Computational Biology and Informatics Lab (CBIL)
EPConDB was created to support the Endocrine Pancreas Consortium funded by NIDDK to identify novel pancreatic genes through the sequencing and analysis of EST libraries. EPConDB became part of the NIDDK Beta Cell Biology Consortium (BCBC) and reconstituted as Beta Cell Genomics to support the efforts of the BCBC.
One of the main outcomes of the Endocrine Pancreas Consortium was the PancChip for microarray analysis. An associated PromoterChip was also generated. Information on these arrays is available at the CBIL Downloads site (http://www.cbil.upenn.edu/downloads_orig/EPConDB/download/) and at ArrayExpress.
Related publications: EPConDB: a web resource for gene expression related to pancreatic development, beta-cell function and diabetes. Mazzarelli JM, Brestelli J, Gorski RK, Liu J, Manduchi E, Pinney DF, Schug J, White P, Kaestner KH, Stoeckert CJ Jr. Nucleic Acids Res. 2007 Jan;35(Database issue):D751-5. Epub 2006 Oct 27. PMID: 17071715 PMCID: PMC1781120
Novel genes identified by manual annotation and microarray expression analysis in the pancreas. Mazzarelli JM, White P, Gorski R, Brestelli J, Pinney DF, Arsenlis A, Katokhin A, Belova O, Bogdanova V, Elisafenko E, Gubina M, Nizolenko L, Perelman P, Puzakov M, Shilov A, Trifonoff V, Vorobjeva N, Kolchanov N, Kaestner KH, Stoeckert CJ Jr. Genomics. 2006 Dec;88(6):752-61. Epub 2006 May 24. PMID: 16725306
Transcriptional program of the endocrine pancreas in mice and humans. Kaestner KH, Lee CS, Scearce LM, Brestelli JE, Arsenlis A, Le PP, Lantz KA, Crabtree J, Pizarro A, Mazzarelli J, Pinney D, Fischer S, Manduchi E, Stoeckert CJ Jr, Gradwohl G, Clifton SW, Brown JR, Inoue H, Cras-Méneur C, Permutt MA. Diabetes. 2003 Jul;52(7):1604-10. PMID: 12829622
Functional genomics of the endocrine pancreas: the pancreas clone set and PancChip, new resources for diabetes research. Scearce LM, Brestelli JE, McWeeney SK, Lee CS, Mazzarelli J, Pinney DF, Pizarro A, Stoeckert CJ Jr, Clifton SW, Permutt MA, Brown J, Melton DA, Kaestner KH. Diabetes. 2002 Jul;51(7):1997-2004. PMID: 12086925
ArrayExpress entries for PancChip and PromoterChip A-CBIL-1 - UPenn Mouse PancChip 2.1: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-1/ A-CBIL-2 - UPenn Mouse PancChip 5.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-2/ A-CBIL-3 - UPenn Mouse PancChip 2.1.1: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-3/ A-CBIL-6 - UPenn Mouse PancChip 4.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-6/ A-CBIL-7 - UPenn Mouse PancChip 2.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-7/ A-CBIL-9 - UPenn Mouse PancChip 6.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-9/ A-CBIL-10 - UPenn Mouse PancChip 6.1: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-10/ A-CBIL-14 - UPenn Mouse PromoterChip 3.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-CBIL-14/ A-MEXP-1668 - Upenn Mouse PromoterChip 5A.1: http://www.ebi.ac.uk/arrayexpress/arrays/A-MEXP-1668/ A-MTAB-536 - Upenn Mouse PromoterChip 5B.0: http://www.ebi.ac.uk/arrayexpress/arrays/A-MTAB-536/