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Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper RUM.
Gregory R. Grant, Michael H. Farkas, Angel D. Pizarro, Nicholas F. Lahens, Jonathan Schug, Brian P. Brunk, Christian J. Stoeckert Jr., John B. Hogenesch, and Eric A. Pierce Bioinformatics 27(18):2518-2528 (2011)
to dblp by dblp on Sep 14, 2011, 12:00 AM
URL | BibTeX
RAD and the RAD Study-Annotator: an approach to collection, organization and exchange of all relevant information for high-throughput gene expression studies.
Elisabetta Manduchi, Gregory R. Grant, H. He, Junmin Liu, Matthew D. Mailman, Angel D. Pizarro, Patricia L. Whetzel, and Christian J. Stoeckert Jr. Bioinformatics 20(4):452-459 (2004)
to dblp by dblp on Sep 14, 2011, 12:00 AM
URL | BibTeX
A relational schema for both array-based and SAGE gene expression experiments.
Christian J. Stoeckert Jr., Angel D. Pizarro, Elisabetta Manduchi, M. Gibson, Brian P. Brunk, Jonathan Crabtree, Jonathan Schug, Shai Shen-Orr, and G. Christian Overton Bioinformatics 17(4):300-308 (2001)
to dblp by dblp on Sep 14, 2011, 12:00 AM
URL | BibTeX
An object model and database for functional genomics.
Andrew Jones, Ela Hunt, Jonathan M. Wastling, Angel D. Pizarro, and Christian J. Stoeckert Jr. Bioinformatics 20(10):1583-1590 (2004)
to dblp by dblp on Sep 14, 2011, 12:00 AM
URL | BibTeX
An open letter to the scientific journals.
Catherine A. Ball, Gavin Sherlock, Helen E. Parkinson, Philippe Rocca-Serra, Catherine Brooksbank, Helen C. Causton, Duccio Cavalieri, Terry Gaasterland, Pascal Hingamp, Frank Holstege, Martin Ringwald, Paul T. Spellman, Christian J. Stoeckert Jr., Jason E. Stewart, Ronald Taylor, Alvis Brazma, and John Quackenbush Bioinformatics 18(11):1409 (2002)
to dblp by dblp on Jun 29, 2011, 12:00 AM
URL | BibTeX
Generation of patterns from gene expression data by assigning confidence to differentially expressed genes.
Elisabetta Manduchi, Gregory R. Grant, Steven E. McKenzie, G. Christian Overton, Saul Surrey, and Christian J. Stoeckert Jr. Bioinformatics 16(8):685-698 (2000)
to dblp by dblp on Jun 29, 2011, 12:00 AM
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PlasmoDB: the Plasmodium genome resource. An integrated database providing tools for accessing, analyzing and mapping expression and sequence data both finished and unfinished.
Amit Bahl, Brian P. Brunk, Ross L. Coppel, Jonathan Crabtree, Sharon J. Diskin, Martin J. Fraunholz, Gregory R. Grant, Dinesh Gupta, Robert L. Huestis, Jessica C. Kissinger, Philip Labo, Li Li, Shannon K. McWeeney, Arthur J. Milgram, David S. Roos, Jonathan Schug, and Christian J. Stoeckert Jr. Nucleic Acids Research 30(1):87-90 (2002)
to dblp by dblp on Jun 29, 2011, 12:00 AM
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PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data.
Amit Bahl, Brian P. Brunk, Jonathan Crabtree, Martin J. Fraunholz, Bindu Gajria, Gregory R. Grant, Hagai Ginsburg, Dinesh Gupta, Jessica C. Kissinger, Philip Labo, Li Li, Matthew D. Mailman, Arthur J. Milgram, David S. Pearson, David S. Roos, Jonathan Schug, Christian J. Stoeckert Jr., and Patricia L. Whetzel Nucleic Acids Research 31(1):212-215 (2003)
to dblp by dblp on Jun 29, 2011, 12:00 AM
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EpoDB: a database of genes expressed during vertebrate erythropoiesis.
Fidel Salas, Juergen Haas, Brian P. Brunk, Christian J. Stoeckert Jr., and G. Christian Overton Nucleic Acids Research 26(1):288-289 (1998)
to dblp by dblp on Jun 29, 2011, 12:00 AM
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EpoDB: a prototype database for the analysis of genes expressed during vertebrate erythropoiesis.
Christian J. Stoeckert Jr., Fidel Salas, Brian P. Brunk, and G. Christian Overton Nucleic Acids Research 27(1):200-203 (1999)
to dblp by dblp on Jun 29, 2011, 12:00 AM
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AmoebaDB and MicrosporidiaDB: functional genomic resources for Amoebozoa and Microsporidia species.
Cristina Aurrecoechea, Ana Barreto, John Brestelli, Brian P. Brunk, Elisabet V. Caler, Steve Fischer, Bindu Gajria, Xin Gao, Alan Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, John Iodice, Jessica C. Kissinger, Eileen Kraemer, Wei Li, Vishal Nayak, Cary Pennington, Deborah F. Pinney, Brian Pitts, David S. Roos, Ganesh Srinivasamoorthy, Christian J. Stoeckert Jr., Charles Treatman, and Haiming Wang Nucleic Acids Research 39(Database-Issue):612-619 (2011)
to dblp by dblp on Apr 15, 2011, 12:00 AM
URL | BibTeX
EuPathDB: a portal to eukaryotic pathogen databases.
Cristina Aurrecoechea, John Brestelli, Brian P. Brunk, Steve Fischer, Bindu Gajria, Xin Gao, Alan Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen Kraemer, Wei Li, John A. Miller, Vishal Nayak, Cary Pennington, Deborah F. Pinney, David S. Roos, Chris Ross, Ganesh Srinivasamoorthy, Christian J. Stoeckert Jr., Ryan Thibodeau, Charles Treatman, and Haiming Wang Nucleic Acids Research 38(Database-Issue):415-419 (2010)
to dblp by dblp on Apr 12, 2011, 12:00 AM
URL | BibTeX
TriTrypDB: a functional genomic resource for the Trypanosomatidae.
Martin Aslett, Cristina Aurrecoechea, Matthew Berriman, John Brestelli, Brian P. Brunk, Mark Carrington, Daniel P. Depledge, Steve Fischer, Bindu Gajria, Xin Gao, Malcolm J. Gardner, Alan Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Christiane Hertz-Fowler, Robin Houston, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen Kraemer, Wei Li, Flora J. Logan, John A. Miller, Siddhartha Mitra, Peter J. Myler, Vishal Nayak, Cary Pennington, Isabelle Phan, Deborah F. Pinney, Gowthaman Ramasamy, Matthew B. Rogers, David S. Roos, Chris Ross, Dhileep Sivam, Deborah F. Smith, Ganesh Srinivasamoorthy, Christian J. Stoeckert Jr., Sandhya Subramanian, Ryan Thibodeau, Adrian Tivey, Charles Treatman, Giles Velarde, and Haiming Wang Nucleic Acids Research 38(Database-Issue):457-462 (2010)
to dblp by dblp on Apr 12, 2011, 12:00 AM
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Characterization of Unknown Adult Stem Cell Samples by Large Scale Data Integration and Artificial Neural Networks.
Ghislain Bidaut, and Christian J. Stoeckert Jr. Pacific Symposium on Biocomputing, page 356-367. (2009)
to dblp by dblp on Nov 30, 2010, 12:00 AM
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Annotare - a tool for annotating high-throughput biomedical investigations and resulting data.
Ravi Shankar, Helen E. Parkinson, Tony Burdett, Emma Hastings, Junmin Liu, Michael Miller, Rashmi Srinivasa, Joseph White, Alvis Brazma, Gavin Sherlock, Christian J. Stoeckert Jr., and Catherine A. Ball Bioinformatics 26(19):2470-2471 (2010)
to dblp by dblp on Nov 17, 2010, 12:00 AM
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Promoter features related to tissue specificity as measured by Shannon entropy.
Jonathan Schug, Winfried-Paul Schuller, Claudia Kappen, J Michael Salbaum, Maja Bucan, and Christian J Stoeckert Genome Biol. 6(4):R33 (2005)
to imported by denilw on Jan 26, 2010, 8:35 PM
DOI | BibTeX
A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.
Tim F. Rayner, Philippe Rocca-Serra, Paul T. Spellman, Helen C. Causton, Anna Farne, Ele Holloway, Rafael A. Irizarry, Junmin Liu, Donald Maier, Michael Miller, Kjell Petersen, John Quackenbush, Gavin Sherlock, Christian J. Stoeckert Jr., Joseph White, Patricia L. Whetzel, Farrell Wymore, Helen E. Parkinson, Ugis Sarkans, Catherine A. Ball, and Alvis Brazma BMC Bioinformatics (2006)
to dblp by dblp on Nov 10, 2009, 12:00 AM
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PlasmoDB: a functional genomic database for malaria parasites.
Cristina Aurrecoechea, John Brestelli, Brian P. Brunk, Jennifer Dommer, Steve Fischer, Bindu Gajria, Xin Gao, Alan Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen Kraemer, Wei Li, John A. Miller, Vishal Nayak, Cary Pennington, Deborah F. Pinney, David S. Roos, Chris Ross, Christian J. Stoeckert Jr., Charles Treatman, and Haiming Wang Nucleic Acids Research 37(Database-Issue):539-543 (2009)
to dblp by dblp on Aug 26, 2009, 12:00 AM
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GiardiaDB and TrichDB: integrated genomic resources for the eukaryotic protist pathogens Giardia lamblia and Trichomonas vaginalis.
Cristina Aurrecoechea, John Brestelli, Brian P. Brunk, Jane M. Carlton, Jennifer Dommer, Steve Fischer, Bindu Gajria, Xin Gao, Alan Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen Kraemer, Wei Li, John A. Miller, Hilary G. Morrison, Vishal Nayak, Cary Pennington, Deborah F. Pinney, David S. Roos, Chris Ross, Christian J. Stoeckert Jr., Steven Sullivan, Charles Treatman, and Haiming Wang Nucleic Acids Research 37(Database-Issue):526-530 (2009)
to dblp by dblp on Aug 26, 2009, 12:00 AM
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Wrestling with SUMO and bio-ontologies
Christian Stoeckert, Catherine Ball, Alvis Brazma, Ryan Brinkman, Helen Causton, Liju Fan, Jennifer Fostel, Gilberto Fragoso, Mervi Heiskanen, Frank Holstege, Norman Morrison, Helen Parkinson, John Quackenbush, Philippe Rocca-Serra, Susanna-Assunta Sansone, Ugis Sarkans, Gavin Sherlock, Robert Stevens, Chris Taylor, Ronald Taylor, Patricia Whetzel, and Joseph White Nat Biotech 24(1):21--22 (January 2006)
by cbrewster on Aug 17, 2009, 12:47 AM
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