Year |
Citation |
Score |
2019 |
Su Y, Luo Y, Zhao X, Liu Y, Peng J. Integrating thermodynamic and sequence contexts improves protein-RNA binding prediction. Plos Computational Biology. 15: e1007283. PMID 31483777 DOI: 10.1371/Journal.Pcbi.1007283 |
0.346 |
|
2019 |
Cai Y, Guan K, Lobell D, Potgieter AB, Wang S, Peng J, Xu T, Asseng S, Zhang Y, You L, Peng B. Integrating satellite and climate data to predict wheat yield in Australia using machine learning approaches Agricultural and Forest Meteorology. 274: 144-159. DOI: 10.1016/J.Agrformet.2019.03.010 |
0.315 |
|
2018 |
Shang J, Jiang M, Tong W, Xiao J, Peng J, Han J. DPPred: An Effective Prediction Framework with Concise Discriminative Patterns. Ieee Transactions On Knowledge and Data Engineering. 30: 1226-1239. PMID 30745791 DOI: 10.1109/Tkde.2017.2757476 |
0.325 |
|
2018 |
Liu Y, Ye Q, Wang L, Peng J. Learning structural motif representations for efficient protein structure search. Bioinformatics (Oxford, England). 34: i773-i780. PMID 30423083 DOI: 10.1093/Bioinformatics/Bty585 |
0.444 |
|
2017 |
Liu Y, Palmedo P, Ye Q, Berger B, Peng J. Enhancing Evolutionary Couplings with Deep Convolutional Neural Networks. Cell Systems. PMID 29275173 DOI: 10.1016/J.Cels.2017.11.014 |
0.437 |
|
2017 |
Luo Y, Zhao X, Zhou J, Yang J, Zhang Y, Kuang W, Peng J, Chen L, Zeng J. A network integration approach for drug-target interaction prediction and computational drug repositioning from heterogeneous information. Nature Communications. 8: 573. PMID 28924171 DOI: 10.1038/S41467-017-00680-8 |
0.307 |
|
2017 |
Ma X, Zhou G, Shang J, Wang J, Peng J, Han J. Detection of Complexes in Biological Networks Through Diversified Dense Subgraph Mining. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 28570104 DOI: 10.1089/Cmb.2017.0037 |
0.368 |
|
2016 |
Cho H, Berger B, Peng J. Compact Integration of Multi-Network Topology for Functional Analysis of Genes. Cell Systems. PMID 27889536 DOI: 10.1016/J.Cels.2016.10.017 |
0.344 |
|
2016 |
Wang S, Peng J, Ma J, Xu J. Protein Secondary Structure Prediction Using Deep Convolutional Neural Fields. Scientific Reports. 6: 18962. PMID 26752681 DOI: 10.1038/Srep18962 |
0.589 |
|
2015 |
Simmons S, Peng J, Bienkowska J, Berger B. Discovering What Dimensionality Reduction Really Tells Us About RNA-Seq Data. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 22: 715-28. PMID 26098139 DOI: 10.1089/Cmb.2015.0085 |
0.309 |
|
2015 |
Wang S, Cho H, Zhai C, Berger B, Peng J. Exploiting ontology graph for predicting sparsely annotated gene function. Bioinformatics (Oxford, England). 31: i357-i364. PMID 26072504 DOI: 10.1093/Bioinformatics/Btv260 |
0.32 |
|
2015 |
Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovács IA, Kamburov A, Krykbaeva I, Lam MH, Tucker G, et al. Widespread macromolecular interaction perturbations in human genetic disorders. Cell. 161: 647-60. PMID 25910212 DOI: 10.1016/J.Cell.2015.04.013 |
0.311 |
|
2014 |
Taipale M, Tucker G, Peng J, Krykbaeva I, Lin ZY, Larsen B, Choi H, Berger B, Gingras AC, Lindquist S. A quantitative chaperone interaction network reveals the architecture of cellular protein homeostasis pathways. Cell. 158: 434-48. PMID 25036637 DOI: 10.1016/J.Cell.2014.05.039 |
0.377 |
|
2013 |
Daniels NM, Gallant A, Peng J, Cowen LJ, Baym M, Berger B. Compressive genomics for protein databases. Bioinformatics (Oxford, England). 29: i283-90. PMID 23812995 DOI: 10.1093/Bioinformatics/Btt214 |
0.359 |
|
2013 |
Wang S, Ma J, Peng J, Xu J. Protein structure alignment beyond spatial proximity. Scientific Reports. 3: 1448. PMID 23486213 DOI: 10.7490/F1000Research.1093698.1 |
0.579 |
|
2012 |
Hosur R, Peng J, Vinayagam A, Stelzl U, Xu J, Perrimon N, Bienkowska J, Berger B. A computational framework for boosting confidence in high-throughput protein-protein interaction datasets. Genome Biology. 13: R76. PMID 22937800 DOI: 10.1186/Gb-2012-13-8-R76 |
0.58 |
|
2012 |
Källberg M, Wang H, Wang S, Peng J, Wang Z, Lu H, Xu J. Template-based protein structure modeling using the RaptorX web server. Nature Protocols. 7: 1511-22. PMID 22814390 DOI: 10.1038/Nprot.2012.085 |
0.599 |
|
2012 |
Ma J, Peng J, Wang S, Xu J. A conditional neural fields model for protein threading. Bioinformatics (Oxford, England). 28: i59-66. PMID 22689779 DOI: 10.7490/F1000Research.1093699.1 |
0.531 |
|
2012 |
Adhikari AN, Peng J, Wilde M, Xu J, Freed KF, Sosnick TR. Modeling large regions in proteins: applications to loops, termini, and folding. Protein Science : a Publication of the Protein Society. 21: 107-21. PMID 22095743 DOI: 10.1002/Pro.767 |
0.593 |
|
2011 |
Peng J, Xu J. RaptorX: exploiting structure information for protein alignment by statistical inference. Proteins. 79: 161-71. PMID 21987485 DOI: 10.1002/Prot.23175 |
0.591 |
|
2011 |
Wang Z, Zhao F, Peng J, Xu J. Protein 8-class secondary structure prediction using conditional neural fields Proteomics. 11: 3786-3792. PMID 21805636 DOI: 10.1002/Pmic.201100196 |
0.586 |
|
2011 |
Wang S, Peng J, Xu J. Alignment of distantly related protein structures: algorithm, bound and implications to homology modeling. Bioinformatics (Oxford, England). 27: 2537-45. PMID 21791532 DOI: 10.1093/Bioinformatics/Btr432 |
0.613 |
|
2011 |
Peng J, Xu J. A multiple-template approach to protein threading. Proteins. 79: 1930-9. PMID 21465564 DOI: 10.1002/Prot.23016 |
0.594 |
|
2011 |
Wang S, Peng J, Xu J. 3DCOMB: Alignment of distantly-related protein structures F1000research. 2. DOI: 10.7490/F1000Research.2059.1 |
0.571 |
|
2010 |
Zhao F, Peng J, Debartolo J, Freed KF, Sosnick TR, Xu J. A probabilistic and continuous model of protein conformational space for template-free modeling. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 17: 783-98. PMID 20583926 DOI: 10.1089/Cmb.2009.0235 |
0.581 |
|
2010 |
Zhao F, Peng J, Xu J. Fragment-free approach to protein folding using conditional neural fields. Bioinformatics (Oxford, England). 26: i310-7. PMID 20529922 DOI: 10.1093/Bioinformatics/Btq193 |
0.593 |
|
2010 |
Peng J, Xu J. Low-homology protein threading. Bioinformatics (Oxford, England). 26: i294-300. PMID 20529920 DOI: 10.7490/F1000Research.320.1 |
0.556 |
|
2010 |
Zhao F, Peng J, Xu J. Efficient fragment-free approach to protein folding F1000research. 1. DOI: 10.7490/F1000Research.312.1 |
0.534 |
|
2009 |
Zhao F, Peng J, Debartolo J, Freed KF, Sosnick TR, Xu J. A Probabilistic Graphical Model for Ab Initio Folding. Research in Computational Molecular Biology : ... Annual International Conference, Recomb ... : Proceedings. Recomb (Conference : 2005-). 5541: 59-73. PMID 23459639 DOI: 10.1007/978-3-642-02008-7_5 |
0.557 |
|
2009 |
Peng J, Xu J. Boosting Protein Threading Accuracy. Research in Computational Molecular Biology : ... Annual International Conference, Recomb ... : Proceedings. Recomb (Conference : 2005-). 5541: 31-45. PMID 22506254 DOI: 10.1007/978-3-642-02008-7_3 |
0.515 |
|
2009 |
Xu J, Peng J, Zhao F. Template-based and free modeling by RAPTOR++ in CASP8. Proteins. 77: 133-7. PMID 19722267 DOI: 10.1002/Prot.22567 |
0.562 |
|
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