The specificity of protein–DNA crosslinking by formaldehyde: in vitro and in Drosophila embryos

Por Toth, Joseph, Biggin, Mark D.
Publicado em 2000

Accessibility of transcriptionally inactive genes is specifically reduced at homeoprotein-DNA binding sites in Drosophila

Por Carr, Alan, Biggin, Mark D.
Publicado em 2000

Zeste-mediated activation by an enhancer is independent of cooperative DNA binding in vivo

Por Laney, Jeffrey D., Biggin, Mark D.
Publicado em 1997

Building quantitative, three dimensional atlases of gene expression and morphology at cellular resolution

Por Knowles, David W., Biggin, Mark D.
Publicado em 2013

System wide analyses have underestimated protein abundances and the importance of transcription in mammals

Por Li, Jingyi Jessica, Bickel, Peter J, Biggin, Mark D
Publicado em 2014

Volumetric Semantic Segmentation using Pyramid Context Features

Por Barron, Jonathan T., Arbeláez, Pablo, Keränen, Soile V. E., Biggin, Mark D., Knowles, David W., Malik, Jitendra
Publicado no Proc IEEE Int Conf Comput Vis (2013)

The role of chromatin accessibility in directing the widespread, overlapping patterns of Drosophila transcription factor binding

Por Li, Xiao-Yong, Thomas, Sean, Sabo, Peter J, Eisen, Michael B, Stamatoyannopoulos, John A, Biggin, Mark D
Publicado em 2011

Quantitative Models of the Mechanisms That Control Genome-Wide Patterns of Transcription Factor Binding during Early Drosophila Development

Por Kaplan, Tommy, Li, Xiao-Yong, Sabo, Peter J., Thomas, Sean, Stamatoyannopoulos, John A., Biggin, Mark D., Eisen, Michael B.
Publicado em 2011

Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics

Por Keränen, Soile VE, Fowlkes, Charless C, Luengo Hendriks, Cris L, Sudar, Damir, Knowles, David W, Malik, Jitendra, Biggin, Mark D
Publicado em 2006

Large-Scale Turnover of Functional Transcription Factor Binding Sites in Drosophila

Por Moses, Alan M, Pollard, Daniel A, Nix, David A, Iyer, Venky N, Li, Xiao-Yong, Biggin, Mark D, Eisen, Michael B
Publicado em 2006

Nonparametric identification of regulatory interactions from spatial and temporal gene expression data

Por Aswani, Anil, Keränen, Soile VE, Brown, James, Fowlkes, Charless C, Knowles, David W, Biggin, Mark D, Bickel, Peter, Tomlin, Claire J
Publicado em 2010

NELF and GAGA Factor Are Linked to Promoter-Proximal Pausing at Many Genes in Drosophila

Por Lee, Chanhyo, Li, Xiaoyong, Hechmer, Aaron, Eisen, Michael, Biggin, Mark D., Venters, Bryan J., Jiang, Cizhong, Li, Jian, Pugh, B. Franklin, Gilmour, David S.
Publicado em 2008

Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species

Por Bradley, Robert K., Li, Xiao-Yong, Trapnell, Cole, Davidson, Stuart, Pachter, Lior, Chu, Hou Cheng, Tonkin, Leath A., Biggin, Mark D., Eisen, Michael B.
Publicado em 2010

Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome

Por Misulovin, Ziva, Schwartz, Yuri B., Li, Xiao-Yong, Kahn, Tatyana G., Gause, Maria, MacArthur, Stewart, Fay, Justin C., Eisen, Michael B., Pirrotta, Vincenzo, Biggin, Mark D., Dorsett, Dale
Publicado em 2007

Dynamic reprogramming of chromatin accessibility during Drosophila embryo development

Por Thomas, Sean, Li, Xiao-Yong, Sabo, Peter J, Sandstrom, Richard, Thurman, Robert E, Canfield, Theresa K, Giste, Erika, Fisher, William, Hammonds, Ann, Celniker, Susan E, Biggin, Mark D, Stamatoyannopoulos, John A
Publicado em 2011

Visual Exploration of Three-dimensional Gene Expression Using Physical Views and Linked Abstract Views

Por Weber, Gunther H., Rübel, Oliver, Huang, Min-Yu, DePace, Angela H., Fowlkes, Charless C., Keränen, Soile V. E., Luengo Hendriks, Cris L., Hagen, Hans, Knowles, David W., Malik, Jitendra, Biggin, Mark D., Hamann, Bernd
Publicado em 2009

DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila

Por Fisher, William W., Li, Jingyi Jessica, Hammonds, Ann S., Brown, James B., Pfeiffer, Barret D., Weiszmann, Richard, MacArthur, Stewart, Thomas, Sean, Stamatoyannopoulos, John A., Eisen, Michael B., Bickel, Peter J., Biggin, Mark D., Celniker, Susan E.
Publicado em 2012

A Conserved Developmental Patterning Network Produces Quantitatively Different Output in Multiple Species of Drosophila

Por Fowlkes, Charless C., Eckenrode, Kelly B., Bragdon, Meghan D., Meyer, Miriah, Wunderlich, Zeba, Simirenko, Lisa, Luengo Hendriks, Cris L., Keränen, Soile V. E., Henriquez, Clara, Knowles, David W., Biggin, Mark D., Eisen, Michael B., DePace, Angela H.
Publicado em 2011

Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline

Por Luengo Hendriks, Cris L, Keränen, Soile VE, Fowlkes, Charless C, Simirenko, Lisa, Weber, Gunther H, DePace, Angela H, Henriquez, Clara, Kaszuba, David W, Hamann, Bernd, Eisen, Michael B, Malik, Jitendra, Sudar, Damir, Biggin, Mark D, Knowles, David W
Publicado em 2006

Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions

Por MacArthur, Stewart, Li, Xiao-Yong, Li, Jingyi, Brown, James B, Chu, Hou Cheng, Zeng, Lucy, Grondona, Brandi P, Hechmer, Aaron, Simirenko, Lisa, Keränen, Soile VE, Knowles, David W, Stapleton, Mark, Bickel, Peter, Biggin, Mark D, Eisen, Michael B
Publicado em 2009