| Year |
Citation |
Score |
| 2024 |
Polonsky M, Gerhardt LMS, Yun J, Koppitch K, Colón KL, Amrhein H, Wold B, Zheng S, Yuan GC, Thomson M, Cai L, McMahon AP. Spatial transcriptomics defines injury specific microenvironments and cellular interactions in kidney regeneration and disease. Nature Communications. 15: 7010. PMID 39237549 DOI: 10.1038/s41467-024-51186-z |
0.406 |
|
| 2024 |
Loving R, Sullivan DK, Reese F, Rebboah E, Sakr J, Rezaie N, Liang HY, Filimban G, Kawauchi S, Oakes C, Trout D, Williams BA, MacGregor G, Wold BJ, Mortazavi A, et al. Long-read sequencing transcriptome quantification with lr-kallisto. Biorxiv : the Preprint Server For Biology. PMID 39071335 DOI: 10.1101/2024.07.19.604364 |
0.589 |
|
| 2024 |
Rebboah E, Rezaie N, Williams BA, Weimer AK, Shi M, Yang X, Liang HY, Dionne LA, Reese F, Trout D, Jou J, Youngworth I, Reinholdt L, Morabito S, Snyder MP, ... Wold BJ, et al. The ENCODE mouse postnatal developmental time course identifies regulatory programs of cell types and cell states. Biorxiv : the Preprint Server For Biology. PMID 38915583 DOI: 10.1101/2024.06.12.598567 |
0.619 |
|
| 2024 |
Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez Martinez JM, Hunt T, Lagarde J, Liang CE, ... ... Wold BJ, et al. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Nature Methods. PMID 38849569 DOI: 10.1038/s41592-024-02298-3 |
0.615 |
|
| 2024 |
Rezaie N, Rebboah E, Williams BA, Liang HY, Reese F, Balderrama-Gutierrez G, Dionne LA, Reinholdt L, Trout D, Wold BJ, Mortazavi A. Identification of robust cellular programs using reproducible LDA that impact sex-specific disease progression in different genotypes of a mouse model of AD. Biorxiv : the Preprint Server For Biology. PMID 38464087 DOI: 10.1101/2024.02.26.582178 |
0.607 |
|
| 2023 |
Zhang B, He P, Lawrence JEG, Wang S, Tuck E, Williams BA, Roberts K, Kleshchevnikov V, Mamanova L, Bolt L, Polanski K, Li T, Elmentaite R, Fasouli ES, Prete M, ... ... Wold BJ, et al. A human embryonic limb cell atlas resolved in space and time. Nature. PMID 38057666 DOI: 10.1038/s41586-023-06806-x |
0.498 |
|
| 2023 |
Moyers BA, Partridge EC, Mackiewicz M, Betti MJ, Darji R, Meadows SK, Newberry KM, Brandsmeier LA, Wold BJ, Mendenhall EM, Myers RM. Characterization of human transcription factor function and patterns of gene regulation in HepG2 cells. Genome Research. PMID 37852782 DOI: 10.1101/gr.278205.123 |
0.368 |
|
| 2023 |
Pardo-Palacios FJ, Wang D, Reese F, Diekhans M, Carbonell-Sala S, Williams B, Loveland JE, De María M, Adams MS, Balderrama-Gutierrez G, Behera AK, Gonzalez JM, Hunt T, Lagarde J, Liang CE, ... ... Wold BJ, et al. Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. Biorxiv : the Preprint Server For Biology. PMID 37546854 DOI: 10.1101/2023.07.25.550582 |
0.613 |
|
| 2023 |
Hitz B, Lee JW, Jolanki O, Kagda M, Graham K, Sud P, Gabdank I, Strattan JS, Sloan C, Dreszer T, Rowe L, Podduturi N, Malladi V, Chan E, Davidson J, ... ... Wold B, et al. The ENCODE Uniform Analysis Pipelines. Research Square. PMID 37503119 DOI: 10.21203/rs.3.rs-3111932/v1 |
0.57 |
|
| 2023 |
Reese F, Williams B, Balderrama-Gutierrez G, Wyman D, Çelik MH, Rebboah E, Rezaie N, Trout D, Razavi-Mohseni M, Jiang Y, Borsari B, Morabito S, Liang HY, McGill CJ, Rahmanian S, ... ... Wold BJ, et al. The ENCODE4 long-read RNA-seq collection reveals distinct classes of transcript structure diversity. Biorxiv : the Preprint Server For Biology. PMID 37292896 DOI: 10.1101/2023.05.15.540865 |
0.639 |
|
| 2023 |
Hitz BC, Lee JW, Jolanki O, Kagda MS, Graham K, Sud P, Gabdank I, Seth Strattan J, Sloan CA, Dreszer T, Rowe LD, Podduturi NR, Malladi VS, Chan ET, Davidson JM, ... ... Wold B, et al. The ENCODE Uniform Analysis Pipelines. Biorxiv : the Preprint Server For Biology. PMID 37066421 DOI: 10.1101/2023.04.04.535623 |
0.57 |
|
| 2023 |
Rozowsky J, Gao J, Borsari B, Yang YT, Galeev T, Gürsoy G, Epstein CB, Xiong K, Xu J, Li T, Liu J, Yu K, Berthel A, Chen Z, Navarro F, ... ... Wold B, et al. The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models. Cell. 186: 1493-1511.e40. PMID 37001506 DOI: 10.1016/j.cell.2023.02.018 |
0.575 |
|
| 2022 |
Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A, Kaul R, Halow J, Van Nostrand EL, Freese P, Gorkin DU, Shen Y, ... ... Wold B, et al. Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. PMID 35474001 DOI: 10.1038/s41586-021-04226-3 |
0.539 |
|
| 2021 |
Rebboah E, Reese F, Williams K, Balderrama-Gutierrez G, McGill C, Trout D, Rodriguez I, Liang H, Wold BJ, Mortazavi A. Mapping and modeling the genomic basis of differential RNA isoform expression at single-cell resolution with LR-Split-seq. Genome Biology. 22: 286. PMID 34620214 DOI: 10.1186/s13059-021-02505-w |
0.644 |
|
| 2020 |
Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, Davis CA, Dobin A, Kaul R, Halow J, Van Nostrand EL, Freese P, Gorkin DU, ... ... Wold B, et al. Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature. 583: 699-710. PMID 32728249 DOI: 10.1038/S41586-020-2493-4 |
0.655 |
|
| 2020 |
He P, Williams BA, Trout D, Marinov GK, Amrhein H, Berghella L, Goh ST, Plajzer-Frick I, Afzal V, Pennacchio LA, Dickel DE, Visel A, Ren B, Hardison RC, Zhang Y, ... Wold BJ, et al. The changing mouse embryo transcriptome at whole tissue and single-cell resolution. Nature. 583: 760-767. PMID 32728245 DOI: 10.1038/S41586-020-2536-X |
0.611 |
|
| 2020 |
Partridge EC, Chhetri SB, Prokop JW, Ramaker RC, Jansen CS, Goh ST, Mackiewicz M, Newberry KM, Brandsmeier LA, Meadows SK, Messer CL, Hardigan AA, Coppola CJ, Dean EC, Jiang S, ... ... Wold BJ, et al. Occupancy maps of 208 chromatin-associated proteins in one human cell type. Nature. 583: 720-728. PMID 32728244 DOI: 10.1038/S41586-020-2023-4 |
0.668 |
|
| 2020 |
Ramaker RC, Hardigan AA, Goh ST, Partridge EC, Wold B, Cooper SJ, Myers RM. Dissecting the regulatory activity and sequence content of loci with exceptional numbers of transcription factor associations. Genome Research. PMID 32616518 DOI: 10.1101/Gr.260463.119 |
0.428 |
|
| 2019 |
Rahmanian S, Murad R, Breschi A, Zeng W, Mackiewicz M, Williams B, Davis CA, Roberts B, Meadows S, Moore D, Trout D, Zaleski C, Dobin A, Sei LH, Drenkow J, ... ... Wold BJ, et al. Dynamics of microRNA expression during mouse prenatal development. Genome Research. PMID 31645363 DOI: 10.1101/Gr.248997.119 |
0.581 |
|
| 2019 |
Zhou W, Yui MA, Williams BA, Yun J, Wold BJ, Cai L, Rothenberg EV. Single-Cell Analysis Reveals Regulatory Gene Expression Dynamics Leading to Lineage Commitment in Early T Cell Development. Cell Systems. PMID 31629685 DOI: 10.1016/J.Cels.2019.09.008 |
0.395 |
|
| 2019 |
Wyman D, Balderrama-Gutierrez G, Reese F, Jiang S, Rahmanian S, Zeng W, Williams B, Trout D, England W, Chu S, Spitale RC, Tenner A, Wold B, Mortazavi A. A technology-agnostic long-read analysis pipeline for transcriptome discovery and quantification F1000research. 8. DOI: 10.7490/F1000Research.1117633.1 |
0.449 |
|
| 2018 |
Angeles-Albores D, Puckett Robinson C, Williams BA, Wold BJ, Sternberg PW. Reconstructing a metazoan genetic pathway with transcriptome-wide epistasis measurements. Proceedings of the National Academy of Sciences of the United States of America. PMID 29531064 DOI: 10.1073/Pnas.1712387115 |
0.581 |
|
| 2017 |
Regev A, Teichmann SA, Lander ES, Amit I, Benoist C, Birney E, Bodenmiller B, Campbell PJ, Carninci P, Clatworthy M, Clevers H, Deplancke B, Dunham I, Eberwine J, Eils R, ... ... Wold BJ, et al. Science Forum: The Human Cell Atlas. Elife. 6. PMID 29206104 DOI: 10.7554/Elife.27041 |
0.357 |
|
| 2016 |
Choi HM, Calvert CR, Husain N, Huss D, Barsi JC, Deverman BE, Hunter RC, Kato M, Lee SM, Abelin AC, Rosenthal AZ, Akbari OS, Li Y, Hay BA, Sternberg PW, ... ... Wold B, et al. Mapping a multiplexed zoo of mRNA expression. Development (Cambridge, England). 143: 3632-3637. PMID 27702788 DOI: 10.1242/Dev.140137 |
0.713 |
|
| 2015 |
Paten B, Diekhans M, Druker BJ, Friend S, Guinney J, Gassner N, Guttman M, James Kent W, Mantey P, Margolin AA, Massie M, Novak AM, Nothaft F, Pachter L, Patterson D, ... ... Wold B, et al. The NIH BD2K center for big data in translational genomics. Journal of the American Medical Informatics Association : Jamia. PMID 26174866 DOI: 10.1093/Jamia/Ocv047 |
0.308 |
|
| 2015 |
Marinov GK, Wang J, Handler D, Wold BJ, Weng Z, Hannon GJ, Aravin AA, Zamore PD, Brennecke J, Toth KF. Pitfalls of mapping high-throughput sequencing data to repetitive sequences: Piwi's genomic targets still not identified. Developmental Cell. 32: 765-71. PMID 25805138 DOI: 10.1016/J.Devcel.2015.01.013 |
0.375 |
|
| 2015 |
Kim DH, Marinov GK, Pepke S, Singer ZS, He P, Williams B, Schroth GP, Elowitz MB, Wold BJ. Single-cell transcriptome analysis reveals dynamic changes in lncRNA expression during reprogramming. Cell Stem Cell. 16: 88-101. PMID 25575081 DOI: 10.1016/J.Stem.2014.11.005 |
0.576 |
|
| 2014 |
Abelin AC, Marinov GK, Williams BA, McCue K, Wold BJ. A ratiometric-based measure of gene co-expression. Bmc Bioinformatics. 15: 331. PMID 25411051 DOI: 10.1186/1471-2105-15-331 |
0.764 |
|
| 2014 |
Yue F, Cheng Y, Breschi A, Vierstra J, Wu W, Ryba T, Sandstrom R, Ma Z, Davis C, Pope BD, Shen Y, Pervouchine DD, Djebali S, Thurman RE, Kaul R, ... ... Wold B, et al. A comparative encyclopedia of DNA elements in the mouse genome. Nature. 515: 355-64. PMID 25409824 DOI: 10.1038/Nature13992 |
0.667 |
|
| 2014 |
Gasper WC, Marinov GK, Pauli-Behn F, Scott MT, Newberry K, DeSalvo G, Ou S, Myers RM, Vielmetter J, Wold BJ. Fully automated high-throughput chromatin immunoprecipitation for ChIP-seq: identifying ChIP-quality p300 monoclonal antibodies. Scientific Reports. 4: 5152. PMID 24919486 DOI: 10.1038/Srep05152 |
0.378 |
|
| 2014 |
Kellis M, Wold B, Snyder MP, Bernstein BE, Kundaje A, Marinov GK, Ward LD, Birney E, Crawford GE, Dekker J, Dunham I, Elnitski LL, Farnham PJ, Feingold EA, Gerstein M, et al. Defining functional DNA elements in the human genome. Proceedings of the National Academy of Sciences of the United States of America. 111: 6131-8. PMID 24753594 DOI: 10.1073/Pnas.1318948111 |
0.404 |
|
| 2014 |
Marinov GK, Wang YE, Chan D, Wold BJ. Evidence for site-specific occupancy of the mitochondrial genome by nuclear transcription factors. Plos One. 9: e84713. PMID 24465428 DOI: 10.1371/Journal.Pone.0084713 |
0.347 |
|
| 2014 |
Marinov GK, Kundaje A, Park PJ, Wold BJ. Large-scale quality analysis of published ChIP-seq data. G3 (Bethesda, Md.). 4: 209-23. PMID 24347632 DOI: 10.1534/G3.113.008680 |
0.335 |
|
| 2014 |
Marinov GK, Williams BA, McCue K, Schroth GP, Gertz J, Myers RM, Wold BJ. From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing. Genome Research. 24: 496-510. PMID 24299736 DOI: 10.1101/Gr.161034.113 |
0.451 |
|
| 2013 |
Mortazavi A, Pepke S, Jansen C, Marinov GK, Ernst J, Kellis M, Hardison RC, Myers RM, Wold BJ. Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps. Genome Research. 23: 2136-48. PMID 24170599 DOI: 10.1101/Gr.158261.113 |
0.639 |
|
| 2013 |
Wang YE, Marinov GK, Wold BJ, Chan DC. Genome-wide analysis reveals coating of the mitochondrial genome by TFAM. Plos One. 8: e74513. PMID 23991223 DOI: 10.1371/Journal.Pone.0074513 |
0.38 |
|
| 2013 |
Henley BM, Williams BA, Srinivasan R, Cohen BN, Xiao C, Mackey ED, Wold BJ, Lester HA. Transcriptional regulation by nicotine in dopaminergic neurons. Biochemical Pharmacology. 86: 1074-83. PMID 23939186 DOI: 10.1016/J.Bcp.2013.07.031 |
0.321 |
|
| 2013 |
Varley KE, Gertz J, Bowling KM, Parker SL, Reddy TE, Pauli-Behn F, Cross MK, Williams BA, Stamatoyannopoulos JA, Crawford GE, Absher DM, Wold BJ, Myers RM. Dynamic DNA methylation across diverse human cell lines and tissues. Genome Research. 23: 555-67. PMID 23325432 DOI: 10.1101/Gr.147942.112 |
0.384 |
|
| 2012 |
Raskatov JA, Nickols NG, Hargrove AE, Marinov GK, Wold B, Dervan PB. Gene expression changes in a tumor xenograft by a pyrrole-imidazole polyamide. Proceedings of the National Academy of Sciences of the United States of America. 109: 16041-5. PMID 22988074 DOI: 10.1073/Pnas.1214267109 |
0.414 |
|
| 2012 |
Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, ... ... Wold BJ, et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Research. 22: 1813-31. PMID 22955991 DOI: 10.1101/Gr.136184.111 |
0.353 |
|
| 2012 |
Park E, Williams B, Wold BJ, Mortazavi A. RNA editing in the human ENCODE RNA-seq data. Genome Research. 22: 1626-33. PMID 22955975 DOI: 10.1101/Gr.134957.111 |
0.641 |
|
| 2012 |
Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, Mortazavi A, Tanzer A, Lagarde J, Lin W, Schlesinger F, Xue C, Marinov GK, Khatun J, Williams BA, Zaleski C, ... ... Wold B, et al. Landscape of transcription in human cells. Nature. 489: 101-8. PMID 22955620 DOI: 10.1038/Nature11233 |
0.653 |
|
| 2012 |
Stamatoyannopoulos JA, Snyder M, Hardison R, Ren B, Gingeras T, Gilbert DM, Groudine M, Bender M, Kaul R, Canfield T, Giste E, Johnson A, Zhang M, Balasundaram G, ... ... Wold BJ, et al. An encyclopedia of mouse DNA elements (Mouse ENCODE). Genome Biology. 13: 418. PMID 22889292 DOI: 10.1186/Gb-2012-13-8-418 |
0.61 |
|
| 2012 |
Kuntz SG, Williams BA, Sternberg PW, Wold BJ. Transcription factor redundancy and tissue-specific regulation: evidence from functional and physical network connectivity. Genome Research. 22: 1907-19. PMID 22730465 DOI: 10.1101/Gr.133306.111 |
0.791 |
|
| 2012 |
Chen Y, Negre N, Li Q, Mieczkowska JO, Slattery M, Liu T, Zhang Y, Kim TK, He HH, Zieba J, Ruan Y, Bickel PJ, Myers RM, Wold BJ, White KP, et al. Systematic evaluation of factors influencing ChIP-seq fidelity. Nature Methods. 9: 609-14. PMID 22522655 DOI: 10.1038/Nmeth.1985 |
0.369 |
|
| 2012 |
Zhang JA, Mortazavi A, Williams BA, Wold BJ, Rothenberg EV. Dynamic transformations of genome-wide epigenetic marking and transcriptional control establish T cell identity. Cell. 149: 467-82. PMID 22500808 DOI: 10.1016/J.Cell.2012.01.056 |
0.642 |
|
| 2012 |
Reddy TE, Gertz J, Pauli F, Kucera KS, Varley KE, Newberry KM, Marinov GK, Mortazavi A, Williams BA, Song L, Crawford GE, Wold B, Willard HF, Myers RM. Effects of sequence variation on differential allelic transcription factor occupancy and gene expression. Genome Research. 22: 860-9. PMID 22300769 DOI: 10.1101/Gr.131201.111 |
0.659 |
|
| 2012 |
Li G, Ruan X, Auerbach RK, Sandhu KS, Zheng M, Wang P, Poh HM, Goh Y, Lim J, Zhang J, Sim HS, Peh SQ, Mulawadi FH, Ong CT, Orlov YL, ... ... Wold B, et al. Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell. 148: 84-98. PMID 22265404 DOI: 10.1016/J.Cell.2011.12.014 |
0.641 |
|
| 2011 |
Tai PW, Fisher-Aylor KI, Himeda CL, Smith CL, Mackenzie AP, Helterline DL, Angello JC, Welikson RE, Wold BJ, Hauschka SD. Differentiation and fiber type-specific activity of a muscle creatine kinase intronic enhancer. Skeletal Muscle. 1: 25. PMID 21797989 DOI: 10.1186/2044-5040-1-25 |
0.359 |
|
| 2011 |
Ozdemir A, Fisher-Aylor KI, Pepke S, Samanta M, Dunipace L, McCue K, Zeng L, Ogawa N, Wold BJ, Stathopoulos A. High resolution mapping of Twist to DNA in Drosophila embryos: Efficient functional analysis and evolutionary conservation. Genome Research. 21: 566-77. PMID 21383317 DOI: 10.1101/Gr.104018.109 |
0.408 |
|
| 2010 |
Mortazavi A, Schwarz EM, Williams B, Schaeffer L, Antoshechkin I, Wold BJ, Sternberg PW. Scaffolding a Caenorhabditis nematode genome with RNA-seq. Genome Research. 20: 1740-7. PMID 20980554 DOI: 10.1101/Gr.111021.110 |
0.694 |
|
| 2010 |
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature Biotechnology. 28: 511-5. PMID 20436464 DOI: 10.1038/Nbt.1621 |
0.69 |
|
| 2010 |
Abril J, Kokocinski F, Steijger T, Williams G, Salmon M, Mortazavi A, Raetsch G, Gerstein M, Reymond A, Gingeras T, Wold B, Guigó R, Hubbard T, Harrow J. RGASP: assessment of gene-finding tools in the high-throughput era F1000research. 1. DOI: 10.7490/F1000Research.272.1 |
0.591 |
|
| 2009 |
Pepke S, Wold B, Mortazavi A. Computation for ChIP-seq and RNA-seq studies Nature Methods. 6: S22-32. PMID 19844228 DOI: 10.1038/Nmeth.1371 |
0.642 |
|
| 2009 |
Williams B, Mortazavil A, Kirilusha A, Fisher K, Marinov G, DeSalvo G, McCue K, Wold B. 18-P012 The muscle gene regulatory network Mechanisms of Development. 126: S288. DOI: 10.1016/J.Mod.2009.06.779 |
0.314 |
|
| 2008 |
Kuntz SG, Schwarz EM, DeModena JA, De Buysscher T, Trout D, Shizuya H, Sternberg PW, Wold BJ. Multigenome DNA sequence conservation identifies Hox cis-regulatory elements. Genome Research. 18: 1955-68. PMID 18981268 DOI: 10.1101/Gr.085472.108 |
0.782 |
|
| 2008 |
Berghella L, De Angelis L, De Buysscher T, Mortazavi A, Biressi S, Forcales SV, Sirabella D, Cossu G, Wold BJ. A highly conserved molecular switch binds MSY-3 to regulate myogenin repression in postnatal muscle. Genes & Development. 22: 2125-38. PMID 18676817 DOI: 10.1101/Gad.468508 |
0.636 |
|
| 2008 |
Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nature Methods. 5: 621-8. PMID 18516045 DOI: 10.1038/Nmeth.1226 |
0.675 |
|
| 2007 |
Wold B, Myers RM. Sequence census methods for functional genomics. Nature Methods. 5: 19-21. PMID 18165803 DOI: 10.1038/Nmeth1157 |
0.314 |
|
| 2007 |
Johnson DS, Mortazavi A, Myers RM, Wold B. Genome-wide mapping of in vivo protein-DNA interactions. Science (New York, N.Y.). 316: 1497-502. PMID 17540862 DOI: 10.1126/Science.1141319 |
0.65 |
|
| 2006 |
Hart CE, Mjolsness E, Wold BJ. Connectivity in the yeast cell cycle transcription network: inferences from neural networks. Plos Computational Biology. 2: e169. PMID 17194216 DOI: 10.1371/Journal.Pcbi.0020169 |
0.6 |
|
| 2006 |
Mortazavi A, Leeper Thompson EC, Garcia ST, Myers RM, Wold B. Comparative genomics modeling of the NRSF/REST repressor network: from single conserved sites to genome-wide repertoire. Genome Research. 16: 1208-21. PMID 16963704 DOI: 10.1101/Gr.4997306 |
0.643 |
|
| 2006 |
Williams BA, Gwirtz RM, Wold BJ. Genomic DNA as a general cohybridization standard for ratiometric microarrays. Methods in Enzymology. 410: 237-79. PMID 16938555 DOI: 10.1016/S0076-6879(06)10012-9 |
0.381 |
|
| 2006 |
Teal TK, Lies DP, Wold BJ, Newman DK. Spatiometabolic stratification of Shewanella oneidensis biofilms. Applied and Environmental Microbiology. 72: 7324-30. PMID 16936048 DOI: 10.1128/Aem.01163-06 |
0.692 |
|
| 2006 |
Roden JC, King BW, Trout D, Mortazavi A, Wold BJ, Hart CE. Mining gene expression data by interpreting principal components. Bmc Bioinformatics. 7: 194. PMID 16600052 DOI: 10.1186/1471-2105-7-194 |
0.722 |
|
| 2005 |
Hart CE, Sharenbroich L, Bornstein BJ, Trout D, King B, Mjolsness E, Wold BJ. A mathematical and computational framework for quantitative comparison and integration of large-scale gene expression data. Nucleic Acids Research. 33: 2580-94. PMID 15886390 DOI: 10.1093/Nar/Gki536 |
0.588 |
|
| 2005 |
Li L, Roden J, Shapiro BE, Wold BJ, Bhatia S, Forman SJ, Bhatia R. Reproducibility, fidelity, and discriminant validity of mRNA amplification for microarray analysis from primary hematopoietic cells. The Journal of Molecular Diagnostics : Jmd. 7: 48-56. PMID 15681474 DOI: 10.1016/S1525-1578(10)60008-6 |
0.429 |
|
| 2004 |
Williams BA, Gwirtz RM, Wold BJ. Genomic DNA as a cohybridization standard for mammalian microarray measurements. Nucleic Acids Research. 32: e81. PMID 15190126 DOI: 10.1093/Nar/Gnh078 |
0.426 |
|
| 2003 |
Wang R, Scharenbroich L, Hart C, Wold B, Mjolsness E. Clustering analysis of microarray gene expression data by splitting algorithm Journal of Parallel and Distributed Computing. 63: 692-706. DOI: 10.1016/S0743-7315(03)00085-6 |
0.56 |
|
| 2002 |
Thompson HG, Harris JW, Wold BJ, Quake SR, Brody JP. Identification and confirmation of a module of coexpressed genes. Genome Research. 12: 1517-22. PMID 12368243 DOI: 10.1101/Gr.418402 |
0.339 |
|
| 2002 |
Brown CT, Rust AG, Clarke PJ, Pan Z, Schilstra MJ, De Buysscher T, Griffin G, Wold BJ, Cameron RA, Davidson EH, Bolouri H. New computational approaches for analysis of cis-regulatory networks. Developmental Biology. 246: 86-102. PMID 12027436 DOI: 10.1006/Dbio.2002.0619 |
0.519 |
|
| 2001 |
Mueller PR, Wold B, Garrity PA. Ligation-mediated PCR for genomic sequencing and footprinting. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. Unit 15.3. PMID 18265117 DOI: 10.1002/0471142727.Mb1503S56 |
0.668 |
|
| 2001 |
Csete M, Walikonis J, Slawny N, Wei Y, Korsnes S, Doyle JC, Wold B. Oxygen-mediated regulation of skeletal muscle satellite cell proliferation and adipogenesis in culture Journal of Cellular Physiology. 189: 189-196. PMID 11598904 DOI: 10.1002/Jcp.10016 |
0.611 |
|
| 2000 |
Jeong Kyo Yoon, Wold B. The bHLH regulator pMesogenin1 is required for maturation and segmentation of paraxial mesoderm Genes and Development. 14: 3204-3214. PMID 11124811 DOI: 10.1101/Gad.850000 |
0.362 |
|
| 2000 |
Studer L, Csete M, Lee SH, Kabbani N, Walikonis J, Wold B, McKay R. Enhanced proliferation, survival, and dopaminergic differentiation of CNS precursors in lowered oxygen. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 20: 7377-83. PMID 11007896 DOI: 10.1523/Jneurosci.20-19-07377.2000 |
0.581 |
|
| 2000 |
Cornelison DD, Olwin BB, Rudnicki MA, Wold BJ. MyoD(-/-) satellite cells in single-fiber culture are differentiation defective and MRF4 deficient. Developmental Biology. 224: 122-37. PMID 10926754 DOI: 10.1006/Dbio.2000.9682 |
0.791 |
|
| 2000 |
Yoon JK, Moon RT, Wold B. The bHLH class protein pMesogeninl can specify paraxial mesoderm phenotypes Developmental Biology. 222: 376-391. PMID 10837126 DOI: 10.1006/Dbio.2000.9717 |
0.443 |
|
| 2000 |
Morrison SJ, Csete M, Groves AK, Melega W, Wold B, Anderson DJ. Culture in Reduced Levels of Oxygen Promotes Clonogenic Sympathoadrenal Differentiation by Isolated Neural Crest Stem Cells The Journal of Neuroscience. 20: 7370-7376. DOI: 10.1523/Jneurosci.20-19-07370.2000 |
0.647 |
|
| 2000 |
Csete M, Walikonis J, Korsnes S, Wold B. Room 310, 10/18/2000 2: 00 PM - 3: 30 PM (PD) Oxygen in Culture Influences Phenotype of Stem Cells: The Choice between Skeletal Muscle and Fat Anesthesiology. 93: A-514. DOI: 10.1097/00000542-200009001-00514 |
0.578 |
|
| 1997 |
Cornelison DD, Wold BJ. Single-cell analysis of regulatory gene expression in quiescent and activated mouse skeletal muscle satellite cells. Developmental Biology. 191: 270-83. PMID 9398440 DOI: 10.1006/Dbio.1997.8721 |
0.733 |
|
| 1997 |
Yoon JK, Olson EN, Arnold HH, Wold BJ. Different MRF4 knockout alleles differentially disrupt Myf-5 expression: cis-regulatory interactions at the MRF4/Myf-5 locus. Developmental Biology. 188: 349-62. PMID 9268580 DOI: 10.1006/Dbio.1997.8670 |
0.386 |
|
| 1997 |
Mueller PR, Garrity PA, Wold BJ. Method of preparing nucleic acids having an undefined nucleotide sequence amplification Biotechnology Advances. 15: 726-727. |
0.582 |
|
| 1996 |
Yun K, Wold B. Skeletal muscle determination and differentiation: Story of a core regulatory network and its context Current Opinion in Cell Biology. 8: 877-889. PMID 8939680 DOI: 10.1016/S0955-0674(96)80091-3 |
0.33 |
|
| 1996 |
Olson EN, Arnold HH, Rigby PW, Wold BJ. Know your neighbors: three phenotypes in null mutants of the myogenic bHLH gene MRF4. Cell. 85: 1-4. PMID 8620528 DOI: 10.1016/S0092-8674(00)81073-9 |
0.427 |
|
| 1995 |
Jiang P, Stone S, Wagner R, Wang S, Dayananth P, Kozak CA, Wold B, Kamb A. Comparative analysis of Homo sapiens and Mus musculus cyclin-dependent kinase (CDK) inhibitor genes P16 (MTS1) and P15 (MTS2) Journal of Molecular Evolution. 41: 795-802. PMID 8587124 DOI: 10.1007/Bf00173159 |
0.32 |
|
| 1995 |
Patapoutian A, Wold BJ, Wagner RA. Evidence for developmentally programmed transdifferentiation in mouse esophageal muscle. Science (New York, N.Y.). 270: 1818-21. PMID 8525375 DOI: 10.1126/Science.270.5243.1818 |
0.581 |
|
| 1995 |
Patapoutian A, Yoon JK, Miner JH, Wang S, Stark K, Wold B. Disruption of the mouse MRF4 gene identifies multiple waves of myogenesis in the myotome. Development (Cambridge, England). 121: 3347-58. PMID 7588068 |
0.678 |
|
| 1994 |
Garrity PA, Chen D, Rothenberg EV, Wold BJ. Interleukin-2 transcription is regulated in vivo at the level of coordinated binding of both constitutive and regulated factors. Molecular and Cellular Biology. 14: 2159-69. PMID 8114746 DOI: 10.1128/Mcb.14.3.2159 |
0.651 |
|
| 1994 |
Tavtigian SV, Zabludoff SD, Wold BJ. Cloning of mid-G1 serum response genes and identification of a subset regulated by conditional myc expression. Molecular Biology of the Cell. 5: 375-88. PMID 8049528 |
0.558 |
|
| 1993 |
Patapoutian A, Miner JH, Lyons GE, Wold B. Isolated sequences from the linked Myf-5 and MRF4 genes drive distinct patterns of muscle-specific expression in transgenic mice. Development (Cambridge, England). 118: 61-9. PMID 8375340 |
0.711 |
|
| 1993 |
Neuhold LA, Wold B. HLH forced dimers: Tethering MyoD to E47 generates a dominant positive myogenic factor insulated from negative regulation by Id Cell. 74: 1033-1042. PMID 7691411 DOI: 10.1016/0092-8674(93)90725-6 |
0.325 |
|
| 1993 |
Bond VC, Wold B. Nucleolar localization of myc transcripts Molecular and Cellular Biology. 13: 3221-3230. PMID 7684491 DOI: 10.1128/Mcb.13.6.3221 |
0.382 |
|
| 1992 |
Garrity PA, Wold BJ. Effects of different DNA polymerases in ligation-mediated PCR: enhanced genomic sequencing and in vivo footprinting. Proceedings of the National Academy of Sciences of the United States of America. 89: 1021-5. PMID 1736283 DOI: 10.1073/Pnas.89.3.1021 |
0.645 |
|
| 1992 |
Maher LJ, Dervan PB, Wold B. Analysis of promoter-specific repression by triple-helical DNA complexes in a eukaryotic cell-free transcription system. Biochemistry. 31: 70-81. PMID 1731886 DOI: 10.1021/Bi00116A012 |
0.342 |
|
| 1992 |
Miner JH, Miller JB, Wold BJ. Skeletal muscle phenotypes initiated by ectopic MyoD in transgenic mouse heart. Development (Cambridge, England). 114: 853-60. PMID 1618148 |
0.537 |
|
| 1992 |
Wigler M, Sweet R, Sim GK, Wold B, Pellicer A, Lacy E, Maniatis T, Silverstein S, Axel R. Transformation of mammalian cells with genes from prokaryotes and eukaryotes. 1979. Biotechnology (Reading, Mass.). 24: 444-52. PMID 1422052 |
0.657 |
|
| 1991 |
Miner JH, Wold BJ. c-myc inhibition of MyoD and myogenin-initiated myogenic differentiation. Molecular and Cellular Biology. 11: 2842-51. PMID 1850105 DOI: 10.1128/Mcb.11.5.2842 |
0.554 |
|
| 1991 |
Maher LJ, Wold B, Dervan PB. Oligonucleotide-directed DNA triple-helix formation: an approach to artificial repressors? Antisense Research and Development. 1: 277-81. PMID 1821648 DOI: 10.1089/Ard.1991.1.277 |
0.315 |
|
| 1991 |
Mueller PR, Wold B. Ligation-mediated PCR: Applications to genomic footprinting Methods. 2: 20-31. DOI: 10.1016/S1046-2023(05)80122-7 |
0.392 |
|
| 1990 |
Miner JH, Wold B. Herculin, a fourth member of the MyoD family of myogenic regulatory genes Proceedings of the National Academy of Sciences of the United States of America. 87: 1089-1093. PMID 2300571 DOI: 10.1073/Pnas.87.3.1089 |
0.603 |
|
| 1990 |
Garrity PA, Wold BJ. Tissue-specific expression from a compound TATA-dependent and TATA-independent promoter. Molecular and Cellular Biology. 10: 5646-54. PMID 2233709 DOI: 10.1128/Mcb.10.11.5646 |
0.689 |
|
| 1989 |
Pfeifer GP, Steigerwald SD, Mueller PR, Wold B, Riggs AD. Genomic sequencing and methylation analysis by ligation mediated PCR Science. 246: 810-813. PMID 2814502 DOI: 10.1126/Science.2814502 |
0.347 |
|
| 1989 |
Mueller PR, Wold B. In vivo footprinting of a muscle specific enhancer by ligation mediated PCR Science. 246: 780-786. PMID 2814500 DOI: 10.1126/Science.2814500 |
0.422 |
|
| 1989 |
Johnson JE, Wold BJ, Hauschka SD. Muscle creatine kinase sequence elements regulating skeletal and cardiac muscle expression in transgenic mice. Molecular and Cellular Biology. 9: 3393-9. PMID 2796990 DOI: 10.1128/Mcb.9.8.3393 |
0.457 |
|
| 1989 |
Maher LJ, Wold B, Dervan PB. Inhibition of DNA binding proteins by oligonucleotide-directed triple helix formation. Science (New York, N.Y.). 245: 725-30. PMID 2549631 DOI: 10.1126/Science.2549631 |
0.359 |
|
| 1988 |
Preugschat F, Wold B. Isolation and chracterization of a Xenopus laevis C protein cDNA: Structure and expression of a heterogeneous nuclear ribonucleoprotein core protein Proceedings of the National Academy of Sciences of the United States of America. 85: 9669-9673. PMID 2904678 DOI: 10.1073/Pnas.85.24.9669 |
0.347 |
|
| 1987 |
Bond VC, Wold B. Poly-L-ornithine-mediated transformation of mammalian cells Molecular and Cellular Biology. 7: 2286-2293. PMID 3600662 DOI: 10.1128/Mcb.7.6.2286 |
0.392 |
|
| 1987 |
Ngai J, Bond VC, Wold BJ, Lazarides E. Expression of transfected vimentin genes in differentiating murine erythroleukemia cells reveals divergent cis-acting regulation of avian and mammalian vimentin sequences. Molecular and Cellular Biology. 7: 3955-70. PMID 3481037 DOI: 10.1128/Mcb.7.11.3955 |
0.648 |
|
| 1986 |
Nakagawa TY, Swanson MS, Wold BJ, Dreyfuss G. Molecular cloning of cDNA for the nuclear ribonucleoprotein particle C proteins: a conserved gene family. Proceedings of the National Academy of Sciences of the United States of America. 83: 2007-11. PMID 3457372 DOI: 10.1073/Pnas.83.7.2007 |
0.373 |
|
| 1985 |
Moon RT, Ngai J, Wold BJ, Lazarides E. Tissue-specific expression of distinct spectrin and ankyrin transcripts in erythroid and nonerythroid cells. The Journal of Cell Biology. 100: 152-60. PMID 2981230 DOI: 10.1083/Jcb.100.1.152 |
0.643 |
|
| 1985 |
Kim SK, Wold BJ. Stable reduction of thymidine kinase activity in cells expressing high levels of anti-sense RNA. Cell. 42: 129-38. PMID 2410135 DOI: 10.1016/S0092-8674(85)80108-2 |
0.357 |
|
| 1980 |
Pellicer A, Robins D, Wold B, Sweet R, Jackson J, Lowy I, Roberts JM, Sim GK, Silverstein S, Axel R. Altering genotype and phenotype by DNA-mediated gene transfer. Science (New York, N.Y.). 209: 1414-22. PMID 7414320 DOI: 10.1126/Science.7414320 |
0.54 |
|
| 1979 |
Wold B, Wigler M, Lacy E, Maniatis T, Silverstein S, Axel R. Introduction and expression of a rabbit beta-globin gene in mouse fibroblasts. Proceedings of the National Academy of Sciences of the United States of America. 76: 5684-8. PMID 293672 DOI: 10.1073/pnas.76.11.5684 |
0.706 |
|
| 1979 |
Wigler M, Sweet R, Sim GK, Wold B, Pellicer A, Lacy E, Maniatis T, Silverstein S, Axel R. Transformation of mammalian cells with genes from procaryotes and eucaryotes. Cell. 16: 777-85. PMID 222468 DOI: 10.1016/0092-8674(79)90093-X |
0.672 |
|
| 1978 |
Wold BJ, Klein WH, Hough-Evans BR, Britten RJ, Davidson EH. Sea urchin embryo mRNA sequences expressed in the nuclear RNA of adult tissues. Cell. 14: 941-50. PMID 688400 DOI: 10.1016/0092-8674(78)90348-3 |
0.568 |
|
| 1977 |
Hough-Evans BR, Wold BJ, Ernst SG, Britten RJ, Davidson EH. Appearance and persistence of maternal RNA sequences in sea urchin development. Developmental Biology. 60: 258-77. PMID 561725 DOI: 10.1016/0012-1606(77)90123-3 |
0.749 |
|
| 1976 |
Galau GA, Klein WH, Davis MM, Wold BJ, Britten RJ, Davidson EH. Structural gene sets active in embryos and adult tissues of the sea urchin. Cell. 7: 487-505. PMID 986248 DOI: 10.1016/0092-8674(76)90200-2 |
0.565 |
|
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