Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...
GiardiaDB (http://GiardiaDB.org) and TrichDB (http://TrichDB.org) house the genome databases for Giardia lamblia and Trichomonas vaginalis, respectively, and represent the latest additions to the...
PlasmoDB: a functional genomic database for malaria parasites (2009)
Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Dommer, Jennifer, Fischer, Steve, Gajria, Bindu, ...
PlasmoDB (http://PlasmoDB.org) is a functional genomic database for Plasmodium spp. that provides a resource for data analysis and visualization in a gene-by-gene or genome-wide scale. PlasmoDB...
Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...
© 2008 The Authors. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License. The definitive version was published in Nucleic Acids...
Xia, Dong, Sanderson, Sanya J, Jones, Andrew R, Prieto, Judith H, Yates, John R, Bromley, Elizabeth, ...
Abstract Background Although the genomes of many of the most important human and animal pathogens have now been sequenced, our understanding of the actual proteins expressed by these genomes and how...
ToxoDB: an integrated Toxoplasma gondii database resource (2008)
Gajria, Bindu, Bahl, Amit, Brestelli, John, Dommer, Jennifer, Fischer, Steve, Gao, Xin, ...
ToxoDB (http://ToxoDB.org) is a genome and functional genomic database for the protozoan parasite Toxoplasma gondii. It incorporates the sequence and annotation of the T. gondii ME49 strain, as well...
Zhu, Yunxia, King, Benjamin L, Parvizi, Babak, Brunk, Brian P, Stoeckert, Christian J, Quackenbush, John, ...
Abstract Databases of experimentally generated and computationally derived transcript sequences are valuable resources for genome analysis and annotation. The utility of such databases is enhanced...
Li, Li, Brunk, Brian P., Kissinger, Jessica C., Pape, Deana, Tang, Keliang, Cole, Robert H., ...
Large-scale EST sequencing projects for several important parasites within the phylum Apicomplexa were undertaken for the purpose of gene discovery. Included were several parasites of medical...
K2/Kleisli and GUS: Experiments in Integrated Access to Genomic Data Sources (2001)
Davidson, Susan B, Crabtree, Jonathan, Brunk, Brian P., Schug, Jonathan, Tannen, Val, Overton, Chris, ...
The integration of heterogeneous data sources and software systems is a major issue in the biomed ical community and several approaches have been explored: linking databases, "on-the- fly"...
Ajioka, James W., Boothroyd, John C., Brunk, Brian P., Hehl, Adrian, Hillier, Ledeana, Manger, Ian D., ...
A molecular profile of a hematopoietic stem cell niche
Hackney, Jason A., Charbord, Pierre, Brunk, Brian P., Stoeckert, Christian J., Lemischka, Ihor R., Moore, Kateri A.
The hematopoietic microenvironment provides a complex molecular milieu that regulates the self-renewal and differentiation activities of stem cells. We have characterized a stem cell supportive...
Zhu, Yunxia, King, Benjamin L, Parvizi, Babak, Brunk, Brian P, Stoeckert, Christian J, Quackenbush, John, ...
The analysis and results are presented of a semi-automated process of connecting transcript assemblies with highly curated biological information for mouse genes that is available through the Mouse...
Predicting Gene Ontology Functions from ProDom and CDD Protein Domains
Schug, Jonathan, Diskin, Sharon, Mazzarelli, Joan, Brunk, Brian P., Stoeckert, Christian J.
A heuristic algorithm for associating Gene Ontology (GO) defined molecular functions to protein domains as listed in the ProDom and CDD databases is described. The algorithm generates rules for...
Li, Li, Brunk, Brian P., Kissinger, Jessica C., Pape, Deana, Tang, Keliang, Cole, Robert H., ...
Large-scale EST sequencing projects for several important parasites within the phylum Apicomplexa were undertaken for the purpose of gene discovery. Included were several parasites of medical...
A molecular profile of a hematopoietic stem cell niche
Hackney, Jason A., Charbord, Pierre, Brunk, Brian P., Stoeckert, Christian J., Lemischka, Ihor R., Moore, Kateri A.
The hematopoietic microenvironment provides a complex molecular milieu that regulates the self-renewal and differentiation activities of stem cells. We have characterized a stem cell supportive...
Zhu, Yunxia, King, Benjamin L, Parvizi, Babak, Brunk, Brian P, Stoeckert, Christian J, Quackenbush, John, ...
The analysis and results are presented of a semi-automated process of connecting transcript assemblies with highly curated biological information for mouse genes that is available through the Mouse...
Predicting Gene Ontology Functions from ProDom and CDD Protein Domains
Schug, Jonathan, Diskin, Sharon, Mazzarelli, Joan, Brunk, Brian P., Stoeckert, Christian J.
A heuristic algorithm for associating Gene Ontology (GO) defined molecular functions to protein domains as listed in the ProDom and CDD databases is described. The algorithm generates rules for...
Li, Li, Brunk, Brian P., Kissinger, Jessica C., Pape, Deana, Tang, Keliang, Cole, Robert H., ...
Large-scale EST sequencing projects for several important parasites within the phylum Apicomplexa were undertaken for the purpose of gene discovery. Included were several parasites of medical...
ToxoDB: an integrated Toxoplasma gondii database resource
Gajria, Bindu, Bahl, Amit, Brestelli, John, Dommer, Jennifer, Fischer, Steve, Gao, Xin, ...
ToxoDB (http://ToxoDB.org) is a genome and functional genomic database for the protozoan parasite Toxoplasma gondii. It incorporates the sequence and annotation of the T. gondii ME49 strain, as well...
Xia, Dong, Sanderson, Sanya J, Jones, Andrew R, Prieto, Judith H, Yates, John R, Bromley, Elizabeth, ...
A proteomics analysis identifies one third of the predicted Toxoplasma gondii proteins and integrates proteomics and genomics data to refine genome annotation.
Zhang, Xiao-Ning, Wu, Yingjie, Tobias, John W., Brunk, Brian P., Deitzer, Gerald F., Liu, Dongmei
Cryptochromes are blue light photoreceptors involved in development and circadian clock regulation. They are found in both eukaryotes and prokaryotes as light sensors. Long Hypocotyl in Far-Red 1...
Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...
GiardiaDB (http://GiardiaDB.org) and TrichDB (http://TrichDB.org) house the genome databases for Giardia lamblia and Trichomonas vaginalis, respectively, and represent the latest additions to the...
PlasmoDB: a functional genomic database for malaria parasites
Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Dommer, Jennifer, Fischer, Steve, Gajria, Bindu, ...
PlasmoDB (http://PlasmoDB.org) is a functional genomic database for Plasmodium spp. that provides a resource for data analysis and visualization in a gene-by-gene or genome-wide scale. PlasmoDB...