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Graph convolutional networks for epigenetic state prediction using both sequence and 3D genome data.
Bioinformatics. 2020 Dec 30;36(Suppl_2):i659-i667. doi: 10.1093/bioinformatics/btaa793.
Bioinformatics. 2020.
PMID: 33381816
DeepChrome: deep-learning for predicting gene expression from histone modifications.
Singh R, Lanchantin J, Robins G, Qi Y.
Singh R, et al. Among authors: lanchantin j.
Bioinformatics. 2016 Sep 1;32(17):i639-i648. doi: 10.1093/bioinformatics/btw427.
Bioinformatics. 2016.
PMID: 27587684
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DEEP MOTIF DASHBOARD: VISUALIZING AND UNDERSTANDING GENOMIC SEQUENCES USING DEEP NEURAL NETWORKS.
Lanchantin J, Singh R, Wang B, Qi Y.
Lanchantin J, et al.
Pac Symp Biocomput. 2017;22:254-265. doi: 10.1142/9789813207813_0025.
Pac Symp Biocomput. 2017.
PMID: 27896980
Free PMC article.
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FastSK: fast sequence analysis with gapped string kernels.
Blakely D, Collins E, Singh R, Norton A, Lanchantin J, Qi Y.
Blakely D, et al. Among authors: lanchantin j.
Bioinformatics. 2020 Dec 30;36(Suppl_2):i857-i865. doi: 10.1093/bioinformatics/btaa817.
Bioinformatics. 2020.
PMID: 33381828
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Opportunities and obstacles for deep learning in biology and medicine.
Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow PM, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J, Lanchantin J, Woloszynek S, Carpenter AE, Shrikumar A, Xu J, Cofer EM, Lavender CA, Turaga SC, Alexandari AM, Lu Z, Harris DJ, DeCaprio D, Qi Y, Kundaje A, Peng Y, Wiley LK, Segler MHS, Boca SM, Swamidass SJ, Huang A, Gitter A, Greene CS.
Ching T, et al. Among authors: lanchantin j.
J R Soc Interface. 2018 Apr;15(141):20170387. doi: 10.1098/rsif.2017.0387.
J R Soc Interface. 2018.
PMID: 29618526
Free PMC article.
Review.
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Attend and Predict: Understanding Gene Regulation by Selective Attention on Chromatin.
Singh R, Lanchantin J, Sekhon A, Qi Y.
Singh R, et al. Among authors: lanchantin j.
Adv Neural Inf Process Syst. 2017 Dec;30:6785-6795.
Adv Neural Inf Process Syst. 2017.
PMID: 30147283
Free PMC article.
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Transfer String Kernel for Cross-Context DNA-Protein Binding Prediction.
Singh R, Lanchantin J, Robins G, Qi Y.
Singh R, et al. Among authors: lanchantin j.
IEEE/ACM Trans Comput Biol Bioinform. 2019 Sep-Oct;16(5):1524-1536. doi: 10.1109/TCBB.2016.2609918. Epub 2016 Sep 15.
IEEE/ACM Trans Comput Biol Bioinform. 2019.
PMID: 27654939
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