Number of items: 27.
2024
Frayling, E., Lever, J. and McDonald, G.
(2024)
UoG Siephers at "Discharge Me!": Exploring Ways to Generate Synthetic Patient Notes From Multi-Part Electronic Health Records.
In: BioNLP 2024 Workshop, Bangkok, Thailand, 11-16 Aug 2024,
pp. 712-718.
Zhang, X., Meng, Z. , Lever, J. and Ho, E. S.L.
(2024)
Gla-AI4BioMed at RRG24: Visual Instruction-tuned Adaptation for Radiology Report Generation.
In: 62nd Annual Meeting of the Association for Computational Linguistics (ACL 2024), 23rd BioNLP Workshop, Bangkok, Thailand, 16 August 2024,
(Accepted for Publication)
2023
Sosa, D., Hintzen, R., Xiong, B., de Giorgio, A., Fauqueur, J., Davies, M., Lever, J. and Altman, R. B.
(2023)
Associating biological context with protein-protein interactions through text mining at PubMed scale.
Journal of Biomedical Informatics, 145,
104474.
(doi: 10.1016/j.jbi.2023.104474)
(PMID:37572825)
Krysiak, K. et al.
(2023)
CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase.
Nucleic Acids Research, 51(D1),
D1230-D1241.
(doi: 10.1093/nar/gkac979)
(PMID:36373660)
2022
Krysiak, K. et al.
(2022)
A community approach to the cancer-variant-interpretation bottleneck.
Nature Cancer, 3(5),
pp. 522-525.
(doi: 10.1038/s43018-022-00379-w)
(PMID:35624339)
2021
Lever, J. and Altman, R. B.
(2021)
Analyzing the vast coronavirus literature with CoronaCentral.
Proceedings of the National Academy of Sciences of the United States of America, 118(23),
2100766118.
(doi: 10.1073/pnas.2100766118)
(PMID:34016708)
Wong, M., Previde, P., Cole, J., Thomas, B., Laxmeshwar, N., Mallory, E., Lever, J. , Petkovic, D., Altman, R. B. and Kulkarni, A.
(2021)
Search and visualization of gene-drug-disease interactions for pharmacogenomics and precision medicine research using GeneDive.
Journal of Biomedical Informatics, 117,
103732.
(doi: 10.1016/j.jbi.2021.103732)
(PMID:33737208)
Sosa, D. N., Bimbin, C., Kaushal, A., Lavertu, A., Lever, J. , Rensi, S. and Altman, R.
(2021)
Repurposing biomedical informaticians for COVID-19.
Journal of Biomedical Informatics, 115,
103673.
(doi: 10.1016/j.jbi.2021.103673)
(PMID:33486067)
(PMCID:PMC7825863)
2020
Lever, J. , Altman, R. and Kim, J.-D.
(2020)
Extending TextAE for annotation of non-contiguous entities.
Genomics and Informatics, 18(2),
e15.
(doi: 10.5808/gi.2020.18.2.e15)
(PMID:32634869)
(PMCID:PMC7362949)
Lever, J. , Barbarino, J. M., Gong, L., Huddart, R., Sangkuhl, K., Whaley, R., Whirl-Carrillo, M., Woon, M., Klein, T. E. and Altman, R. B.
(2020)
PGxMine: Text Mining for Curation of PharmGKB.
In: 25th Pacific Symposium on Biocomputing, Puako, HI, USA, 03-07 Jan 2020,
pp. 611-622.
2019
Lever, J. , Jones, M. R., Danos, A. M., Krysiak, K., Bonakdar, M., Grewal, J. K., Culibrk, L., Griffith, O. L., Griffith, M. and Jones, S. J.M.
(2019)
Text-mining clinically relevant cancer biomarkers for curation into the CIViC database.
Genome Medicine, 11,
78.
(doi: 10.1186/s13073-019-0686-y)
(PMID:31796060)
(PMCID:PMC6891984)
Chun, H.-J. E. et al.
(2019)
Identification and analyses of extra-cranial and cranial rhabdoid tumor molecular subgroups reveal tumors with cytotoxic T cell infiltration.
Cell Reports, 29(8),
2338-2354.e7.
(doi: 10.1016/j.celrep.2019.10.013)
(PMID:31708418)
(PMCID:PMC6905433)
Barbaian, A., Thompson, I. R., Lever, J. , Gagnier, L., Karimi, M. M. and Mager, D. L.
(2019)
LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq.
Bioinformatics, 35(19),
pp. 3839-3841.
(doi: 10.1093/bioinformatics/btz130)
(PMID:30793157)
Shen, Y. et al.
(2019)
Comprehensive genomic profiling of glioblastoma tumors, BTICs, and xenografts reveals stability and adaptation to growth environments.
Proceedings of the National Academy of Sciences of the United States of America, 116(38),
pp. 19098-19108.
(doi: 10.1073/pnas.1813495116)
(PMID:31471491)
(PMCID:PMC6754609)
Lever, J. , Zhao, E. Y., Grewal, J., Jones, M. R. and Jones, S. J.M.
(2019)
CancerMine: a literature-mined resource for drivers, oncogenes and tumor suppressors in cancer.
Nature Methods, 16(6),
pp. 505-507.
(doi: 10.1038/s41592-019-0422-y)
(PMID:31110280)
2018
Lee, J. J.Y., Gottlieb, M. M., Lever, J. , Jones, S. J.M., Blau, N., van Karnebeek, C. D.M. and Wasserman, W. W.
(2018)
Text-based phenotypic profiles incorporating biochemical phenotypes of inborn errors of metabolism improve phenomics-based diagnosis.
Journal of Inherited Metabolic Disease, 41(3),
pp. 555-562.
(doi: 10.1007/s10545-017-0125-4)
(PMID:29340838)
(PMCID:PMC5959948)
Lever, J. , Gakkhar, S., Gottlieb, M., Rashnavadi, T., Lin, S., Siu, C., Smith, M., Jones, M. R., Krzywinski, M. and Jones, S. J.M.
(2018)
A collaborative filtering-based approach to biomedical knowledge discovery.
Bioinformatics, 34(4),
pp. 652-659.
(doi: 10.1093/bioinformatics/btx613)
(PMID:29028901)
2017
Anekalla, K. R., Courneya, J.P., Florini, N., Lever, J. , Muchow, M. and Busby, B.
(2017)
PubRunner: a light-weight framework for updating text mining results.
F1000Research, 6,
612.
(doi: 10.12688/f1000research.11389.2)
(PMID:29152221)
(PMCID:PMC5664974)
Lever, J. , Krzywinski, M. and Altman, N.
(2017)
Principal component analysis.
Nature Methods, 14(7),
pp. 641-642.
(doi: 10.1038/nmeth.4346)
2016
Lever, J. , Krzywinski, M. and Altman, N.
(2016)
Regularization.
Nature Methods, 13(10),
pp. 803-804.
(doi: 10.1038/nmeth.4014)
Grinshtein, N. et al.
(2016)
Small molecule epigenetic screen identifies novel EZH2 and HDAC inhibitors that target glioblastoma brain tumor-initiating cells.
Oncotarget, 7(37),
pp. 59360-59376.
(doi: 10.18632/oncotarget.10661)
(PMID:27449082)
(PMCID:PMC5312317)
Lever, J. , Krzywinski, M. and Altman, N.
(2016)
Model selection and overfitting.
Nature Methods, 13(9),
pp. 703-704.
(doi: 10.1038/nmeth.3968)
Lever, J. , Krzywinski, M. and Altman, N.
(2016)
Classification evaluation.
Nature Methods, 13(8),
pp. 603-604.
(doi: 10.1038/nmeth.3945)
Lever, J. , Krzywinski, M. and Altman, N.
(2016)
Logistic regression.
Nature Methods, 13(7),
pp. 541-542.
(doi: 10.1038/nmeth.3904)
Lever, J. , Jones, M. and Jones, S. J.M.
(2016)
CancerMine: Knowledge Base Construction for Personalised Cancer Treatment.
In: 2016 Joint International Conference on Biological Ontology and BioCreative - Food, Nutrition, Health and Environment for the 9 Billion (ICBO-BioCreative 2016), Corvallis, OR, USA, 01-04 Aug 2016,
2015
Davis, B., Shen, Y., Poon, C. C., Luchman, H. A., Stechishin, O. D., Pontifex, C. S., Wu, W., Kelly, J. J., Blough, M. D. and Terry Fox Research Institute Glioblastoma Consortium,
(2015)
Comparative genomic and genetic analysis of glioblastoma-derived brain tumor-initiating cells and their parent tumors.
Neuro-Oncology, 18(3),
pp. 350-360.
(doi: 10.1093/neuonc/nov143)
(PMID:26245525)
(PMCID:PMC4767234)
2012
Lever, J. and Komura, T.
(2012)
Real-time controllable fire using textured forces.
Visual Computer, 28(6-8),
pp. 691-700.
(doi: 10.1007/s00371-012-0684-1)
This list was generated on Fri Dec 6 15:52:15 2024 GMT.