Yutao Fu, Ph.D. - Publications

2008 Boston University, Boston, MA, United States 
Bioinformatics Biology

25 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
2021 Jones W, Gong B, Novoradovskaya N, Li D, Kusko R, Richmond TA, Johann DJ, Bisgin H, Sahraeian SME, Bushel PR, Pirooznia M, Wilkins K, Chierici M, Bao W, Basehore LS, ... ... Fu Y, et al. A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency. Genome Biology. 22: 111. PMID 33863366 DOI: 10.1186/s13059-021-02316-z  0.32
2016 Zook JM, Catoe D, McDaniel J, Vang L, Spies N, Sidow A, Weng Z, Liu Y, Mason CE, Alexander N, Henaff E, McIntyre AB, Chandramohan D, Chen F, Jaeger E, ... ... Fu Y, et al. Extensive sequencing of seven human genomes to characterize benchmark reference materials. Scientific Data. 3: 160025. PMID 27271295 DOI: 10.1038/Sdata.2016.25  0.4
2011 Jiao X, Rosenlund M, Hooper SD, Tellgren-Roth C, He L, Fu Y, Mangion J, Sjöblom T. Structural alterations from multiple displacement amplification of a human genome revealed by mate-pair sequencing. Plos One. 6: e22250. PMID 21799804 DOI: 10.1371/Journal.Pone.0022250  0.4
2011 Rothberg JM, Hinz W, Rearick TM, Schultz J, Mileski W, Davey M, Leamon JH, Johnson K, Milgrew MJ, Edwards M, Hoon J, Simons JF, Marran D, Myers JW, Davidson JF, ... ... Fu Y, et al. An integrated semiconductor device enabling non-optical genome sequencing. Nature. 475: 348-52. PMID 21776081 DOI: 10.1038/Nature10242  0.4
2011 Jee J, Rozowsky J, Yip KY, Lochovsky L, Bjornson R, Zhong G, Zhang Z, Fu Y, Wang J, Weng Z, Gerstein M. ACT: aggregation and correlation toolbox for analyses of genome tracks. Bioinformatics (Oxford, England). 27: 1152-4. PMID 21349863 DOI: 10.1093/Bioinformatics/Btr092  0.4
2011 Mills RE, Walter K, Stewart C, Handsaker RE, Chen K, Alkan C, Abyzov A, Yoon SC, Ye K, Cheetham RK, Chinwalla A, Conrad DF, Fu Y, Grubert F, Hajirasouliha I, et al. Mapping copy number variation by population-scale genome sequencing. Nature. 470: 59-65. PMID 21293372 DOI: 10.1038/Nature09708  0.4
2010 Edwards JR, O'Donnell AH, Rollins RA, Peckham HE, Lee C, Milekic MH, Chanrion B, Fu Y, Su T, Hibshoosh H, Gingrich JA, Haghighi F, Nutter R, Bestor TH. Chromatin and sequence features that define the fine and gross structure of genomic methylation patterns. Genome Research. 20: 972-80. PMID 20488932 DOI: 10.1101/Gr.101535.109  0.4
2009 McKernan KJ, Peckham HE, Costa GL, McLaughlin SF, Fu Y, Tsung EF, Clouser CR, Duncan C, Ichikawa JK, Lee CC, Zhang Z, Ranade SS, Dimalanta ET, Hyland FC, Sokolsky TD, et al. Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding. Genome Research. 19: 1527-41. PMID 19546169 DOI: 10.1101/Gr.091868.109  0.4
2009 Yu L, Coelho JE, Zhang X, Fu Y, Tillman A, Karaoz U, Fredholm BB, Weng Z, Chen JF. Uncovering multiple molecular targets for caffeine using a drug target validation strategy combining A 2A receptor knockout mice with microarray profiling. Physiological Genomics. 37: 199-210. PMID 19258493 DOI: 10.1152/Physiolgenomics.90353.2008  0.4
2008 Fu Y, Sinha M, Peterson CL, Weng Z. The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome. Plos Genetics. 4: e1000138. PMID 18654629 DOI: 10.1371/Journal.Pgen.1000138  0.4
2008 Johnson DS, Li W, Gordon DB, Bhattacharjee A, Curry B, Ghosh J, Brizuela L, Carroll JS, Brown M, Flicek P, Koch CM, Dunham I, Bieda M, Xu X, Farnham PJ, ... ... Fu Y, et al. Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets. Genome Research. 18: 393-403. PMID 18258921 DOI: 10.1101/Gr.7080508  0.4
2007 Xi H, Shulha HP, Lin JM, Vales TR, Fu Y, Bodine DM, McKay RD, Chenoweth JG, Tesar PJ, Furey TS, Ren B, Weng Z, Crawford GE. Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. Plos Genetics. 3: e136. PMID 17708682 DOI: 10.1371/Journal.Pgen.0030136  0.4
2007 Peckham HE, Thurman RE, Fu Y, Stamatoyannopoulos JA, Noble WS, Struhl K, Weng Z. Nucleosome positioning signals in genomic DNA. Genome Research. 17: 1170-7. PMID 17620451 DOI: 10.1101/Gr.6101007  0.4
2007 Lin JM, Collins PJ, Trinklein ND, Fu Y, Xi H, Myers RM, Weng Z. Transcription factor binding and modified histones in human bidirectional promoters. Genome Research. 17: 818-27. PMID 17568000 DOI: 10.1101/Gr.5623407  0.4
2007 Xi H, Yu Y, Fu Y, Foley J, Halees A, Weng Z. Analysis of overrepresented motifs in human core promoters reveals dual regulatory roles of YY1. Genome Research. 17: 798-806. PMID 17567998 DOI: 10.1101/Gr.5754707  0.4
2007 Zhang ZD, Paccanaro A, Fu Y, Weissman S, Weng Z, Chang J, Snyder M, Gerstein MB. Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions. Genome Research. 17: 787-97. PMID 17567997 DOI: 10.1101/Gr.5573107  0.4
2007 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  0.4
2006 Zeller KI, Zhao X, Lee CWH, Kuo PC, Yao F, Yustein JT, Hong SO, Orlov YL, Shahab A, How CY, Fu Y, Weng Z, Kuznetsov VA, Sung WK, Ruan Y, et al. Global mapping of c-Myc binding sites and target gene networks in human B cells Proceedings of the National Academy of Sciences of the United States of America. 103: 17834-17839. PMID 17093053 DOI: 10.1073/Pnas.0604129103  0.4
2006 Wei CL, Wu Q, Vega VB, Chiu KP, Ng P, Zhang T, Shahab A, Yong HC, Fu Y, Weng Z, Liu J, Zhao XD, Chew JL, Lee YL, Kuznetsov VA, et al. A global map of p53 transcription-factor binding sites in the human genome. Cell. 124: 207-19. PMID 16413492 DOI: 10.1016/J.Cell.2005.10.043  0.4
2005 Fu Y, Weng Z. Improvement of TRANSFAC matrices using multiple local alignment of transcription factor binding site sequences. Genome Informatics. International Conference On Genome Informatics. 16: 68-72. PMID 16362908 DOI: 10.11234/Gi1990.16.68  0.4
2005 Tompa M, Li N, Bailey TL, Church GM, De Moor B, Eskin E, Favorov AV, Frith MC, Fu Y, Kent WJ, Makeev VJ, Mironov AA, Noble WS, Pavesi G, Pesole G, et al. Assessing computational tools for the discovery of transcription factor binding sites. Nature Biotechnology. 23: 137-44. PMID 15637633 DOI: 10.1038/Nbt1053  0.4
2004 Wu CJ, Fu Y, Murali TM, Kasif S. Gene expression module discovery using gibbs sampling. Genome Informatics. International Conference On Genome Informatics. 15: 239-48. PMID 15712126 DOI: 10.11234/Gi1990.15.239  0.4
2004 Fu Y, Frith MC, Haverty PM, Weng Z. MotifViz: an analysis and visualization tool for motif discovery. Nucleic Acids Research. 32: W420-3. PMID 15215422 DOI: 10.1093/Nar/Gkh426  0.4
2004 Hu Z, Fu Y, Halees AS, Kielbasa SM, Weng Z. SeqVISTA: a new module of integrated computational tools for studying transcriptional regulation. Nucleic Acids Research. 32: W235-41. PMID 15215387 DOI: 10.1093/Nar/Gkh483  0.4
2004 Frith MC, Fu Y, Yu L, Chen JF, Hansen U, Weng Z. Detection of functional DNA motifs via statistical over-representation. Nucleic Acids Research. 32: 1372-81. PMID 14988425 DOI: 10.1093/Nar/Gkh299  0.4
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