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Mark D. Biggin - Publications

Affiliations: 
Genomics Division Lawrence Berkeley National Laboratory, Berkeley, CA, USA 
Website:
http://www.lbl.gov/gsd/biggin.html
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Year Citation  Score
2019 Li JJ, Chew GL, Biggin MD. Quantitative principles of cis-translational control by general mRNA sequence features in eukaryotes. Genome Biology. 20: 162. PMID 31399036 DOI: 10.1186/S13059-019-1761-9  0.368
2018 Arbel H, Basu S, Fisher WW, Hammonds AS, Wan KH, Park S, Weiszmann R, Booth BW, Keranen SV, Henriquez C, Shams Solari O, Bickel PJ, Biggin MD, Celniker SE, Brown JB. Exploiting regulatory heterogeneity to systematically identify enhancers with high accuracy. Proceedings of the National Academy of Sciences of the United States of America. PMID 30598455 DOI: 10.1073/Pnas.1808833115  0.353
2017 Li JJ, Chew GL, Biggin MD. Quantitating translational control: mRNA abundance-dependent and independent contributions and the mRNA sequences that specify them. Nucleic Acids Research. PMID 29040683 DOI: 10.1093/Nar/Gkx898  0.308
2016 Shatsky M, Dong M, Liu H, Yang LL, Choi M, Singer ME, Geller JT, Fisher SJ, Hall SC, Hazen TC, Brenner SE, Butland G, Jin J, Witkowska HE, Chandonia JM, ... Biggin MD, et al. Quantitative tagless co-purification: a method to validate and identify protein-protein interactions. Molecular & Cellular Proteomics : McP. PMID 27099342 DOI: 10.1074/Mcp.M115.057117  0.33
2016 Shatsky M, Allen S, Gold BL, Liu NL, Juba TR, Reveco SA, Elias DA, Prathapam R, He J, Yang W, Szakal ED, Liu H, Singer ME, Geller JT, Lam BR, ... ... Biggin MD, et al. Bacterial interactomes: interacting protein partners share similar function and are validated in independent assays more frequently than previously reported. Molecular & Cellular Proteomics : McP. PMID 26873250 DOI: 10.1074/Mcp.M115.054692  0.339
2015 Li JJ, Biggin MD. Statistics requantitates the central dogma Science. 347: 1066-1067. PMID 25745146 DOI: 10.1126/Science.Aaa8332  0.344
2014 Li JJ, Bickel PJ, Biggin MD. System wide analyses have underestimated protein abundances and the importance of transcription in mammals. Peerj. 2: e270. PMID 24688849 DOI: 10.7717/Peerj.270  0.394
2014 Li JJ, Bickel PJ, Biggin MD. System wide analyses have underestimated protein abundances and the importance of transcription in mammals Peerj. 2013: 1-26. DOI: 10.7717/peerj.270  0.384
2014 Li JJ, Bickel PJ, Biggin MD. System wide analyses have underestimated protein abundances and the importance of transcription in mammals Peerj. 2013: 1-26. DOI: 10.7717/peerj.270  0.384
2013 Knowles DW, Biggin MD. Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution. Wiley Interdisciplinary Reviews. Developmental Biology. 2: 767-779. PMID 24123936 DOI: 10.1002/Wdev.107  0.353
2013 Li JJ, Bickel P, Biggin M. System wide analyses have underestimated protein abundances and transcriptional importance F1000research. 4. DOI: 10.7490/F1000Research.1094851.1  0.475
2012 Fisher WW, Li JJ, Hammonds AS, Brown JB, Pfeiffer BD, Weiszmann R, MacArthur S, Thomas S, Stamatoyannopoulos JA, Eisen MB, Bickel PJ, Biggin MD, Celniker SE. DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila. Proceedings of the National Academy of Sciences of the United States of America. 109: 21330-5. PMID 23236164 DOI: 10.1073/Pnas.1209589110  0.496
2012 Kaplan T, Biggin MD. Quantitative Models of the Mechanisms that Control Genome-Wide Patterns of Animal Transcription Factor Binding Methods in Cell Biology. 110: 263-283. PMID 22482953 DOI: 10.1016/B978-0-12-388403-9.00011-4  0.537
2012 Kaplan T, Biggin MD. Quantitative Models of the Mechanisms that Control Genome-Wide Patterns of Animal Transcription Factor Binding Methods in Cell Biology. 110: 263-283. PMID 22482953 DOI: 10.1016/B978-0-12-388403-9.00011-4  0.347
2012 Li XY, Biggin MD. Genome-wide in vivo cross-linking of sequence-specific transcription factors Methods in Molecular Biology. 809: 3-26. PMID 22113265 DOI: 10.1007/978-1-61779-376-9_1  0.511
2012 Ogawa N, Biggin MD. High-throughput SELEX determination of DNA sequences bound by transcription factors in vitro Methods in Molecular Biology. 786: 51-63. PMID 21938619 DOI: 10.1007/978-1-61779-292-2_3  0.524
2012 Ogawa N, Biggin MD. High-throughput SELEX determination of DNA sequences bound by transcription factors in vitro Methods in Molecular Biology. 786: 51-63. PMID 21938619 DOI: 10.1007/978-1-61779-292-2_3  0.371
2011 Biggin MD. Animal transcription networks as highly connected, quantitative continua. Developmental Cell. 21: 611-26. PMID 22014521 DOI: 10.1016/J.Devcel.2011.09.008  0.546
2011 Thomas S, Li XY, Sabo PJ, Sandstrom R, Thurman RE, Canfield TK, Giste E, Fisher W, Hammonds A, Celniker SE, Biggin MD, Stamatoyannopoulos JA. Dynamic reprogramming of chromatin accessibility during Drosophila embryo development. Genome Biology. 12: R43. PMID 21569360 DOI: 10.1186/Gb-2011-12-5-R43  0.462
2011 Li XY, Thomas S, Sabo PJ, Eisen MB, Stamatoyannopoulos JA, Biggin MD. The role of chromatin accessibility in directing the widespread, overlapping patterns of Drosophila transcription factor binding. Genome Biology. 12: R34. PMID 21473766 DOI: 10.1186/Gb-2011-12-4-R34  0.557
2011 Kaplan T, Li XY, Sabo PJ, Thomas S, Stamatoyannopoulos JA, Biggin MD, Eisen MB. Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development. Plos Genetics. 7: e1001290. PMID 21304941 DOI: 10.1371/Journal.Pgen.1001290  0.539
2011 Huang MY, Mackey L, Keränen SVE, Weber GH, Jordan MI, Knowles DW, Biggin MD, Hamann B. Visually relating gene expression and in vivo DNA binding data Proceedings - 2011 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2011. 586-589. DOI: 10.1109/BIBM.2011.85  0.3
2011 Huang MY, Mackey L, Keränen SVE, Weber GH, Jordan MI, Knowles DW, Biggin MD, Hamann B. Visually relating gene expression and in vivo DNA binding data Proceedings - 2011 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2011. 586-589. DOI: 10.1109/BIBM.2011.85  0.3
2010 Aswani A, Keränen SVE, Brown J, Fowlkes CC, Knowles DW, Biggin MD, Bickel P, Tomlin CJ. Nonparametric identification of regulatory interactions from spatial and temporal gene expression data Bmc Bioinformatics. 11. PMID 20684787 DOI: 10.1186/1471-2105-11-413  0.437
2010 Biggin MD. MyoD, a lesson in widespread DNA binding. Developmental Cell. 18: 505-6. PMID 20412764 DOI: 10.1016/J.Devcel.2010.04.004  0.481
2010 Bradley RK, Li XY, Trapnell C, Davidson S, Pachter L, Chu HC, Tonkin LA, Biggin MD, Eisen MB. Binding site turnover produces pervasive quantitative changes in transcription factor binding between closely related Drosophila species. Plos Biology. 8: e1000343. PMID 20351773 DOI: 10.1371/Journal.Pbio.1000343  0.497
2010 Han B, Dong M, Biggin MD, Glaeser RM. Structural Survey of Large Protein Complexes in Desulfovibrio Vulgaris Biophysical Journal. 98: 56a. DOI: 10.1016/J.Bpj.2009.12.321  0.306
2009 MacArthur S, Li XY, Li J, Brown JB, Chu HC, Zeng L, Grondona BP, Hechmer A, Simirenko L, Keränen SV, Knowles DW, Stapleton M, Bickel P, Biggin MD, Eisen MB. Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions. Genome Biology. 10: R80. PMID 19627575 DOI: 10.1186/Gb-2009-10-7-R80  0.483
2009 MacArthur S, Li XY, Li J, Brown JB, Chu HC, Zeng L, Grondona BP, Hechmer A, Simirenko L, Keränen SV, Knowles DW, Stapleton M, Bickel P, Biggin MD, Eisen MB. Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions. Genome Biology. 10: R80. PMID 19627575 DOI: 10.1186/Gb-2009-10-7-R80  0.483
2008 Fowlkes CC, Hendriks CL, Keränen SV, Weber GH, Rübel O, Huang MY, Chatoor S, DePace AH, Simirenko L, Henriquez C, Beaton A, Weiszmann R, Celniker S, Hamann B, Knowles DW, ... Biggin MD, et al. A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm. Cell. 133: 364-74. PMID 18423206 DOI: 10.1016/J.Cell.2008.01.053  0.307
2008 Fowlkes CC, Hendriks CL, Keränen SV, Weber GH, Rübel O, Huang MY, Chatoor S, DePace AH, Simirenko L, Henriquez C, Beaton A, Weiszmann R, Celniker S, Hamann B, Knowles DW, ... Biggin MD, et al. A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm. Cell. 133: 364-74. PMID 18423206 DOI: 10.1016/J.Cell.2008.01.053  0.307
2008 Lee C, Li X, Hechmer A, Eisen M, Biggin MD, Venters BJ, Jiang C, Li J, Pugh BF, Gilmour DS. NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila. Molecular and Cellular Biology. 28: 3290-300. PMID 18332113 DOI: 10.1128/Mcb.02224-07  0.445
2008 Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Chu HC, Ogawa N, Inwood W, Sementchenko V, Beaton A, ... ... Biggin MD, et al. Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm. Plos Biology. 6: e27. PMID 18271625 DOI: 10.1371/Journal.Pbio.0060027  0.46
2008 Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Chu HC, Ogawa N, Inwood W, Sementchenko V, Beaton A, ... ... Biggin MD, et al. Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm. Plos Biology. 6: e27. PMID 18271625 DOI: 10.1371/Journal.Pbio.0060027  0.46
2008 Misulovin Z, Schwartz YB, Li XY, Kahn TG, Gause M, MacArthur S, Fay JC, Eisen MB, Pirrotta V, Biggin MD, Dorsett D. Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome. Chromosoma. 117: 89-102. PMID 17965872 DOI: 10.1007/S00412-007-0129-1  0.374
2008 Misulovin Z, Schwartz YB, Li XY, Kahn TG, Gause M, MacArthur S, Fay JC, Eisen MB, Pirrotta V, Biggin MD, Dorsett D. Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome. Chromosoma. 117: 89-102. PMID 17965872 DOI: 10.1007/S00412-007-0129-1  0.374
2006 Keränen SV, Fowlkes CC, Luengo Hendriks CL, Sudar D, Knowles DW, Malik J, Biggin MD. Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics. Genome Biology. 7: R124. PMID 17184547 DOI: 10.1186/Gb-2006-7-12-R124  0.306
2006 Keränen SV, Fowlkes CC, Luengo Hendriks CL, Sudar D, Knowles DW, Malik J, Biggin MD. Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics. Genome Biology. 7: R124. PMID 17184547 DOI: 10.1186/Gb-2006-7-12-R124  0.306
2006 Moses AM, Pollard DA, Nix DA, Iyer VN, Li XY, Biggin MD, Eisen MB. Large-scale turnover of functional transcription factor binding sites in Drosophila. Plos Computational Biology. 2: e130. PMID 17040121 DOI: 10.1371/Journal.Pcbi.0020130  0.36
2006 Moses AM, Pollard DA, Nix DA, Iyer VN, Li XY, Biggin MD, Eisen MB. Large-scale turnover of functional transcription factor binding sites in Drosophila. Plos Computational Biology. 2: e130. PMID 17040121 DOI: 10.1371/Journal.Pcbi.0020130  0.36
2006 Schwartz YB, Kahn TG, Nix DA, Li XY, Bourgon R, Biggin M, Pirrotta V. Genome-wide analysis of Polycomb targets in Drosophila melanogaster. Nature Genetics. 38: 700-5. PMID 16732288 DOI: 10.1038/Ng1817  0.495
2002 Hur MW, Laney JD, Jeon SH, Ali J, Biggin MD. Zeste maintains repression of Ubx transgenes: Support for a new model of Polycomb repression Development. 129: 1339-1343. PMID 11880343  0.463
2001 Biggin MD, Tjian R. Transcriptional regulation in Drosophila: the post-genome challenge. Functional & Integrative Genomics. 1: 223-34. PMID 11793241 DOI: 10.1007/S101420000021  0.647
2001 Biggin MD, Tjian R. Transcriptional regulation in Drosophila: the post-genome challenge. Functional & Integrative Genomics. 1: 223-34. PMID 11793241 DOI: 10.1007/S101420000021  0.647
2001 Biggin MD. To bind or not to bind Nature Genetics. 28: 303-304. PMID 11479583 DOI: 10.1038/91045  0.553
2000 Carr A, Biggin MD. Accessibility of transcriptionally inactive genes is specifically reduced at homeoprotein-DNA binding sites in Drosophila Nucleic Acids Research. 28: 2839-2846. PMID 10908343 DOI: 10.1093/Nar/28.14.2839  0.486
2000 Carr A, Biggin MD. Accessibility of transcriptionally inactive genes is specifically reduced at homeoprotein-DNA binding sites in Drosophila Nucleic Acids Research. 28: 2839-2846. PMID 10908343  0.374
2000 Toth J, Biggin MD. The specificity of protein-DNA crosslinking by formaldehyde: in vitro and in drosophila embryos. Nucleic Acids Research. 28: e4. PMID 10606672 DOI: 10.1093/Nar/28.2.E4  0.515
1999 Carr A, Biggin MD. An in vivo UV crosslinking assay that detects DNA binding by sequence-specific transcription factors. Methods in Molecular Biology (Clifton, N.J.). 119: 497-508. PMID 10804535 DOI: 10.1385/1-59259-681-9:497  0.492
1999 Carr A, Biggin MD. An in vivo UV crosslinking assay that detects DNA binding by sequence-specific transcription factors. Methods in Molecular Biology (Clifton, N.J.). 119: 497-508. PMID 10804535  0.402
1999 Biggin MD. Ultraviolet cross-linking assay to measure sequence-specific DNA binding in vivo Methods in Enzymology. 304: 496-515. PMID 10372378 DOI: 10.1016/S0076-6879(99)04029-X  0.497
1999 Carr A, Biggin MD. A comparison of in vivo and in vitro DNA-binding specificities suggests a new model for homeoprotein DNA binding in Drosophila embryos Embo Journal. 18: 1598-1608. PMID 10075930 DOI: 10.1093/Emboj/18.6.1598  0.489
1999 Carr A, Biggin MD. A comparison of in vivo and in vitro DNA-binding specificities suggests a new model for homeoprotein DNA binding in Drosophila embryos Embo Journal. 18: 1598-1608. PMID 10075930  0.313
1998 Liang Z, Biggin MD. Eve and ftz regulate a wide array of genes in blastoderm embryos: The selector homeoproteins directly or indirectly regulate most genes in Drosophila Development. 125: 4471-4482. PMID 9778506  0.358
1997 Biggin MD, McGinnis W. Regulation of segmentation and segmental identity by Drosophila homeoproteins: the role of DNA binding in functional activity and specificity. Development (Cambridge, England). 124: 4425-33. PMID 9409661  0.388
1997 Biggin MD, McGinnis W. Regulation of segmentation and segmental identity by Drosophila homeoproteins: the role of DNA binding in functional activity and specificity. Development (Cambridge, England). 124: 4425-33. PMID 9409661  0.388
1997 Laney JD, Biggin MD. Zeste-mediated activation by an enhancer is independent of cooperative DNA binding in vivo Proceedings of the National Academy of Sciences of the United States of America. 94: 3602-3604. PMID 9108023 DOI: 10.1073/Pnas.94.8.3602  0.537
1997 Laney JD, Biggin MD. Zeste-mediated activation by an enhancer is independent of cooperative DNA binding in vivo Proceedings of the National Academy of Sciences of the United States of America. 94: 3602-3604. PMID 9108023 DOI: 10.1073/pnas.94.8.3602  0.306
1997 Walter J, Biggin MD. Measurement of in vivo DNA binding by sequence-specific transcription factors using UV cross-linking Methods: a Companion to Methods in Enzymology. 11: 215-224. PMID 8993034 DOI: 10.1006/Meth.1996.0408  0.518
1997 Walter J, Biggin MD. Measurement of in vivo DNA binding by sequence-specific transcription factors using UV cross-linking Methods: a Companion to Methods in Enzymology. 11: 215-224. PMID 8993034 DOI: 10.1006/meth.1996.0408  0.395
1996 Laney JD, Biggin MD. Redundant control of Ultrabithorax by zeste involves functional levels of zeste protein binding at the Ultrabithorax promoter Development. 122: 2303-2311. PMID 8681810  0.439
1996 Laney JD, Biggin MD. Redundant control of Ultrabithorax by zeste involves functional levels of zeste protein binding at the Ultrabithorax promoter Development. 122: 2303-2311. PMID 8681810  0.321
1996 Austin RJ, Biggin MD. Purification of the Drosophila RNA polymerase II general transcription factors Proceedings of the National Academy of Sciences of the United States of America. 93: 5788-5792. PMID 8650170 DOI: 10.1073/Pnas.93.12.5788  0.431
1996 Walter J, Biggin MD. DNA binding specificity of two homeodomain proteins in vitro and in Drosophila embryos Proceedings of the National Academy of Sciences of the United States of America. 93: 2680-2685. PMID 8610101 DOI: 10.1073/Pnas.93.7.2680  0.449
1996 Walter J, Biggin MD. DNA binding specificity of two homeodomain proteins in vitro and in Drosophila embryos Proceedings of the National Academy of Sciences of the United States of America. 93: 2680-2685. PMID 8610101 DOI: 10.1073/pnas.93.7.2680  0.361
1996 Hur M, Biggin M. The role of proximal promoter binding transcription factors (GAGA, NTF-1 and Zeste) in regulating uItrabithorax Faseb Journal. 10: A1153.  0.403
1995 Austin RJ, Biggin MD. A domain of the even-skipped protein represses transcription by preventing TFIID binding to a promoter: Repression by cooperative blocking Molecular and Cellular Biology. 15: 4683-4693. PMID 7651385 DOI: 10.1128/Mcb.15.9.4683  0.515
1995 Austin RJ, Biggin MD. A domain of the even-skipped protein represses transcription by preventing TFIID binding to a promoter: Repression by cooperative blocking Molecular and Cellular Biology. 15: 4683-4693. PMID 7651385  0.368
1995 TenHarmsel A, Biggin MD. Bending DNA can repress a eukaryotic basal promoter and inhibit TFIID binding Molecular and Cellular Biology. 15: 5492-5498. PMID 7565700 DOI: 10.1128/Mcb.15.10.5492  0.516
1995 TenHarmsel A, Biggin MD. Bending DNA can repress a eukaryotic basal promoter and inhibit TFIID binding Molecular and Cellular Biology. 15: 5492-5498. PMID 7565700  0.336
1994 Walter J, Dever CA, Biggin MD. Two homeo domain proteins bind with similar specificity to a wide range of DNA sites in Drosophila embryos Genes and Development. 8: 1678-1692. PMID 7958848  0.455
1994 Walter J, Dever CA, Biggin MD. Two homeo domain proteins bind with similar specificity to a wide range of DNA sites in Drosophila embryos Genes and Development. 8: 1678-1692. PMID 7958848  0.345
1993 TenHarmsel A, Austin RJ, Savenelli N, Biggin MD. Cooperative binding at a distance by even-skipped protein correlates with repression and suggests a mechanism of silencing Molecular and Cellular Biology. 13: 2742-2752. PMID 8097276 DOI: 10.1128/Mcb.13.5.2742  0.539
1993 TenHarmsel A, Austin RJ, Savenelli N, Biggin MD. Cooperative binding at a distance by even-skipped protein correlates with repression and suggests a mechanism of silencing Molecular and Cellular Biology. 13: 2742-2752. PMID 8097276  0.313
1992 Laney JD, Biggin MD. zeste, a nonessential gene, potently activates Ultrabithorax transcription in the Drosophila embryo Genes and Development. 6: 1531-1541. PMID 1644294 DOI: 10.1101/Gad.6.8.1531  0.548
1992 Laney JD, Biggin MD. zeste, a nonessential gene, potently activates Ultrabithorax transcription in the Drosophila embryo Genes and Development. 6: 1531-1541. PMID 1644294  0.334
1989 Biggin MD, Tjian R. Transcription factors and the control of Drosophila development. Trends in Genetics : Tig. 5: 377-83. PMID 2692246 DOI: 10.1016/0168-9525(89)90173-X  0.589
1989 Biggin MD, Tjian R. Transcription factors and the control of Drosophila development. Trends in Genetics : Tig. 5: 377-83. PMID 2692246 DOI: 10.1016/0168-9525(89)90173-X  0.589
1989 Muller J, Thuringer F, Biggin M, Zust B, Bienz M. Coordinate action of a proximal homeoprotein binding site and a distal sequence confers the Ultrabithorax expression pattern in the visceral mesoderm Embo Journal. 8: 4143-4151. PMID 2574106  0.356
1989 Biggin MD, Tjian R. A purified Drosophila homeodomain protein represses transcription in vitro. Cell. 58: 433-40. PMID 2569362 DOI: 10.1016/0092-8674(89)90424-8  0.648
1989 Biggin MD, Tjian R. A purified Drosophila homeodomain protein represses transcription in vitro. Cell. 58: 433-40. PMID 2569362 DOI: 10.1016/0092-8674(89)90424-8  0.648
1988 Biggin MD, Bickel S, Benson M, Pirrotta V, Tjian R. Zeste encodes a sequence-specific transcription factor that activates the Ultrabithorax promoter in vitro. Cell. 53: 713-22. PMID 3131017 DOI: 10.1016/0092-8674(88)90089-X  0.64
1988 Biggin MD, Bickel S, Benson M, Pirrotta V, Tjian R. Zeste encodes a sequence-specific transcription factor that activates the Ultrabithorax promoter in vitro. Cell. 53: 713-22. PMID 3131017 DOI: 10.1016/0092-8674(88)90089-X  0.64
1988 Biggin MD, Tjian R. Transcription factors that activate the Ultrabithorax promoter in developmentally staged extracts. Cell. 53: 699-711. PMID 2897243 DOI: 10.1016/0092-8674(88)90088-8  0.637
1988 Biggin MD, Tjian R. Transcription factors that activate the Ultrabithorax promoter in developmentally staged extracts. Cell. 53: 699-711. PMID 2897243 DOI: 10.1016/0092-8674(88)90088-8  0.637
1984 Biggin M, Farrell PJ, Barrell BG. Transcription and DNA sequence of the BamHI L fragment of B95-8 Epstein-Barr virus Embo Journal. 3: 1083-1090. PMID 6203743  0.322
1984 Baer R, Bankier AT, Biggin MD, Deininger PL, Farrell PJ, Gibson TJ, Hatfull G, Hudson GS, Satchwell SC, Séguin C. DNA sequence and expression of the B95-8 Epstein-Barr virus genome Nature. 310: 207-211. PMID 6087149 DOI: 10.1038/310207A0  0.375
1984 Biggin M, Farrell PJ, Barrell BG. Transcription and DNA sequence of the BamHI L fragment of B95‐8 Epstein‐Barr virus. The Embo Journal. 3: 1083-1090. DOI: 10.1002/J.1460-2075.1984.Tb01933.X  0.43
1983 Biggin MD, Gibson TJ, Hong GF. Buffer gradient gels and 35S label as an aid to rapid DNA sequence determination. Proceedings of the National Academy of Sciences of the United States of America. 80: 3963-3965. PMID 6575390 DOI: 10.1073/Pnas.80.13.3963  0.313
Low-probability matches (unlikely to be authored by this person)
1987 Biggin M, Bodescot M, Perricaudet M, Farrell P. Epstein-Barr virus gene expression in P3HR1-superinfected Raji cells Journal of Virology. 61: 3120-3132. PMID 3041034 DOI: 10.1128/Jvi.61.10.3120-3132.1987  0.294
2012 Li XY, Biggin MD. Genome-wide in vivo cross-linking of sequence-specific transcription factors Methods in Molecular Biology. 809: 3-26. PMID 22113265 DOI: 10.1007/978-1-61779-376-9_1  0.292
2010 Choi M, Nordmeyer RA, Cornell E, Dong M, Biggin MD, Jin J. A multichannel gel electrophoresis and continuous fraction collection apparatus for high-throughput protein separation and characterization. Electrophoresis. 31: 440-7. PMID 20119951 DOI: 10.1002/Elps.200900435  0.292
2006 Luengo Hendriks CL, Keränen SV, Fowlkes CC, Simirenko L, Weber GH, DePace AH, Henriquez C, Kaszuba DW, Hamann B, Eisen MB, Malik J, Sudar D, Biggin MD, Knowles DW. Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline. Genome Biology. 7: R123. PMID 17184546 DOI: 10.1186/Gb-2006-7-12-R123  0.292
2006 Luengo Hendriks CL, Keränen SV, Fowlkes CC, Simirenko L, Weber GH, DePace AH, Henriquez C, Kaszuba DW, Hamann B, Eisen MB, Malik J, Sudar D, Biggin MD, Knowles DW. Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline. Genome Biology. 7: R123. PMID 17184546 DOI: 10.1186/Gb-2006-7-12-R123  0.292
2000 Toth J, Biggin MD. The specificity of protein-DNA crosslinking by formaldehyde: in vitro and in drosophila embryos. Nucleic Acids Research. 28: e4. PMID 10606672  0.291
2019 Dong M, Choi M, Biggin MD, Jin J. A Multichannel Gel Electrophoresis and Continuous Fraction Collection Apparatus for High-Throughput Protein Separation and Characterization. Methods in Molecular Biology (Clifton, N.J.). 1855: 437-448. PMID 30426437 DOI: 10.1007/978-1-4939-8793-1_36  0.29
2008 Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Hou CC, Ogawa N, Inwood W, Sementchenko V, Beaton A, ... ... Biggin MD, et al. Correction: Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm (PLoS Biology (2008) 6,2 (e27) DOI: 10.1371/journal.pbio.0060027) Plos Biology. 6: 1600. DOI: 10.1371/Journal.Pbio.0060190  0.289
2008 Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Hou CC, Ogawa N, Inwood W, Sementchenko V, Beaton A, ... ... Biggin MD, et al. Correction: Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm (PLoS Biology (2008) 6,2 (e27) DOI: 10.1371/journal.pbio.0060027) Plos Biology. 6: 1600. DOI: 10.1371/Journal.Pbio.0060190  0.289
1999 Biggin MD. Ultraviolet cross-linking assay to measure sequence-specific DNA binding in vivo Methods in Enzymology. 304: 496-515. PMID 10372378 DOI: 10.1016/S0076-6879(99)04029-X  0.289
2010 Biggin MD. MyoD, a Lesson in Widespread DNA Binding Developmental Cell. 18: 505-506. DOI: 10.1016/j.devcel.2010.04.004  0.279
2010 Biggin MD. MyoD, a Lesson in Widespread DNA Binding Developmental Cell. 18: 505-506. DOI: 10.1016/j.devcel.2010.04.004  0.279
1998 Liang Z, Biggin MD. Eve and ftz regulate a wide array of genes in blastoderm embryos: The selector homeoproteins directly or indirectly regulate most genes in Drosophila Development. 125: 4471-4482. PMID 9778506  0.277
2012 Aswani A, Biggin MD, Bickel P, Tomlin C. Nonparametric Variable Selection and Modeling for Spatial and Temporal Regulatory Networks Methods in Cell Biology. 110: 243-261. PMID 22482952 DOI: 10.1016/B978-0-12-388403-9.00010-2  0.273
2010 Gorur A, Leung C, Jorgens D, Tauscher A, Remis J, Ball D, Chhabra S, Fok V, Geller J, Singer M, Hazen T, Juba T, Elias D, Wall J, Biggin M, et al. Subcellular Localization of Proteins in the Anaerobic Sulfate Reducer Desulfovibrio vulgaris via SNAP-tag Labeling and Photoconversion Microscopy and Microanalysis. 16: 864-865. DOI: 10.1017/S1431927610057727  0.269
2012 Atherton J, Boley N, Brown B, Ogawa N, Davidson SM, Eisen MB, Biggin MD, Bickel P. A model for sequential evolution of ligands by exponential enrichment (SELEX) data Annals of Applied Statistics. 6: 928-949. DOI: 10.1214/12-Aoas537  0.267
2012 Atherton J, Boley N, Brown B, Ogawa N, Davidson SM, Eisen MB, Biggin MD, Bickel P. A model for sequential evolution of ligands by exponential enrichment (SELEX) data Annals of Applied Statistics. 6: 928-949. DOI: 10.1214/12-Aoas537  0.267
2002 Knowles DW, Keränen S, Biggin MD, Sudar D. Mapping organism expression levels at cellular resolution in developing Drosophila Microscopy and Microanalysis. 8: 1044-1045. DOI: 10.1017/S143192760210290X  0.261
1996 Austin RJ, Biggin MD. Purification of the Drosophila RNA polymerase II general transcription factors Proceedings of the National Academy of Sciences of the United States of America. 93: 5788-5792. PMID 8650170 DOI: 10.1073/pnas.93.12.5788  0.257
2007 Luengo Hendriks CL, Keränen SV, Biggin MD, Knowles DW. Automatic channel unmixing for high-throughput quantitative analysis of fluorescence images. Optics Express. 15: 12306-17. PMID 19547599 DOI: 10.1364/Oe.15.012306  0.256
2009 Weber GH, Rübel O, Huang MY, DePace AH, Fowlkes CC, Keränen SV, Luengo Hendriks CL, Hagen H, Knowles DW, Malik J, Biggin MD, Hamann B. Visual exploration of three-dimensional gene expression using physical views and linked abstract views. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 6: 296-309. PMID 19407353 DOI: 10.1109/Tcbb.2007.70249  0.256
2009 Weber GH, Rübel O, Huang MY, DePace AH, Fowlkes CC, Keränen SV, Luengo Hendriks CL, Hagen H, Knowles DW, Malik J, Biggin MD, Hamann B. Visual exploration of three-dimensional gene expression using physical views and linked abstract views. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 6: 296-309. PMID 19407353 DOI: 10.1109/Tcbb.2007.70249  0.256
2011 Fowlkes CC, Eckenrode KB, Bragdon MD, Meyer M, Wunderlich Z, Simirenko L, Luengo Hendriks CL, Keränen SV, Henriquez C, Knowles DW, Biggin MD, Eisen MB, DePace AH. A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila. Plos Genetics. 7: e1002346. PMID 22046143 DOI: 10.1371/Journal.Pgen.1002346  0.25
2011 Fowlkes CC, Eckenrode KB, Bragdon MD, Meyer M, Wunderlich Z, Simirenko L, Luengo Hendriks CL, Keränen SV, Henriquez C, Knowles DW, Biggin MD, Eisen MB, DePace AH. A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila. Plos Genetics. 7: e1002346. PMID 22046143 DOI: 10.1371/Journal.Pgen.1002346  0.25
2011 Chhabra SR, Butland G, Elias DA, Chandonia JM, Fok OY, Juba TR, Gorur A, Allen S, Leung CM, Keller KL, Reveco S, Zane GM, Semkiw E, Prathapam R, Gold B, ... ... Biggin MD, et al. Generalized schemes for high-throughput manipulation of the Desulfovibrio vulgaris genome. Applied and Environmental Microbiology. 77: 7595-604. PMID 21908633 DOI: 10.1128/Aem.05495-11  0.241
2011 Chhabra SR, Butland G, Elias DA, Chandonia JM, Fok OY, Juba TR, Gorur A, Allen S, Leung CM, Keller KL, Reveco S, Zane GM, Semkiw E, Prathapam R, Gold B, ... ... Biggin MD, et al. Generalized schemes for high-throughput manipulation of the Desulfovibrio vulgaris genome. Applied and Environmental Microbiology. 77: 7595-604. PMID 21908633 DOI: 10.1128/Aem.05495-11  0.241
2011 Liu H, Yang L, Khainovski N, Dong M, Hall SC, Fisher SJ, Biggin MD, Jin J, Witkowska HE. Automated iterative MS/MS acquisition: A tool for improving efficiency of protein identification using a LC-MALDI MS workflow Analytical Chemistry. 83: 6286-6293. PMID 21761829 DOI: 10.1021/Ac200911V  0.234
2001 Biggin MD. To bind or not to bind Nature Genetics. 28: 303-304. PMID 11479583 DOI: 10.1038/91045  0.231
2010 Aswani A, Keränen SVE, Brown J, Fowlkes CC, Knowles DW, Biggin MD, Bickel P, Tomlin CJ. Nonparametric identification of regulatory interactions from spatial and temporal gene expression data Bmc Bioinformatics. 11. PMID 20684787 DOI: 10.1186/1471-2105-11-413  0.213
2005 Fowlkes CC, Luengo Hendriks CL, Keränen SVE, Biggin MD, Knowles DW, Sudar D, Malik J. Registering Drosophila embryos at cellular resolution to build a quantitative 3D atlas of Gene expression patterns and morphology 2005 Ieee Computational Systems Bioinformatics Conference, Workshops and Poster Abstracts. 354-357. DOI: 10.1109/CSBW.2005.118  0.212
2005 Fowlkes CC, Luengo Hendriks CL, Keränen SVE, Biggin MD, Knowles DW, Sudar D, Malik J. Registering Drosophila embryos at cellular resolution to build a quantitative 3D atlas of Gene expression patterns and morphology 2005 Ieee Computational Systems Bioinformatics Conference, Workshops and Poster Abstracts. 354-357. DOI: 10.1109/CSBW.2005.118  0.212
2013 Knowles DW, Biggin MD. Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution. Wiley Interdisciplinary Reviews. Developmental Biology. 2: 767-779. PMID 24123936  0.209
1983 Biggin MD, Gibson TJ, Hong GF. Buffer gradient gels and 35S label as an aid to rapid DNA sequence determination. Proceedings of the National Academy of Sciences of the United States of America. 80: 3963-3965. PMID 6575390  0.206
2008 Dong M, Yang LL, Williams K, Fisher SJ, Hall SC, Biggin MD, Jin J, Witkowska HE. A "tagless" strategy for identification of stable protein complexes genome-wide by multidimensional orthogonal chromatographic separation and iTRAQ reagent tracking. Journal of Proteome Research. 7: 1836-49. PMID 18336004 DOI: 10.1021/Pr700624E  0.192
2008 Dong M, Yang LL, Williams K, Fisher SJ, Hall SC, Biggin MD, Jin J, Witkowska HE. A "tagless" strategy for identification of stable protein complexes genome-wide by multidimensional orthogonal chromatographic separation and iTRAQ reagent tracking. Journal of Proteome Research. 7: 1836-49. PMID 18336004 DOI: 10.1021/Pr700624E  0.192
1984 Baer R, Bankier AT, Biggin MD, Deininger PL, Farrell PJ, Gibson TJ, Hatfull G, Hudson GS, Satchwell SC, Séguin C. DNA sequence and expression of the B95-8 Epstein-Barr virus genome Nature. 310: 207-211. PMID 6087149 DOI: 10.1038/310207a0  0.186
2010 Rübel O, Weber GH, Huang MY, Bethel EW, Biggin MD, Fowlkes CC, Luengo Hendriks CL, Keränen SV, Eisen MB, Knowles DW, Malik J, Hagen H, Hamann B. Integrating data clustering and visualization for the analysis of 3D gene expression data. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 7: 64-79. PMID 20150669 DOI: 10.1109/Tcbb.2008.49  0.179
2010 Rübel O, Weber GH, Huang MY, Bethel EW, Biggin MD, Fowlkes CC, Luengo Hendriks CL, Keränen SV, Eisen MB, Knowles DW, Malik J, Hagen H, Hamann B. Integrating data clustering and visualization for the analysis of 3D gene expression data. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 7: 64-79. PMID 20150669 DOI: 10.1109/Tcbb.2008.49  0.179
1985 Pellett PE, Biggin MD, Barrell B, Roizman B. Epstein-Barr virus genome may encode a protein showing significant amino acid and predicted secondary structure homology with glycoprotein B of herpes simplex virus 1 Journal of Virology. 56: 807-813. PMID 2999435 DOI: 10.1128/Jvi.56.3.807-813.1985  0.177
2009 Han BG, Dong M, Liu H, Camp L, Geller J, Singer M, Hazen TC, Choi M, Witkowska HE, Ball DA, Typke D, Downing KH, Shatsky M, Brenner SE, Chandonia JM, ... Biggin MD, et al. Survey of large protein complexes in D. vulgaris reveals great structural diversity. Proceedings of the National Academy of Sciences of the United States of America. 106: 16580-5. PMID 19805340 DOI: 10.1073/Pnas.0813068106  0.173
2009 Han BG, Dong M, Liu H, Camp L, Geller J, Singer M, Hazen TC, Choi M, Witkowska HE, Ball DA, Typke D, Downing KH, Shatsky M, Brenner SE, Chandonia JM, ... Biggin MD, et al. Survey of large protein complexes in D. vulgaris reveals great structural diversity. Proceedings of the National Academy of Sciences of the United States of America. 106: 16580-5. PMID 19805340 DOI: 10.1073/Pnas.0813068106  0.173
2012 Walian PJ, Allen S, Shatsky M, Zeng L, Szakal ED, Liu H, Hall SC, Fisher SJ, Lam BR, Singer ME, Geller JT, Brenner SE, Chandonia JM, Hazen TC, Witkowska HE, ... Biggin MD, et al. High-throughput isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris. Journal of Proteome Research. 11: 5720-35. PMID 23098413 DOI: 10.1021/Pr300548D  0.169
2012 Walian PJ, Allen S, Shatsky M, Zeng L, Szakal ED, Liu H, Hall SC, Fisher SJ, Lam BR, Singer ME, Geller JT, Brenner SE, Chandonia JM, Hazen TC, Witkowska HE, ... Biggin MD, et al. High-throughput isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris. Journal of Proteome Research. 11: 5720-35. PMID 23098413 DOI: 10.1021/Pr300548D  0.169
2012 Dong M, Choi M, Biggin MD, Jin J. A multichannel gel electrophoresis and continuous fraction collection apparatus for high-throughput protein separation and characterization Methods in Molecular Biology. 869: 373-384. PMID 22585501 DOI: 10.1007/978-1-61779-821-4_30  0.166
2012 Dong M, Choi M, Biggin MD, Jin J. A multichannel gel electrophoresis and continuous fraction collection apparatus for high-throughput protein separation and characterization Methods in Molecular Biology. 869: 373-384. PMID 22585501 DOI: 10.1007/978-1-61779-821-4_30  0.159
2002 Hur MW, Laney JD, Jeon SH, Ali J, Biggin MD. Zeste maintains repression of Ubx transgenes: Support for a new model of Polycomb repression Development. 129: 1339-1343. PMID 11880343  0.148
2008 Rübel O, Weber GH, Huang MY, Bethel EW, Keränen SVE, Fowlkes CC, Hendriks CLL, DePace AH, Simirenko L, Eisen MB, Biggin MD, Hagen H, Malik J, Knowles DW, Hamann B. PointCloudXplore 2: Visual exploration of 3D gene expression Lecture Notes in Informatics (Lni), Proceedings - Series of the Gesellschaft Fur Informatik (Gi). 125-137.  0.135
2008 Rübel O, Weber GH, Huang MY, Bethel EW, Keränen SVE, Fowlkes CC, Hendriks CLL, DePace AH, Simirenko L, Eisen MB, Biggin MD, Hagen H, Malik J, Knowles DW, Hamann B. PointCloudXplore 2: Visual exploration of 3D gene expression Lecture Notes in Informatics (Lni), Proceedings - Series of the Gesellschaft Fur Informatik (Gi). 125-137.  0.135
2002 Knowles DW, Keränen S, Biggin MD, Sudar D. Mapping organism expression levels at cellular resolution in developing Drosophila Microscopy and Microanalysis. 8: 1044-1045.  0.125
2007 Garczarek F, Dong M, Typke D, Witkowska HE, Hazen TC, Nogales E, Biggin MD, Glaeser RM. Octomeric pyruvate-ferredoxin oxidoreductase from Desulfovibrio vulgaris. Journal of Structural Biology. 159: 9-18. PMID 17400475 DOI: 10.1016/J.Jsb.2007.01.020  0.114
2007 Garczarek F, Dong M, Typke D, Witkowska HE, Hazen TC, Nogales E, Biggin MD, Glaeser RM. Octomeric pyruvate-ferredoxin oxidoreductase from Desulfovibrio vulgaris. Journal of Structural Biology. 159: 9-18. PMID 17400475 DOI: 10.1016/J.Jsb.2007.01.020  0.114
2008 Cornell E, Fisher WW, Nordmeyer R, Yegian D, Dong M, Biggin MD, Celniker SE, Jin J. Automating fruit fly Drosophila embryo injection for high throughput transgenic studies. The Review of Scientific Instruments. 79: 013705. PMID 18248037 DOI: 10.1063/1.2827516  0.114
2008 Cornell E, Fisher WW, Nordmeyer R, Yegian D, Dong M, Biggin MD, Celniker SE, Jin J. Automating fruit fly Drosophila embryo injection for high throughput transgenic studies. The Review of Scientific Instruments. 79: 013705. PMID 18248037 DOI: 10.1063/1.2827516  0.114
1985 Pellett PE, Biggin MD, Barrell B, Roizman B. Epstein-Barr virus genome may encode a protein showing significant amino acid and predicted secondary structure homology with glycoprotein B of herpes simplex virus 1 Journal of Virology. 56: 807-813. PMID 2999435  0.103
2012 Aswani A, Biggin MD, Bickel P, Tomlin C. Nonparametric Variable Selection and Modeling for Spatial and Temporal Regulatory Networks Methods in Cell Biology. 110: 243-261. PMID 22482952 DOI: 10.1016/B978-0-12-388403-9.00010-2  0.101
2010 Rübel O, Ahern S, Bethel EW, Biggin MD, Childs H, Cormier-Michel E, Depace A, Eisen MB, Fowlkes CC, Geddes CG, Hagen H, Hamann B, Huang MY, Keränen SV, Knowles DW, et al. Coupling visualization and data analysis for knowledge discovery from multi-dimensional scientific data. Procedia Computer Science. 1: 1757-1764. PMID 23762211 DOI: 10.1016/j.procs.2010.04.197  0.088
2010 Huang MY, Weber GH, Li XY, Biggin MD, Hamann B. Quantitative visualization of ChIP-chip data by using linked views 2010 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2010. 195-200. DOI: 10.1109/BIBMW.2010.5703798  0.076
2010 Huang MY, Weber GH, Li XY, Biggin MD, Hamann B. Quantitative visualization of ChIP-chip data by using linked views 2010 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2010. 195-200. DOI: 10.1109/BIBMW.2010.5703798  0.076
2011 Liu H, Yang L, Khainovski N, Dong M, Hall SC, Fisher SJ, Biggin MD, Jin J, Witkowska HE. Automated iterative MS/MS acquisition: A tool for improving efficiency of protein identification using a LC-MALDI MS workflow Analytical Chemistry. 83: 6286-6293. PMID 21761829 DOI: 10.1021/ac200911v  0.065
2007 Luengo Hendriks CL, Keränen SVE, Biggin MD, Knowles DW. Automatic channel unmixing for high-throughput quantitative analysis of fluorescence images Optics Express. 15: 12306-12317. DOI: 10.1364/OE.15.012306  0.062
2007 Luengo Hendriks CL, Keränen SVE, Biggin MD, Knowles DW. Automatic channel unmixing for high-throughput quantitative analysis of fluorescence images Optics Express. 15: 12306-12317. DOI: 10.1364/OE.15.012306  0.062
2013 Barron JT, Arbeláez P, Keränen SV, Biggin MD, Knowles DW, Malik J. Volumetric Semantic Segmentation using Pyramid Context Features. Proceedings / Ieee International Conference On Computer Vision. Ieee International Conference On Computer Vision. 2013: 3448-3455. PMID 26029008 DOI: 10.1109/ICCV.2013.428  0.052
2018 Patel KV, Bailey CL, Harding AH, Biggin M, Crook B. Background levels of microorganisms in the busy urban environment of transport hubs. Journal of Applied Microbiology. PMID 30091191 DOI: 10.1111/jam.14063  0.048
2013 Barron JT, Biggin MD, Arbelaez P, Knowles DW, Keranen SVE, Malik J. Volumetric semantic segmentation using pyramid context features Proceedings of the Ieee International Conference On Computer Vision. 3448-3455. DOI: 10.1109/ICCV.2013.428  0.022
2013 Barron JT, Biggin MD, Arbelaez P, Knowles DW, Keranen SVE, Malik J. Volumetric semantic segmentation using pyramid context features Proceedings of the Ieee International Conference On Computer Vision. 3448-3455. DOI: 10.1109/ICCV.2013.428  0.022
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