| Year |
Citation |
Score |
| 2024 |
Ren X, Zheng L, Maliskova L, Tam TW, Sun Y, Liu H, Lee J, Takagi MA, Li B, Ren B, Wang W, Shen Y. CRISPR tiling deletion screens reveal functional enhancers of neuropsychiatric risk genes and allelic compensation effects (ACE) on transcription. Biorxiv : the Preprint Server For Biology. PMID 39416108 DOI: 10.1101/2024.10.08.616922 |
0.446 |
|
| 2024 |
Wang Y, Riaz F, Wang W, Pu J, Liang Y, Wu Z, Pan S, Song J, Yang L, Zhang Y, Wu H, Han F, Tang J, Wang X. Functional significance of DNA methylation: epigenetic insights into Sjögren's syndrome. Frontiers in Immunology. 15: 1289492. PMID 38510251 DOI: 10.3389/fimmu.2024.1289492 |
0.317 |
|
| 2024 |
Rodriguez-Rodriguez P, Arroyo-Garcia LE, Tsagkogianni C, Li L, Wang W, Végvári Á, Salas-Allende I, Plautz Z, Cedazo-Minguez A, Sinha SC, Troyanskaya O, Flajolet M, Yao V, Roussarie JP. A cell autonomous regulator of neuronal excitability modulates tau in Alzheimer's disease vulnerable neurons. Brain : a Journal of Neurology. PMID 38462574 DOI: 10.1093/brain/awae051 |
0.475 |
|
| 2022 |
Chen PB, Fiaux PC, Zhang K, Li B, Kubo N, Jiang S, Hu R, Rooholfada E, Wu S, Wang M, Wang W, McVicker G, Mischel PS, Ren B. Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation. Cell Reports. 41: 111630. PMID 36351387 DOI: 10.1016/j.celrep.2022.111630 |
0.518 |
|
| 2021 |
Ren X, Wang M, Li B, Jamieson K, Zheng L, Jones IR, Li B, Takagi MA, Lee J, Maliskova L, Tam TW, Yu M, Hu R, Lee L, Abnousi A, ... ... Wang W, et al. Parallel characterization of cis-regulatory elements for multiple genes using CRISPRpath. Science Advances. 7: eabi4360. PMID 34524848 DOI: 10.1126/sciadv.abi4360 |
0.351 |
|
| 2021 |
Gorkin DU, Barozzi I, Zhao Y, Zhang Y, Huang H, Lee AY, Li B, Chiou J, Wildberg A, Ding B, Zhang B, Wang M, Strattan JS, Davidson JM, Qiu Y, ... ... Wang W, et al. Author Correction: An atlas of dynamic chromatin landscapes in mouse fetal development. Nature. PMID 33398137 DOI: 10.1038/s41586-020-03089-4 |
0.4 |
|
| 2020 |
Gorkin DU, Barozzi I, Zhao Y, Zhang Y, Huang H, Lee AY, Li B, Chiou J, Wildberg A, Ding B, Zhang B, Wang M, Strattan JS, Davidson JM, Qiu Y, ... ... Wang W, et al. Author Correction: An atlas of dynamic chromatin landscapes in mouse fetal development. Nature. PMID 33037424 DOI: 10.1038/s41586-020-2841-4 |
0.386 |
|
| 2020 |
Li L, Li L, Li Q, Liu X, Ma X, Yong J, Gao S, Wu X, Wei Y, Wang X, Wang W, Li R, Yan J, Zhu X, Wen L, et al. Dissecting the epigenomic dynamics of human fetal germ cell development at single-cell resolution. Cell Research. PMID 32884136 DOI: 10.1038/s41422-020-00401-9 |
0.323 |
|
| 2020 |
Wang M, Wang D, Zhang K, Ngo V, Fan S, Wang W. Motto: Representing Motifs in Consensus Sequences with Minimum Information Loss. Genetics. PMID 32816922 DOI: 10.1534/Genetics.120.303597 |
0.358 |
|
| 2020 |
Parkinson J, Hard R, Ainsworth RI, Li N, Wang W. Engineering a Histone Reader Protein by Combining Directed Evolution, Sequencing, and Neural Network Based Ordinal Regression. Journal of Chemical Information and Modeling. PMID 32786513 DOI: 10.1021/Acs.Jcim.0C00441 |
0.317 |
|
| 2020 |
Gorkin DU, Barozzi I, Zhao Y, Zhang Y, Huang H, Lee AY, Li B, Chiou J, Wildberg A, Ding B, Zhang B, Wang M, Strattan JS, Davidson JM, Qiu Y, ... ... Wang W, et al. An atlas of dynamic chromatin landscapes in mouse fetal development. Nature. 583: 744-751. PMID 32728240 DOI: 10.1038/S41586-020-2093-3 |
0.55 |
|
| 2020 |
Roussarie JP, Yao V, Rodriguez-Rodriguez P, Oughtred R, Rust J, Plautz Z, Kasturia S, Albornoz C, Wang W, Schmidt EF, Dannenfelser R, Tadych A, Brichta L, Barnea-Cramer A, Heintz N, et al. Selective Neuronal Vulnerability in Alzheimer's Disease: A Network-Based Analysis. Neuron. PMID 32603655 DOI: 10.1016/J.Neuron.2020.06.010 |
0.5 |
|
| 2020 |
Arvanitis M, Tampakakis E, Zhang Y, Wang W, Auton A, Dutta D, Glavaris S, Keramati A, Chatterjee N, Chi NC, Ren B, Post WS, Battle A. Genome-wide association and multi-omic analyses reveal ACTN2 as a gene linked to heart failure. Nature Communications. 11: 1122. PMID 32111823 DOI: 10.1038/S41467-020-14843-7 |
0.449 |
|
| 2020 |
Ai R, Boyle D, Hammaker D, Deane K, Holers VM, Matti A, Robinson W, Buckner J, Rao N, Baribaud F, Johnsen A, Nagpal S, Wang W, Firestein G. Op0337 Differential Methylation Of Peripheral Blood Adaptive Immune Cells In Individuals At High Risk For Ra And With Early Ra Compared With Controls Identifies Pathways Important In Transition To Arthritis Annals of the Rheumatic Diseases. 79: 207-207. DOI: 10.1136/Annrheumdis-2020-Eular.2989 |
0.308 |
|
| 2019 |
Wang Z, Zhao Y, Phipps-Green A, Liu-Bryan R, Ceponis A, Boyle DL, Wang J, Merriman TR, Wang W, Terkeltaub R. Differential DNA methylation of networked signaling, transcriptional, innate and adaptive immunity, and osteoclastogenesis genes and pathways in gout. Arthritis & Rheumatology (Hoboken, N.J.). PMID 31738005 DOI: 10.1002/Art.41173 |
0.34 |
|
| 2019 |
Wang M, Zhang K, Ngo V, Liu C, Fan S, Whitaker JW, Chen Y, Ai R, Chen Z, Wang J, Zheng L, Wang W. Identification of DNA motifs that regulate DNA methylation. Nucleic Acids Research. 47: 6753-6768. PMID 31334813 DOI: 10.1093/Nar/Gkz483 |
0.473 |
|
| 2019 |
Zhang K, Wang M, Zhao Y, Wang W. Taiji: System-level identification of key transcription factors reveals transcriptional waves in mouse embryonic development. Science Advances. 5: eaav3262. PMID 30944857 DOI: 10.1126/Sciadv.Aav3262 |
0.422 |
|
| 2019 |
Wang W, Xu J, Limbo O, Fei J, Kassavetis GA, Chong J, Kadonaga JT, Russell P, Li B, Wang D. Molecular basis of chromatin remodeling by Rhp26, a yeast CSB ortholog. Proceedings of the National Academy of Sciences of the United States of America. PMID 30867290 DOI: 10.1073/Pnas.1818163116 |
0.367 |
|
| 2019 |
Ngo V, Chen Z, Zhang K, Whitaker JW, Wang M, Wang W. Epigenomic analysis reveals DNA motifs regulating histone modifications in human and mouse. Proceedings of the National Academy of Sciences of the United States of America. PMID 30755522 DOI: 10.1073/Pnas.1813565116 |
0.484 |
|
| 2019 |
Fan S, Tang J, Li N, Zhao Y, Ai R, Zhang K, Wang M, Du W, Wang W. Integrative analysis with expanded DNA methylation data reveals common key regulators and pathways in cancers. Npj Genomic Medicine. 4: 2. PMID 30729033 DOI: 10.1038/S41525-019-0077-8 |
0.433 |
|
| 2019 |
Ngo V, Wang M, Wang W. Finding de novo methylated DNA motifs. Bioinformatics (Oxford, England). PMID 30726880 DOI: 10.1093/Bioinformatics/Btz079 |
0.371 |
|
| 2018 |
Hard R, Li N, He W, Ross B, Mo GCH, Peng Q, Stein RSL, Komives E, Wang Y, Zhang J, Wang W. Deciphering and engineering chromodomain-methyllysine peptide recognition. Science Advances. 4: eaau1447. PMID 30417094 DOI: 10.1126/Sciadv.Aau1447 |
0.349 |
|
| 2018 |
Ainsworth RI, Ai R, Ding B, Li N, Zhang K, Wang W. Bayesian Networks Predict Neuronal Transdifferentiation. G3 (Bethesda, Md.). PMID 29848620 DOI: 10.1534/G3.118.200401 |
0.375 |
|
| 2018 |
Ai R, Laragione T, Hammaker D, Boyle DL, Wildberg A, Maeshima K, Palescandolo E, Krishna V, Pocalyko D, Whitaker JW, Bai Y, Nagpal S, Bachman KE, Ainsworth RI, Wang M, ... ... Wang W, et al. Comprehensive epigenetic landscape of rheumatoid arthritis fibroblast-like synoviocytes. Nature Communications. 9: 1921. PMID 29765031 DOI: 10.1038/S41467-018-04310-9 |
0.354 |
|
| 2018 |
Treen N, Heist T, Wang W, Levine M. Depletion of Maternal Cyclin B3 Contributes to Zygotic Genome Activation in the Ciona Embryo. Current Biology : Cb. PMID 29576477 DOI: 10.1016/J.Cub.2018.02.046 |
0.393 |
|
| 2018 |
Milner JJ, Toma C, Yu B, Zhang K, Omilusik K, Phan AT, Wang D, Getzler AJ, Nguyen T, Crotty S, Wang W, Pipkin ME, Goldrath AW. Erratum: Runx3 programs CD8+ T cell residency in non-lymphoid tissues and tumours. Nature. PMID 29320476 DOI: 10.1038/Nature25445 |
0.303 |
|
| 2017 |
Local A, Huang H, Albuquerque CP, Singh N, Lee AY, Wang W, Wang C, Hsia JE, Shiau AK, Ge K, Corbett KD, Wang D, Zhou H, Ren B. Identification of H3K4me1-associated proteins at mammalian enhancers. Nature Genetics. PMID 29255264 DOI: 10.1038/S41588-017-0015-6 |
0.593 |
|
| 2017 |
Milner JJ, Toma C, Yu B, Zhang K, Omilusik K, Phan AT, Wang D, Getzler AJ, Nguyen T, Crotty S, Wang W, Pipkin ME, Goldrath AW. Runx3 programs CD8+ T cell residency in non-lymphoid tissues and tumours. Nature. 552: 253-257. PMID 29211713 DOI: 10.1038/Nature24993 |
0.384 |
|
| 2017 |
Yu B, Zhang K, Milner JJ, Toma C, Chen R, Scott-Browne JP, Pereira RM, Crotty S, Chang JT, Pipkin ME, Wang W, Goldrath AW. Epigenetic landscapes reveal transcription factors that regulate CD8(+) T cell differentiation. Nature Immunology. PMID 28288100 DOI: 10.1038/Ni.3706 |
0.402 |
|
| 2016 |
Spreafico R, Rossetti M, Whitaker JW, Wang W, Lovell DJ, Albani S. Epipolymorphisms associated with the clinical outcome of autoimmune arthritis affect CD4+ T cell activation pathways. Proceedings of the National Academy of Sciences of the United States of America. PMID 27849614 DOI: 10.1073/Pnas.1524056113 |
0.359 |
|
| 2016 |
Rhead B, Holingue C, Cole M, Shao X, Quach HL, Quach D, Shah K, Sinclair E, Graf J, Link T, Harrison R, Rahmani E, Halperin E, Wang W, Firestein GS, et al. Rheumatoid arthritis naïve T cells share hypermethylation sites with synoviocytes. Arthritis & Rheumatology (Hoboken, N.J.). PMID 27723282 DOI: 10.1002/Art.39952 |
0.3 |
|
| 2016 |
Zhang K, Li N, Ainsworth RI, Wang W. Systematic identification of protein combinations mediating chromatin looping. Nature Communications. 7: 12249. PMID 27461729 DOI: 10.1038/Ncomms12249 |
0.422 |
|
| 2016 |
Ai R, Hammaker D, Boyle DL, Morgan R, Walsh AM, Fan S, Firestein GS, Wang W. Joint-specific DNA methylation and transcriptome signatures in rheumatoid arthritis identify distinct pathogenic processes. Nature Communications. 7: 11849. PMID 27282753 DOI: 10.1038/Ncomms11849 |
0.31 |
|
| 2016 |
Hammaker D, Whitaker JW, Maeshima K, Boyle DL, Ekwall AH, Wang W, Firestein GS. Limb Bud and Heart Development Gene Transcription is Regulated by the Interplay of an Enhancer Risk Allele and DNA Methylation in Rheumatoid Arthritis. Arthritis & Rheumatology (Hoboken, N.J.). PMID 27159840 DOI: 10.1002/Art.39746 |
0.333 |
|
| 2016 |
Zhu Y, Chen Z, Zhang K, Wang M, Medovoy D, Whitaker JW, Ding B, Li N, Zheng L, Wang W. Constructing 3D interaction maps from 1D epigenomes. Nature Communications. 7: 10812. PMID 26960733 DOI: 10.1038/Ncomms10812 |
0.394 |
|
| 2016 |
Fan S, Huang K, Ai R, Wang M, Wang W. Predicting CpG methylation levels by integrating Infinium HumanMethylation450 BeadChip array data. Genomics. PMID 26921858 DOI: 10.1016/J.Ygeno.2016.02.005 |
0.369 |
|
| 2016 |
Fan S, Li C, Ai R, Firestein GS, Wang W. Computationally expanding Infinium HumanMethylation450 BeadChip array data to reveal distinct DNA methylation patterns of rheumatoid arthritis. Bioinformatics (Oxford, England). PMID 26883487 DOI: 10.1093/Bioinformatics/Btw089 |
0.321 |
|
| 2015 |
Schultz MD, He Y, Whitaker JW, Hariharan M, Mukamel EA, Leung D, Rajagopal N, Nery JR, Urich MA, Chen H, Lin S, Lin Y, Jung I, Schmitt AD, Selvaraj S, ... ... Wang W, et al. Corrigendum: Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. PMID 26605523 DOI: 10.1038/Nature16179 |
0.688 |
|
| 2015 |
Schultz MD, He Y, Whitaker JW, Hariharan M, Mukamel EA, Leung D, Rajagopal N, Nery JR, Urich MA, Chen H, Lin S, Lin Y, Jung I, Schmitt AD, Selvaraj S, ... ... Wang W, et al. Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. 523: 212-6. PMID 26030523 DOI: 10.1038/Nature14465 |
0.718 |
|
| 2015 |
Whitaker JW, Boyle DL, Bartok B, Ball ST, Gay S, Wang W, Firestein GS. Integrative omics analysis of rheumatoid arthritis identifies non-obvious therapeutic targets. Plos One. 10: e0124254. PMID 25901943 DOI: 10.1371/Journal.Pone.0124254 |
0.302 |
|
| 2015 |
Ekwall AK, Whitaker JW, Hammaker D, Bugbee WD, Wang W, Firestein GS. The Rheumatoid Arthritis Risk Gene LBH Regulates Growth in Fibroblast-like Synoviocytes. Arthritis & Rheumatology (Hoboken, N.J.). 67: 1193-202. PMID 25707478 DOI: 10.1002/Art.39060 |
0.312 |
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| 2015 |
Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, ... ... Wang W, et al. Integrative analysis of 111 reference human epigenomes. Nature. 518: 317-30. PMID 25693563 DOI: 10.1038/Nature14248 |
0.721 |
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| 2015 |
Whitaker JW, Nguyen TT, Zhu Y, Wildberg A, Wang W. Computational schemes for the prediction and annotation of enhancers from epigenomic assays. Methods (San Diego, Calif.). 72: 86-94. PMID 25461775 DOI: 10.1016/J.Ymeth.2014.10.008 |
0.336 |
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| 2015 |
Whitaker JW, Chen Z, Wang W. Predicting the human epigenome from DNA motifs. Nature Methods. 12: 265-72, 7 p followin. PMID 25240437 DOI: 10.1038/Nmeth.3065 |
0.374 |
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| 2014 |
Greer EL, Beese-Sims SE, Brookes E, Spadafora R, Zhu Y, Rothbart SB, Aristizábal-Corrales D, Chen S, Badeaux AI, Jin Q, Wang W, Strahl BD, Colaiácovo MP, Shi Y. A histone methylation network regulates transgenerational epigenetic memory in C. elegans. Cell Reports. 7: 113-26. PMID 24685137 DOI: 10.1016/J.Celrep.2014.02.044 |
0.343 |
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| 2013 |
Wang T, Liu J, Shen L, Tonti-Filippini J, Zhu Y, Jia H, Lister R, Whitaker JW, Ecker JR, Millar AH, Ren B, Wang W. STAR: an integrated solution to management and visualization of sequencing data. Bioinformatics (Oxford, England). 29: 3204-3210. PMID 24078702 DOI: 10.1093/Bioinformatics/Btt558 |
0.408 |
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| 2013 |
Zhu Y, Sun L, Chen Z, Whitaker JW, Wang T, Wang W. Predicting enhancer transcription and activity from chromatin modifications. Nucleic Acids Research. 41: 10032-43. PMID 24038352 DOI: 10.1093/Nar/Gkt826 |
0.359 |
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| 2013 |
Li N, Stein RS, He W, Komives E, Wang W. Identification of methyllysine peptides binding to chromobox protein homolog 6 chromodomain in the human proteome. Molecular & Cellular Proteomics : McP. 12: 2750-60. PMID 23842000 DOI: 10.1074/Mcp.O112.025015 |
0.369 |
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| 2013 |
Xie W, Schultz MD, Lister R, Hou Z, Rajagopal N, Ray P, Whitaker JW, Tian S, Hawkins RD, Leung D, Yang H, Wang T, Lee AY, Swanson SA, Zhang J, ... ... Wang W, et al. Epigenomic analysis of multilineage differentiation of human embryonic stem cells. Cell. 153: 1134-48. PMID 23664764 DOI: 10.1016/J.Cell.2013.04.022 |
0.727 |
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| 2013 |
Whitaker JW, Shoemaker R, Boyle DL, Hillman J, Anderson D, Wang W, Firestein GS. An imprinted rheumatoid arthritis methylome signature reflects pathogenic phenotype. Genome Medicine. 5: 40. PMID 23631487 DOI: 10.1186/Gm444 |
0.696 |
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| 2013 |
Rajagopal N, Xie W, Li Y, Wagner U, Wang W, Stamatoyannopoulos J, Ernst J, Kellis M, Ren B. RFECS: a random-forest based algorithm for enhancer identification from chromatin state. Plos Computational Biology. 9: e1002968. PMID 23526891 DOI: 10.1371/Journal.Pcbi.1002968 |
0.728 |
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| 2013 |
Won KJ, Zhang X, Wang T, Ding B, Raha D, Snyder M, Ren B, Wang W. Comparative annotation of functional regions in the human genome using epigenomic data. Nucleic Acids Research. 41: 4423-32. PMID 23482391 DOI: 10.1093/Nar/Gkt143 |
0.549 |
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| 2013 |
Stein RS, Li N, He W, Komives E, Wang W. Recognition of methylated peptides by Drosophila melanogaster polycomb chromodomain. Journal of Proteome Research. 12: 1467-77. PMID 23320494 DOI: 10.1021/Pr3011205 |
0.321 |
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| 2013 |
Nakano K, Whitaker JW, Boyle DL, Wang W, Firestein GS. DNA methylome signature in rheumatoid arthritis. Annals of the Rheumatic Diseases. 72: 110-7. PMID 22736089 DOI: 10.1136/Annrheumdis-2012-201526 |
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| 2013 |
Whitaker JW, Chen Z, Wang W. Interplay between DNA sequence motifs and the human epigenome Embnet.Journal. 19: 32-33. DOI: 10.14806/Ej.19.A.615 |
0.396 |
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| 2012 |
Won KJ, Xu Z, Zhang X, Whitaker JW, Shoemaker R, Ren B, Xu Y, Wang W. Global identification of transcriptional regulators of pluripotency and differentiation in embryonic stem cells Nucleic Acids Research. 40: 8199-8209. PMID 22730289 DOI: 10.1093/Nar/Gks584 |
0.762 |
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| 2011 |
Chang R, Shoemaker R, Wang W. Systematic search for recipes to generate induced pluripotent stem cells Plos Computational Biology. 7. PMID 22215993 DOI: 10.1371/Journal.Pcbi.1002300 |
0.697 |
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| 2011 |
Xu Z, Hou T, Li N, Xu Y, Wang W. Proteome-wide detection of Abl1 SH3-binding peptides by integrating computational prediction and peptide microarray. Molecular & Cellular Proteomics : McP. 11: O111.010389. PMID 22023807 DOI: 10.1074/Mcp.O111.010389 |
0.306 |
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| 2011 |
Ding S, Wang W. Recipes and mechanisms of cellular reprogramming: a case study on budding yeast Saccharomyces cerevisiae Bmc Systems Biology. 5: 50-50. PMID 21486480 DOI: 10.1186/1752-0509-5-50 |
0.329 |
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| 2011 |
Chang R, Shoemaker R, Wang W. A novel knowledge-driven systems biology approach for phenotype prediction upon genetic intervention Ieee/Acm Transactions On Computational Biology and Bioinformatics. 8: 1170-1182. PMID 21282866 DOI: 10.1109/Tcbb.2011.18 |
0.696 |
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| 2011 |
Stein RS, Wang W. The recognition specificity of the CHD1 chromodomain with modified histone H3 peptides. Journal of Molecular Biology. 406: 527-41. PMID 21195088 DOI: 10.1016/J.Jmb.2010.12.030 |
0.349 |
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| 2011 |
Hou T, Wang J, Li Y, Wang W. Assessing the performance of the MM/PBSA and MM/GBSA methods. 1. The accuracy of binding free energy calculations based on molecular dynamics simulations. Journal of Chemical Information and Modeling. 51: 69-82. PMID 21117705 DOI: 10.1021/Ci100275A |
0.491 |
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| 2011 |
Hou T, Wang J, Li Y, Wang W. Assessing the performance of the molecular mechanics/Poisson Boltzmann surface area and molecular mechanics/generalized Born surface area methods. II. The accuracy of ranking poses generated from docking. Journal of Computational Chemistry. 32: 866-77. PMID 20949517 DOI: 10.1002/Jcc.21666 |
0.49 |
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| 2011 |
Shoemaker R, Wang W, Zhang K. Mediators and dynamics of DNA methylation Wiley Interdisciplinary Reviews: Systems Biology and Medicine. 3: 281-298. PMID 20878927 DOI: 10.1002/Wsbm.124 |
0.746 |
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| 2010 |
Hawkins RD, Hon GC, Lee LK, Ngo Q, Lister R, Pelizzola M, Edsall LE, Kuan S, Luu Y, Klugman S, Antosiewicz-Bourget J, Ye Z, Espinoza C, Agarwahl S, Shen L, ... ... Wang W, et al. Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. Cell Stem Cell. 6: 479-91. PMID 20452322 DOI: 10.1016/J.Stem.2010.03.018 |
0.745 |
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| 2010 |
Shoemaker R, Deng J, Wang W, Zhang K. Allele-specific methylation is prevalent and is contributed by CpG-SNPs in the human genome. Genome Research. 20: 883-9. PMID 20418490 DOI: 10.1101/Gr.104695.109 |
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| 2009 |
Hon G, Wang W, Ren B. Discovery and annotation of functional chromatin signatures in the human genome. Plos Computational Biology. 5: e1000566. PMID 19918365 DOI: 10.1371/Journal.Pcbi.1000566 |
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| 2009 |
Deng J, Shoemaker R, Xie B, Gore A, LeProust EM, Antosiewicz-Bourget J, Egli D, Maherali N, Park IH, Yu J, Daley GQ, Eggan K, Hochedlinger K, Thomson J, Wang W, et al. Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming. Nature Biotechnology. 27: 353-60. PMID 19330000 DOI: 10.1038/Nbt.1530 |
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| 2008 |
Won KJ, Chepelev I, Ren B, Wang W. Prediction of regulatory elements in mammalian genomes using chromatin signatures Bmc Bioinformatics. 9. PMID 19094206 DOI: 10.1186/1471-2105-9-547 |
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| 2008 |
Hon G, Ren B, Wang W. ChromaSig: A probabilistic approach to finding common chromatin signatures in the human genome Plos Computational Biology. 4. PMID 18927605 DOI: 10.1371/Journal.Pcbi.1000201 |
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| 2008 |
Shen L, Liu J, Wang W. GBNet: Deciphering regulatory rules in the co-regulated genes using a Gibbs sampler enhanced Bayesian network approach Bmc Bioinformatics. 9: 395-395. PMID 18811979 DOI: 10.1186/1471-2105-9-395 |
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| 2008 |
Yu RX, Liu J, True N, Wang W. Identification of direct target genes using joint sequence and expression likelihood with application to DAF-16. Plos One. 3. PMID 18350157 DOI: 10.1371/Journal.Pone.0001821 |
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Philibert P, Stoessel A, Wang W, Sibler AP, Bec N, Larroque C, Saven JG, Courtête J, Weiss E, Martineau P. A focused antibody library for selecting scFvs expressed at high levels in the cytoplasm. Bmc Biotechnology. 7: 81. PMID 18034894 DOI: 10.1186/1472-6750-7-81 |
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Heintzman ND, Stuart RK, Hon G, Fu Y, Ching CW, Hawkins RD, Barrera LO, Van Calcar S, Qu C, Ching KA, Wang W, Weng Z, Green RD, Crawford GE, Ren B. Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome Nature Genetics. 39: 311-318. PMID 17277777 DOI: 10.1038/Ng1966 |
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Hou T, Wang J, Zhang W, Wang W, Xu X. Recent advances in computational prediction of drug absorption and permeability in drug discovery. Current Medicinal Chemistry. 13: 2653-67. PMID 17017917 DOI: 10.2174/092986706778201558 |
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Wang J, Wang W, Kollman PA, Case DA. Automatic atom type and bond type perception in molecular mechanical calculations. Journal of Molecular Graphics & Modelling. 25: 247-60. PMID 16458552 DOI: 10.1016/J.Jmgm.2005.12.005 |
0.57 |
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| 2006 |
Chung JL, Wang W, Bourne PE. Exploiting sequence and structure homologs to identify protein-protein binding sites. Proteins. 62: 630-40. PMID 16329107 DOI: 10.1002/Prot.20741 |
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| 2005 |
Wang W, Cherry JM, Nochomovitz Y, Jolly E, Botstein D, Li H. Inference of combinatorial regulation in yeast transcriptional networks: a case study of sporulation. Proceedings of the National Academy of Sciences of the United States of America. 102: 1998-2003. PMID 15684073 DOI: 10.1073/Pnas.0405537102 |
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| 2005 |
Park S, Kono H, Wang W, Boder ET, Saven JG. Progress in the development and application of computational methods for probabilistic protein design Computers and Chemical Engineering. 29: 407-421. DOI: 10.1016/J.Compchemeng.2004.07.037 |
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| 2004 |
Cole AM, Wang W, Waring AJ, Lehrer RI. Retrocyclins: Using past as prologue Current Protein and Peptide Science. 5: 373-381. PMID 15544532 DOI: 10.2174/1389203043379657 |
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Li H, Wang W. Dissecting the transcription networks of a cell using computational genomics. Current Opinion in Genetics & Development. 13: 611-616. PMID 14638323 DOI: 10.1016/J.Gde.2003.10.012 |
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Wang W, Cherry JM, Botstein D, Li H. A systematic approach to reconstructing transcription networks in Saccharomycescerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 99: 16893-8. PMID 12482955 DOI: 10.1073/Pnas.252638199 |
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| 2002 |
Wang W, Saven JG. Designing gene libraries from protein profiles for combinatorial protein experiments. Nucleic Acids Research. 30: e120. PMID 12409479 DOI: 10.1093/Nar/Gnf119 |
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| 2002 |
Wang J, Wang W, Huo S, Lee M, Kollman PA. Solvation model based on weighted solvent accessible surface area Journal of Physical Chemistry B. 105: 5055-5067. DOI: 10.1021/Jp0102318 |
0.451 |
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| 2001 |
Wang W, Kollman PA. Computational study of protein specificity: the molecular basis of HIV-1 protease drug resistance. Proceedings of the National Academy of Sciences of the United States of America. 98: 14937-42. PMID 11752442 DOI: 10.1073/Pnas.251265598 |
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|
| 2001 |
Wang J, Morin P, Wang W, Kollman PA. Use of MM-PBSA in reproducing the binding free energies to HIV-1 RT of TIBO derivatives and predicting the binding mode to HIV-1 RT of efavirenz by docking and MM-PBSA. Journal of the American Chemical Society. 123: 5221-30. PMID 11457384 DOI: 10.1021/Ja003834Q |
0.469 |
|
| 2001 |
Wang W, Lim WA, Jakalian A, Wang J, Wang J, Luo R, Bayly CI, Kollman PA. An analysis of the interactions between the Sem-5 SH3 domain and its ligands using molecular dynamics, free energy calculations, and sequence analysis. Journal of the American Chemical Society. 123: 3986-94. PMID 11457149 DOI: 10.1021/Ja003164O |
0.476 |
|
| 2001 |
Wang W, Donini O, Reyes CM, Kollman PA. Biomolecular simulations: recent developments in force fields, simulations of enzyme catalysis, protein-ligand, protein-protein, and protein-nucleic acid noncovalent interactions. Annual Review of Biophysics and Biomolecular Structure. 30: 211-43. PMID 11340059 DOI: 10.1146/Annurev.Biophys.30.1.211 |
0.611 |
|
| 2000 |
Kollman PA, Massova I, Reyes C, Kuhn B, Huo S, Chong L, Lee M, Lee T, Duan Y, Wang W, Donini O, Cieplak P, Srinivasan J, Case DA, Cheatham TE. Calculating structures and free energies of complex molecules: combining molecular mechanics and continuum models. Accounts of Chemical Research. 33: 889-97. PMID 11123888 DOI: 10.1021/Ar000033J |
0.731 |
|
| 2000 |
Wang W, Kollman PA. Free energy calculations on dimer stability of the HIV protease using molecular dynamics and a continuum solvent model. Journal of Molecular Biology. 303: 567-82. PMID 11054292 DOI: 10.1006/Jmbi.2000.4057 |
0.451 |
|
| 1999 |
Wang W, Wang J, Kollman PA. What determines the van der Waals coefficient beta in the LIE (linear interaction energy) method to estimate binding free energies using molecular dynamics simulations? Proteins. 34: 395-402. PMID 10024025 DOI: 10.1002/(Sici)1097-0134(19990215)34:3<395::Aid-Prot11>3.0.Co;2-4 |
0.453 |
|
| Show low-probability matches. |
