.412 |
|
| 2012 |
Hammerman PS, Voet D, Lawrence MS, Jing R, Cibulskis K, Sivachenko A, Stojanov P, McKenna A, Lander ES, Gabriel S, Getz G, Imielinski M, Helman E, Hernandez B, Pho NH, ... ... Birol I, et al. Comprehensive genomic characterization of squamous cell lung cancers Nature. 489: 519-525. PMID 22960745 DOI: 10.1038/Nature11404 |
0.372 |
|
| 2012 |
Roberts KG, Morin RD, Zhang J, Hirst M, Zhao Y, Su X, Chen SC, Payne-Turner D, Churchman ML, Harvey RC, Chen X, Kasap C, Yan C, Becksfort J, Finney RP, ... ... Birol I, et al. Genetic alterations activating kinase and cytokine receptor signaling in high-risk acute lymphoblastic leukemia. Cancer Cell. 22: 153-66. PMID 22897847 DOI: 10.1016/J.Ccr.2012.06.005 |
0.333 |
|
| 2012 |
Northcott PA, Shih DJ, Peacock J, Garzia L, Morrissy AS, Zichner T, Stütz AM, Korshunov A, Reimand J, Schumacher SE, Beroukhim R, Ellison DW, Marshall CR, Lionel AC, Mack S, ... ... Birol I, et al. Subgroup-specific structural variation across 1,000 medulloblastoma genomes. Nature. 488: 49-56. PMID 22832581 DOI: 10.1038/Nature11327 |
0.647 |
|
| 2012 |
Muzny DM, Bainbridge MN, Chang K, Dinh HH, Drummond JA, Fowler G, Kovar CL, Lewis LR, Morgan MB, Newsham IF, Reid JG, Santibanez J, Shinbrot E, Trevino LR, Wu YQ, ... ... Birol I, et al. Comprehensive molecular characterization of human colon and rectal cancer Nature. 487: 330-337. PMID 22810696 DOI: 10.1038/Nature11252 |
0.417 |
|
| 2012 |
Yorukoglu D, Hach F, Swanson L, Collins CC, Birol I, Cenk Sahinalp S. Dissect: Detection and characterization of novel structural alterations in transcribed sequences Bioinformatics. 28: i179-i187. PMID 22689759 DOI: 10.1093/Bioinformatics/Bts214 |
0.512 |
|
| 2012 |
Keeling CI, Henderson H, Li M, Yuen M, Clark EL, Fraser JD, Huber DP, Liao NY, Docking TR, Birol I, Chan SK, Taylor GA, Palmquist D, Jones SJ, Bohlmann J. Transcriptome and full-length cDNA resources for the mountain pine beetle, Dendroctonus ponderosae Hopkins, a major insect pest of pine forests. Insect Biochemistry and Molecular Biology. 42: 525-36. PMID 22516182 DOI: 10.1016/J.Ibmb.2012.03.010 |
0.517 |
|
| 2012 |
Shah SP, Roth A, Goya R, Oloumi A, Ha G, Zhao Y, Turashvili G, Ding J, Tse K, Haffari G, Bashashati A, Prentice LM, Khattra J, Burleigh A, Yap D, ... ... Birol I, et al. The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Nature. 486: 395-9. PMID 22495314 DOI: 10.1038/Nature10933 |
0.326 |
|
| 2012 |
Yip S, Butterfield YS, Morozova O, Chittaranjan S, Blough MD, An J, Birol I, Chesnelong C, Chiu R, Chuah E, Corbett R, Docking R, Firme M, Hirst M, Jackman S, et al. Concurrent CIC mutations, IDH mutations, and 1p/19q loss distinguish oligodendrogliomas from other cancers. The Journal of Pathology. 226: 7-16. PMID 22072542 DOI: 10.1002/Path.2995 |
0.637 |
|
| 2012 |
Koboldt DC, Fulton RS, McLellan MD, Schmidt H, Kalicki-Veizer J, McMichael JF, Fulton LL, Dooling DJ, Ding L, Mardis ER, Wilson RK, Ally A, Balasundaram M, Butterfield YSN, Carlsen R, ... ... Birol I, et al. Comprehensive molecular portraits of human breast tumours Nature. 490: 61-70. DOI: 10.1038/Nature11412 |
0.312 |
|
| 2011 |
Chu Y, Gao P, Zhao P, He Y, Liao N, Jackman S, Zhao Y, Birol I, Duan X, Lu Z. Genome sequence of mycoplasma capricolum subsp. capripneumoniae strain M1601 Journal of Bacteriology. 193: 6098-6099. PMID 21994928 DOI: 10.1128/Jb.05980-11 |
0.693 |
|
| 2011 |
Chan QWT, Cornman RS, Birol I, Liao NY, Chan SK, Docking TR, Jackman SD, Taylor GA, Jones SJM, de Graaf DC, Evans JD, Foster LJ. Updated genome assembly and annotation of Paenibacillus larvae, the agent of American foulbrood disease of honey bees Bmc Genomics. 12. PMID 21923906 DOI: 10.1186/1471-2164-12-450 |
0.751 |
|
| 2011 |
Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, ... ... Birol I, et al. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma Nature. 476: 298-303. PMID 21796119 DOI: 10.1038/Nature10351 |
0.651 |
|
| 2011 |
Geraldes A, Pang J, Thiessen N, Cezard T, Moore R, Zhao Y, Tam A, Wang S, Friedmann M, Birol I, Jones SJ, Cronk QC, Douglas CJ. SNP discovery in black cottonwood (Populus trichocarpa) by population transcriptome resequencing. Molecular Ecology Resources. 11: 81-92. PMID 21429165 DOI: 10.1111/J.1755-0998.2010.02960.X |
0.509 |
|
| 2011 |
Fejes AP, Khodabakhshi AH, Birol I, Jones SJM. Human variation database: An open-source database template for genomic discovery Bioinformatics. 27: 1155-1156. PMID 21367872 DOI: 10.1093/Bioinformatics/Btr100 |
0.41 |
|
| 2011 |
Gardy JL, Johnston JC, Ho Sui SJ, Cook VJ, Shah L, Brodkin E, Rempel S, Moore R, Zhao Y, Holt R, Varhol R, Birol I, Lem M, Sharma MK, Elwood K, et al. Whole-genome sequencing and social-network analysis of a tuberculosis outbreak. The New England Journal of Medicine. 364: 730-9. PMID 21345102 DOI: 10.1056/Nejmoa1003176 |
0.411 |
|
| 2011 |
DiGuistini S, Wang Y, Liao NY, Taylor G, Tanguay P, Feau N, Henrissat B, Chan SK, Hesse-Orce U, Alamouti SM, Tsui CK, Docking RT, Levasseur A, Haridas S, Robertson G, ... Birol I, et al. Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen. Proceedings of the National Academy of Sciences of the United States of America. 108: 2504-9. PMID 21262841 DOI: 10.1073/Pnas.1011289108 |
0.467 |
|
| 2011 |
Morozova O, Birol I, Corbett R, Mungall K, Attiyeh EF, Asgharzadeh S, Zhao Y, Moore RA, Hirst M, Jones S, Hogarty MD, Diskin S, Mosse YP, Diamond M, Sposto R, et al. Abstract 926: Whole genome and transcriptome sequencing defines the spectrum of somatic changes in high-risk neuroblastoma Cancer Research. 71: 926-926. DOI: 10.1158/1538-7445.Am2011-926 |
0.53 |
|
| 2010 |
Robertson G, Schein J, Chiu R, Corbett R, Field M, Jackman SD, Mungall K, Lee S, Okada HM, Qian JQ, Griffith M, Raymond A, Thiessen N, Cezard T, Butterfield YS, ... ... Birol I, et al. De novo assembly and analysis of RNA-seq data. Nature Methods. 7: 909-12. PMID 20935650 DOI: 10.1038/Nmeth.1517 |
0.686 |
|
| 2010 |
Hach F, Hormozdiari F, Alkan C, Hormozdiari F, Birol I, Eichler EE, Sahinalp SC. mrsFAST: a cache-oblivious algorithm for short-read mapping. Nature Methods. 7: 576-7. PMID 20676076 DOI: 10.1038/Nmeth0810-576 |
0.413 |
|
| 2010 |
Atanur SS, Birol I, Guryev V, Hirst M, Hummel O, Morrissey C, Behmoaras J, Fernandez-Suarez XM, Johnson MD, McLaren WM, Patone G, Petretto E, Plessy C, Rockland KS, Rockland C, et al. The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance. Genome Research. 20: 791-803. PMID 20430781 DOI: 10.1101/Gr.103499.109 |
0.49 |
|
| 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 |
0.527 |
|
| 2010 |
Jackman SD, Birol I. Assembling genomes using short-read sequencing technology Genome Biology. 11. PMID 20128932 DOI: 10.1186/Gb-2010-11-1-202 |
0.747 |
|
| 2010 |
Jones SJ, Laskin J, Li YY, Griffith OL, An J, Bilenky M, Butterfield YS, Cezard T, Chuah E, Corbett R, Fejes A, Griffith M, Yee J, Martin M, Mayo M, ... ... Birol I, et al. Genomic analysis of a rare human tumor Bmc Bioinformatics. 11. DOI: 10.1186/1471-2105-11-S4-O3 |
0.359 |
|
| 2010 |
Morin RD, Mendez-Lago M, Mungall AJ, Johnson NA, Goya R, Severson T, Mungall K, An J, Yakovenko O, Jackman S, Krzywinski M, Griffith M, Chan S, Tam A, Smailus D, ... ... Birol I, et al. Identification of Genes Frequently Mutated In FL and DLBCL with Transcriptome, Genome and Exome Sequencing Blood. 116: 804-804. DOI: 10.1182/Blood.V116.21.804.804 |
0.667 |
|
| 2009 |
Nielsen CB, Jackman SD, Birol I, Jones SJM. ABySS-explorer: Visualizing genome sequence assemblies Ieee Transactions On Visualization and Computer Graphics. 15: 881-888. PMID 19834150 DOI: 10.1109/Tvcg.2009.116 |
0.745 |
|
| 2009 |
Diguistini S, Liao NY, Platt D, Robertson G, Seidel M, Chan SK, Docking TR, Birol I, Holt RA, Hirst M, Mardis E, Marra MA, Hamelin RC, Bohlmann J, Breuil C, et al. De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data. Genome Biology. 10: R94. PMID 19747388 DOI: 10.1186/Gb-2009-10-9-R94 |
0.56 |
|
| 2009 |
Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. Circos: An information aesthetic for comparative genomics Genome Research. 19: 1639-1645. PMID 19541911 DOI: 10.1101/Gr.092759.109 |
0.493 |
|
| 2009 |
Birol I, Jackman SD, Nielsen CB, Qian JQ, Varhol R, Stazyk G, Morin RD, Zhao Y, Hirst M, Schein JE, Horsman DE, Connors JM, Gascoyne RD, Marra MA, Jones SJM. De novo transcriptome assembly with ABySS Bioinformatics. 25: 2872-2877. PMID 19528083 DOI: 10.1093/Bioinformatics/Btp367 |
0.752 |
|
| 2009 |
Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJM, Birol I. ABySS: A parallel assembler for short read sequence data Genome Research. 19: 1117-1123. PMID 19251739 DOI: 10.1101/Gr.089532.108 |
0.768 |
|
| 2009 |
Mungall AJ, Chu A, Chiu R, Corbett R, Field MA, Jackman SD, Mungall KL, Wong K, Boyle M, Carlsen R, Chan SY, Coope RJN, Hirst CA, Hirst M, Johnson N, ... ... Birol I, et al. Base-Pair Resolution of Somatic and Germline-Derived Genome Rearrangement Breakpoints in Follicular Lymphoma. Blood. 114: 439-439. DOI: 10.1182/Blood.V114.22.439.439 |
0.762 |
|
| 2009 |
Morin R, Johnson N, Severson T, Mungall AJ, An J, Paul J, Boyle M, Woolcock B, Kuchenbauer F, Yap D, Humphries RK, Griffith O, Shah SP, Corbett R, Tam A, ... ... Birol I, et al. Tyrosine 641 of the EZH2 Oncogene Is Frequently Mutated in Follicular and Diffuse Large B-Cell Lymphomas of Germinal Center Origin. Blood. 114: 139-139. DOI: 10.1182/Blood.V114.22.139.139 |
0.39 |
|
| 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 |
0.364 |
|
| 2005 |
Marra MA, Krzywinski M, Chiu R, Field M, Birol I, D’Souza B, Bosdet I, Mathewson C, Lee D, Baross A, Gascoyne RD, Horsman D, Holt R, Schein J, Connors JM. Towards the Human Cancer Genome Project: A Sequence-Ready Physical Map of a Follicular Lymphoma Genome. Blood. 106: 605-605. DOI: 10.1182/Blood.V106.11.605.605 |
0.538 |
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