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Yanjun Qi, Ph.D. - Publications

Affiliations: 
2008 Carnegie Mellon University, Pittsburgh, PA 
Area:
Computer Science, Bioinformatics Biology, Artificial Intelligence
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26 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Rando HM, MacLean AL, Lee AJ, Lordan R, Ray S, Bansal V, Skelly AN, Sell E, Dziak JJ, Shinholster L, D'Agostino McGowan L, Ben Guebila M, Wellhausen N, Knyazev S, Boca SM, ... ... Qi Y, et al. Correction for Rando et al., "Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure". Msystems. 7: e0144721. PMID 35076276 DOI: 10.1128/msystems.01447-21  0.464
2021 Rando HM, Wellhausen N, Ghosh S, Lee AJ, Dattoli AA, Hu F, Byrd JB, Rafizadeh DN, Lordan R, Qi Y, Sun Y, Brueffer C, Field JM, Ben Guebila M, Jadavji NM, et al. Identification and Development of Therapeutics for COVID-19. Msystems. e0023321. PMID 34726496 DOI: 10.1128/mSystems.00233-21  0.518
2021 Rando HM, MacLean AL, Lee AJ, Lordan R, Ray S, Bansal V, Skelly AN, Sell E, Dziak JJ, Shinholster L, D'Agostino McGowan L, Ben Guebila M, Wellhausen N, Knyazev S, Boca SM, ... ... Qi Y, et al. Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure. Msystems. 6: e0009521. PMID 34698547 DOI: 10.1128/mSystems.00095-21  0.505
2021 Rando HM, Wellhausen N, Ghosh S, Lee AJ, Dattoli AA, Hu F, Byrd JB, Rafizadeh DN, Qi Y, Sun Y, Field JM, Guebila MB, Jadavji NM, Lordan R, Skelly AN, et al. Identification and Development of Therapeutics for COVID-19. Arxiv. PMID 33688554  0.488
2021 Rando HM, MacLean AL, Lee AJ, Ray S, Bansal V, Skelly AN, Sell E, Dziak JJ, Shinholster L, McGowan LD, Guebila MB, Wellhausen N, Knyazev S, Boca SM, Capone S, ... Qi Y, et al. Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through analysis of Viral Genomics and Structure. Arxiv. PMID 33594340  0.505
2020 Blakely D, Collins E, Singh R, Norton A, Lanchantin J, Qi Y. FastSK: fast sequence analysis with gapped string kernels. Bioinformatics (Oxford, England). 36: i857-i865. PMID 33381828 DOI: 10.1093/bioinformatics/btaa817  0.682
2020 Kim IK, Wang W, Qi Y, Humphrey M. Forecasting Cloud Application Workloads with CloudInsight for Predictive Resource Management Ieee Transactions On Cloud Computing. 1-1. DOI: 10.1109/Tcc.2020.2998017  0.345
2018 Sekhon A, Singh R, Qi Y. DeepDiff: DEEP-learning for predicting DIFFerential gene expression from histone modifications. Bioinformatics (Oxford, England). 34: i891-i900. PMID 30423076 DOI: 10.1093/Bioinformatics/Bty612  0.717
2018 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, ... ... Qi Y, et al. Opportunities and obstacles for deep learning in biology and medicine. Journal of the Royal Society, Interface. 15. PMID 29618526 DOI: 10.1098/Rsif.2017.0387  0.582
2017 Singh R, Lanchantin J, Sekhon A, Qi Y. Attend and Predict: Understanding Gene Regulation by Selective Attention on Chromatin. Advances in Neural Information Processing Systems. 30: 6785-6795. PMID 30147283  0.717
2017 Wang B, Singh R, Qi Y. A constrained $$\ell $$1 minimization approach for estimating multiple sparse Gaussian or nonparanormal graphical models Machine Learning. 106: 1381-1417. DOI: 10.1007/S10994-017-5635-7  0.727
2016 Lanchantin J, Singh R, Wang B, Qi Y. DEEP MOTIF DASHBOARD: VISUALIZING AND UNDERSTANDING GENOMIC SEQUENCES USING DEEP NEURAL NETWORKS. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 22: 254-265. PMID 27896980  0.734
2016 Singh R, Lanchantin J, Robins G, Qi Y. Transfer String Kernel for Cross-Context DNA-Protein Binding Prediction. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. PMID 27654939 DOI: 10.1109/Tcbb.2016.2609918  0.712
2016 Singh R, Lanchantin J, Robins G, Qi Y. DeepChrome: deep-learning for predicting gene expression from histone modifications. Bioinformatics (Oxford, England). 32: i639-i648. PMID 27587684 DOI: 10.1093/Bioinformatics/Btw427  0.702
2016 Mohamed S, Janus N, Qi Y. SCODE: A Cytoscape app for supervised complex detection in protein-protein interaction graphs F1000research. 5: 1699. DOI: 10.12688/F1000Research.9184.1  0.328
2016 Xiong F, Kam M, Hrebien L, Wang B, Qi Y. Kernelized information-theoretic metric learning for cancer diagnosis using high-dimensional molecular profiling data Acm Transactions On Knowledge Discovery From Data. 10. DOI: 10.1145/2789212  0.608
2015 Singh R, Kuscu C, Quinlan A, Qi Y, Adli M. Cas9-chromatin binding information enables more accurate CRISPR off-target prediction. Nucleic Acids Research. PMID 26032770 DOI: 10.1093/Nar/Gkv575  0.702
2012 Qi Y, Oja M, Weston J, Noble WS. A unified multitask architecture for predicting local protein properties. Plos One. 7: e32235. PMID 22461885 DOI: 10.1371/Journal.Pone.0032235  0.584
2010 Qi Y, Tastan O, Carbonell JG, Klein-Seetharaman J, Weston J. Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins. Bioinformatics (Oxford, England). 26: i645-52. PMID 20823334 DOI: 10.1093/Bioinformatics/Btq394  0.351
2009 Qi Y, Dhiman HK, Bhola N, Budyak I, Kar S, Man D, Dutta A, Tirupula K, Carr BI, Grandis J, Bar-Joseph Z, Klein-Seetharaman J. Systematic prediction of human membrane receptor interactions. Proteomics. 9: 5243-55. PMID 19798668 DOI: 10.1002/Pmic.200900259  0.571
2009 Bai B, Weston J, Grangier D, Collobert R, Sadamasa K, Qi Y, Chapelle O, Weinberger K. Learning to rank with (a lot of) word features Information Retrieval. 13: 291-314. DOI: 10.1007/S10791-009-9117-9  0.354
2008 Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WK, Krumpelman C, Tian W, Obozinski G, Qi Y, Mostafavi S, et al. A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biology. 9: S2. PMID 18613946 DOI: 10.1186/Gb-2008-9-S1-S2  0.672
2008 Qi Y, Balem F, Faloutsos C, Klein-Seetharaman J, Bar-Joseph Z. Protein complex identification by supervised graph local clustering. Bioinformatics (Oxford, England). 24: i250-8. PMID 18586722 DOI: 10.1093/bioinformatics/btn164  0.512
2007 Qi Y, Klein-Seetharaman J, Bar-Joseph Z. A mixture of feature experts approach for protein-protein interaction prediction. Bmc Bioinformatics. 8: S6. PMID 18269700 DOI: 10.1186/1471-2105-8-S10-S6  0.611
2006 Qi Y, Bar-Joseph Z, Klein-Seetharaman J. Evaluation of different biological data and computational classification methods for use in protein interaction prediction. Proteins. 63: 490-500. PMID 16450363 DOI: 10.1002/Prot.20865  0.64
2005 Qi Y, Klein-Seetharaman J, Bar-Joseph Z. Random forest similarity for protein-protein interaction prediction from multiple sources. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 531-42. PMID 15759657  0.562
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