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Hydrogen bonds and salt bridges across protein-protein interfaces. D Xu, CJ Tsai, R Nussinov Protein engineering 10 (9), 999-1012, 1997 | 538 | 1997 |
Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation Y Liu, J Zhou, MV Omelchenko, AS Beliaev, A Venkateswaran, J Stair, ... Proceedings of the National Academy of Sciences 100 (7), 4191-4196, 2003 | 436 | 2003 |
An integrated transcriptome atlas of the crop model Glycine max, and its use in comparative analyses in plants M Libault, A Farmer, T Joshi, K Takahashi, RJ Langley, LD Franklin, J He, ... The Plant Journal 63 (1), 86-99, 2010 | 412 | 2010 |
Clustering gene expression data using a graph-theoretic approach: an application of minimum spanning trees Y Xu, V Olman, D Xu Bioinformatics 18 (4), 536-545, 2002 | 406 | 2002 |
Inferring gene regulatory networks from multiple microarray datasets Y Wang, T Joshi, XS Zhang, D Xu, L Chen Bioinformatics 22 (19), 2413-2420, 2006 | 364 | 2006 |
A content-based recommender system for computer science publications D Wang, Y Liang, D Xu, X Feng, R Guan Knowledge-Based Systems 157, 1-9, 2018 | 331 | 2018 |
Protein binding versus protein folding: the role of hydrophilic bridges in protein associations D Xu, SL Lin, R Nussinov Journal of molecular biology 265 (1), 68-84, 1997 | 328 | 1997 |
Ultradeep bisulfite sequencing analysis of DNA methylation patterns in multiple gene promoters by 454 sequencing KH Taylor, RS Kramer, JW Davis, J Guo, DJ Duff, D Xu, CW Caldwell, ... Cancer research 67 (18), 8511-8518, 2007 | 318 | 2007 |
A critical assessment of Mus musculus gene function prediction using integrated genomic evidence L Peña-Castillo, M Tasan, CL Myers, H Lee, T Joshi, C Zhang, Y Guan, ... Genome Biol 9 (Suppl 1), S2, 2008 | 292 | 2008 |
scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses J Wang, A Ma, Y Chang, J Gong, Y Jiang, R Qi, C Wang, H Fu, Q Ma, ... Nature communications 12 (1), 1882, 2021 | 268 | 2021 |
Protein threading using PROSPECT: design and evaluation Y Xu, D Xu Proteins: Structure, Function, and Bioinformatics 40 (3), 343-354, 2000 | 263 | 2000 |
Musite, a tool for global prediction of general and kinase-specific phosphorylation sites J Gao, JJ Thelen, AK Dunker, D Xu Molecular & Cellular Proteomics 9 (12), 2586-2600, 2010 | 254 | 2010 |
Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population RJ Schmitz, Y He, O Valdés-López, SM Khan, T Joshi, MA Urich, JR Nery, ... Genome research 23 (10), 1663-1674, 2013 | 249 | 2013 |
Comparisons among two fertile and three male-sterile mitochondrial genomes of maize JO Allen, CM Fauron, P Minx, L Roark, S Oddiraju, GN Lin, L Meyer, ... Genetics 177 (2), 1173-1192, 2007 | 243 | 2007 |
Using Internet search engines to obtain medical information: a comparative study L Wang, J Wang, M Wang, Y Li, Y Liang, D Xu Journal of Medical Internet Research 14 (3), e74, 2012 | 217 | 2012 |
Transcriptional and physiological responses of Bradyrhizobium japonicum to desiccation-induced stress EJ Cytryn, DP Sangurdekar, JG Streeter, WL Franck, W Chang, G Stacey, ... Journal of bacteriology 189 (19), 6751-6762, 2007 | 209 | 2007 |
Evaluation of 50-mer oligonucleotide arrays for detecting microbial populations in environmental samples SM Tiquia, L Wu, SC Chong, S Passovets, D Xu, Y Xu, J Zhou Biotechniques 36 (4), 664-675, 2004 | 194 | 2004 |
MusiteDeep: a Deep-learning Framework for General and Kinase-specific Phosphorylation Site Prediction D Wang, S Zeng, C Xu, W Qiu, Y Liang, T Joshi, D Xu Bioinformatics, 2017 | 183 | 2017 |
Quantitative relationship between synonymous codon usage bias and GC composition across unicellular genomes XF Wan, D Xu, A Kleinhofs, J Zhou BMC Evolutionary Biology 4 (1), 1-11, 2004 | 179 | 2004 |