piggyBacis an effective tool for functional analysis of the Plasmodium falciparumgenome (2009)
Balu, Bharath, Chauhan, Chitra, Maher, Steven P, Shoue, Douglas A, Kissinger, Jessica C, Fraser, Malcolm J, ...
Abstract Background Much of the Plasmodium falciparum genome encodes hypothetical proteins with limited homology to other organisms. A lack of robust tools for genetic manipulation of the parasite...
Mullapudi, Nandita, Joseph, Sandeep J, Kissinger, Jessica C
Abstract Background Toxoplasma gondii is a member of the phylum Apicomplexa, which consists entirely of parasitic organisms that cause several diseases of veterinary and human importance. Fundamental...
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...
SchistoDB: a Schistosoma mansoni genome resource (2009)
Zerlotini, Adhemar, Heiges, Mark, Wang, Haiming, Moraes, Romulo L. V., Dominitini, Anderson J., Ruiz, Jerônimo C., ...
SchistoDB (http://schistoDB.net/) is a genomic database for the parasitic organism Schistosoma mansoni, one of the major causative agents of schistosomiasis worldwide. It currently incorporates...
WS-BioZard: A Wizard for Composing Bioinformatics Web Services (2008)
Zhiming Wang, John A. Miller, Jessica C. Kissinger
As the amount of biological data continues to increase, how biologists share data and analysis tools efficiently is becoming an important issue. Web service technology is a promising solution because...
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...
Kuo, Chih-Horng, Kissinger, Jessica C
Abstract Background Lineage-specific genes, the genes that are restricted to a limited subset of related organisms, may be important in adaptation. In parasitic organisms, lineage-specific gene...
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...
Szabó, Zalán, Oliveira Stahl, Adriana, Albers, Sonja-V., Kissinger, Jessica C., Driessen, Arnold J.M., Pohlschröder, Mechthild
Most secreted archaeal proteins are targeted to the membrane via a tripartite signal composed of a charged N terminus and a hydrophobic domain, followed by a signal peptidase-processing site. Signal...
ApiDB: integrated resources for the apicomplexan bioinformatics resource center (2007)
Cristina Aurrecoechea, Mark Heiges, Haiming Wang, Zhiming Wang, Steve Fischer, John Miller, ...
resource center
Zhiming Wang, Xin Gao, Congzhou He, John A. Miller, Jessica C. Kissinger, Mark Heiges, ...
Abstract- Between technological breakthroughs and new computational approaches, the amount of biological data is increasing explosively. Currently, there are many data integration approaches that can...
ApiDB: integrated resources for the apicomplexan bioinformatics resource center (2007)
Aurrecoechea, Cristina, Heiges, Mark, Wang, Haiming, Wang, Zhiming, Fischer, Steve, Rhodes, Philippa, ...
ApiDB (http://ApiDB.org) represents a unified entry point for the NIH-funded Apicomplexan Bioinformatics Resource Center (BRC) that integrates numerous database resources and multiple data types. The...
SynView: a GBrowse-compatible approach to visualizing comparative genome data (2006)
Wang, Haiming, Su, Yanqi, Mackey, Aaron J., Kraemer, Eileen T., Kissinger, Jessica C.
Summary: We present SynView, a simple and generic approach to dynamically visualize multi-species comparative genome data. It is a light-weight application based on the popular and configurable...
CryptoDB: a Cryptosporidium bioinformatics resource update (2006)
Heiges, Mark, Wang, Haiming, Robinson, Edward, Aurrecoechea, Cristina, Gao, Xin, Kaluskar, Nivedita, ...
The database, CryptoDB (http://CryptoDB.org), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and...
TcruziDB: an integrated, post-genomics community resource for Trypanosoma cruzi (2006)
Agüero, Fernán, Zheng, Wenlong, Weatherly, D. Brent, Mendes, Pablo, Kissinger, Jessica C.
TcruziDB (http://TcruziDB.org) is an integrated post-genomics database for the parasitic organism, Trypanosoma cruzi, the causative agent of Chagas' disease. TcruziDB was established in 2003 as a...
TcruziDB: an integrated, post-genomics community (2005)
Fernán Agüero, Wenlong Zheng, D. Brent Weatherly, Pablo Mendes, Jessica C. Kissinger
resource for Trypanosoma cruzi
Jessica C Kissinger, Rodrigo AF Redondo, Edina CR Pires, Andrew JG Simpson, Omar S Carvalho
The first and second internal transcribed spacer regions (ITS1 and ITS2) of the ribosomal DNA of Biomphalaria tenagophila complex (B. tenagophila, B. occidentalis, and B. t. guaibensis) were...
Vidigal,Teofânia HDA, Spatz,Linus, Kissinger,Jessica C, Redondo,Rodrigo AF, Pires,Edina CR, Simpson,Andrew JG, ...
The first and second internal transcribed spacer regions (ITS1 and ITS2) of the ribosomal DNA of Biomphalaria tenagophila complex (B. tenagophila, B. occidentalis, and B. t. guaibensis) were...
Spatz, Linus, Kissinger, Jessica C., Redondo, Rodrigo A. F., Pires, Edina C. R., Simpson, Andrew J. G., ...
The first and second internal transcribed spacer regions (ITS1 and ITS2) of the ribosomal DNA of Biomphalaria tenagophila complex (B. tenagophila, B. occidentalis, and B. t. guaibensis) were...
CryptoDB: the Cryptosporidium genome resource (2004)
Puiu, Daniela, Enomoto, Shinichiro, Buck, Gregory A., Abrahamsen, Mitchell S., Kissinger, Jessica C.
CryptoDB (http://CryptoDB.org) represents a collaborative effort to locate all genome data for the apicomplexan parasite Cryptosporidium parvum in a single user‐friendly database. CryptoDB...
TcruziDB: an integrated Trypanosoma cruzi genome resource (2004)
Luchtan, Michael, Warade, Chetna, Weatherly, D. Brent, Degrave, Wim M., Tarleton, Rick L., Kissinger, Jessica C.
TcruziDB (http://TcruziDB.org) is an integrated genome database for the parasitic organism Trypanosoma cruzi, the causative agent of Chagas’ disease. The database currently incorporates all...
ToxoDB: accessing the Toxoplasma gondii genome (2003)
Jessica C. Kissinger, Bindu Gajria, Li Li, Ian T. Paulsen, David S. Roos
ToxoDB
Bahl, Amit, Brunk, Brian, Crabtree, Jonathan, Fraunholz, Martin J., Gajria, Bindu, Grant, Gregory R., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates the recently completed P. falciparum genome sequence and...
ToxoDB: accessing the Toxoplasma gondii genome (2003)
Kissinger, Jessica C., Gajria, Bindu, Li, Li, Paulsen, Ian T., Roos, David S.
ToxoDB (http://ToxoDB.org) provides a genome resource for the protozoan parasite Toxoplasma gondii. Several sequencing projects devoted to T. gondii have been completed or are in progress: an EST...
Jessica C. Kissinger, Cleber O. Soares, Rick Paul, Allison M. Wahl, Dharmendar Rathore, ...
Plasmodium (Novyella) juxtanucleare is a widely distributed parasite that primarily infects chickens (Gallus gallus domesticus). All species of Novyella are characterized by very small schizonts,...
Bahl, Amit, Brunk, Brian, Coppel, Ross L., Crabtree, Jonathan, Diskin, Sharon J., Fraunholz, Martin J., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates finished and draft genome sequence data and...
Chloroplast transit peptide prediction: a peek inside the black box (2001)
Schein, Andrew I., Kissinger, Jessica C., Ungar, Lyle H.
Previous work in predicting protein localization to the chloroplast organelle in plants led to the development of an artificial neural network-based approach capable of remarkable accuracy in its...
Fast, Naomi M., Kissinger, Jessica C., Roos, David S., Keeling, Patrick J.
The phylum Apicomplexa encompasses a large number of intracellular protozoan parasites, including the causative agents of malaria (Plasmodium), toxoplasmosis (Toxoplasma), and many other human and...
Chloroplast transit peptide prediction: a peek inside the black box
Schein, Andrew I., Kissinger, Jessica C., Ungar, Lyle H.
Previous work in predicting protein localization to the chloroplast organelle in plants led to the development of an artificial neural network-based approach capable of remarkable accuracy in its...
Drozdowicz, Yolanda M., Kissinger, Jessica C., Rea, Philip A.
Plant vacuolar H+-translocating inorganic pyrophosphatases (V-PPases; EC 3.6.1.1) have been considered to constitute a family of functionally and structurally monotonous intrinsic membrane proteins....
Bahl, Amit, Brunk, Brian, Coppel, Ross L., Crabtree, Jonathan, Diskin, Sharon J., Fraunholz, Martin J., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates finished and draft genome sequence data and annotation...
ToxoDB: accessing the Toxoplasma gondii genome
Kissinger, Jessica C., Gajria, Bindu, Li, Li, Paulsen, Ian T., Roos, David S.
ToxoDB (http://ToxoDB.org) provides a genome resource for the protozoan parasite Toxoplasma gondii. Several sequencing projects devoted to T. gondii have been completed or are in progress: an EST...
PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
Bahl, Amit, Brunk, Brian, Crabtree, Jonathan, Fraunholz, Martin J., Gajria, Bindu, Grant, Gregory R., ...
PlasmoDB (http://PlasmoDB.org) is the official database of the Plasmodium falciparum genome sequencing consortium. This resource incorporates the recently completed P. falciparum genome sequence and...
TcruziDB: an integrated Trypanosoma cruzi genome resource
Luchtan, Michael, Warade, Chetna, Weatherly, D. Brent, Degrave, Wim M., Tarleton, Rick L., Kissinger, Jessica C.
TcruziDB (http://TcruziDB.org) is an integrated genome database for the parasitic organism Trypanosoma cruzi, the causative agent of Chagas’ disease. The database currently incorporates all...
CryptoDB: the Cryptosporidium genome resource
Puiu, Daniela, Enomoto, Shinichiro, Buck, Gregory A., Abrahamsen, Mitchell S., Kissinger, Jessica C.
CryptoDB (http://CryptoDB.org) represents a collaborative effort to locate all genome data for the apicomplexan parasite Cryptosporidium parvum in a single user-friendly database. CryptoDB currently...
Gene transfer in the evolution of parasite nucleotide biosynthesis
Striepen, Boris, Pruijssers, Andrea J. P., Huang, Jinling, Li, Catherine, Gubbels, Marc-Jan, Umejiego, Nwakaso N., ...
Nucleotide metabolic pathways provide numerous successful targets for antiparasitic chemotherapy, but the human pathogen Cryptosporidium parvum thus far has proved extraordinarily refractory to...
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...
Huang, Jinling, Mullapudi, Nandita, Lancto, Cheryl A, Scott, Marla, Abrahamsen, Mitchell S, Kissinger, Jessica C
An analysis of Cryptosporidium parvum genes of likely endosymbiont or prokaryotic origin supports the hypothesis that C. arvum evolved from a plastid-containing lineage.
CryptoDB: a Cryptosporidium bioinformatics resource update
Heiges, Mark, Wang, Haiming, Robinson, Edward, Aurrecoechea, Cristina, Gao, Xin, Kaluskar, Nivedita, ...
The database, CryptoDB (), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and annotation with expressed...
TcruziDB: an integrated, post-genomics community resource for Trypanosoma cruzi
Agüero, Fernán, Zheng, Wenlong, Weatherly, D. Brent, Mendes, Pablo, Kissinger, Jessica C.
TcruziDB () is an integrated post-genomics database for the parasitic organism, Trypanosoma cruzi, the causative agent of Chagas' disease. TcruziDB was established in 2003 as a flat-file database...
ApiDB: integrated resources for the apicomplexan bioinformatics resource center
Aurrecoechea, Cristina, Heiges, Mark, Wang, Haiming, Wang, Zhiming, Fischer, Steve, Rhodes, Philippa, ...
ApiDB () represents a unified entry point for the NIH-funded Apicomplexan Bioinformatics Resource Center (BRC) that integrates numerous database resources and multiple data types. The phylum...
Mining the Plasmodium genome database to define organellar function: what does the apicoplast do?
Roos, David S, Crawford, Michael J, Donald, Robert G K, Fraunholz, Martin, Harb, Omar S, He, Cynthia Y, ...
Apicomplexan species constitute a diverse group of parasitic protozoa, which are responsible for a wide range of diseases in many organisms. Despite differences in the diseases they cause, these...
Szabó, Zalán, Stahl, Adriana Oliveira, Albers, Sonja-V., Kissinger, Jessica C., Driessen, Arnold J. M., Pohlschröder, Mechthild
Most secreted archaeal proteins are targeted to the membrane via a tripartite signal composed of a charged N terminus and a hydrophobic domain, followed by a signal peptidase-processing site. Signal...
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...
The Apicomplexan Whole-Genome Phylogeny: An Analysis of Incongruence among Gene Trees
Kuo, Chih-Horng, Wares, John P., Kissinger, Jessica C.
The protistan phylum Apicomplexa contains many important pathogens and is the subject of intense genome sequencing efforts. Based upon the genome sequences from seven apicomplexan species and a...
piggyBac is an effective tool for functional analysis of the Plasmodium falciparum genome
Balu, Bharath, Chauhan, Chitra, Maher, Steven P, Shoue, Douglas A, Kissinger, Jessica C, Fraser, Malcolm J, ...
Mullapudi, Nandita, Joseph, Sandeep J, Kissinger, Jessica C
Mining of genomic sequence data of the apicomplexan parasite Toxoplasma gondii identifies putative cis-regulatory elements using a de novo approach.
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...
SchistoDB: a Schistosoma mansoni genome resource
Zerlotini, Adhemar, Heiges, Mark, Wang, Haiming, Moraes, Romulo L. V., Dominitini, Anderson J., Ruiz, Jerônimo C., ...
SchistoDB (http://schistoDB.net/) is a genomic database for the parasitic organism Schistosoma mansoni, one of the major causative agents of schistosomiasis worldwide. It currently incorporates...
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...