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Article: Comparative analysis of the gene-dense ACHE/TFR2 region on human chromosome 7q22 with the orthologous region on mouse chromosome 5
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TitleComparative analysis of the gene-dense ACHE/TFR2 region on human chromosome 7q22 with the orthologous region on mouse chromosome 5
 
AuthorsWilson, MD2
Riemer, C1
Martindale, DW2
Schnupf, P2
Boright, AP4
Cheung, TL3
Hardy, DM3
Schwartz, S1
Scherer, SW4
Tsui, LC4
Miller, W1
Koop, BF2
 
Issue Date2001
 
PublisherOxford University Press. The Journal's web site is located at http://nar.oxfordjournals.org/
 
CitationNucleic Acids Research, 2001, v. 29 n. 6, p. 1352-1365 [How to Cite?]
 
AbstractChromosome 7q22 has been the focus of many cytogenetic and molecular studies aimed at delineating regions commonly deleted in myeloid leukemias and myelodysplastic syndromes. We have compared a gene-dense, GC-rich sub-region of 7q22 with the orthologous region on mouse chromosome 5. A physical map of 640 kb of genomic DNA from mouse chromosome 5 was derived from a series of overlapping bacterial artificial chromosomes. A 296 kb segment from the physical map, spanning Ache to Tfr2, was compared with 267 kb of human sequence. We identified a conserved linkage of 12 genes including an open reading frame flanked by Ache and Asr2, a novel cation-chloride cotransporter interacting protein Cip1, Ephb4, Zan and Perq1. While some of these genes have been previously described, in each case we present new data derived from our comparative sequence analysis. Adjacent unfinished sequence data from the mouse contains an orthologous block of 10 additional genes including three novel cDNA sequences that we subsequently mapped to human 7q22. Methods for displaying comparative genomic information, including unfinished sequence data, are becoming increasingly important. We supplement our printed comparative analysis with a new, Web-based program called Laj (local alignments with java). Laj provides interactive access to archived pairwise sequence alignments via the WWW. It displays synchronized views of a dot-plot, a percent identity plot, a nucleotide-level local alignment and a variety of relevant annotations. Our mouse-human comparison can be viewed at http://web.uvic.ca/∼bioweb/laj.html. Laj is available at http://bio.cse.psu.edu/, along with online documentation and additional examples of annotated genomic regions.
 
ISSN0305-1048
2013 Impact Factor: 8.808
 
PubMed Central IDPMC29746
 
ISI Accession Number IDWOS:000167529200012
 
ReferencesReferences in Scopus
 
DC FieldValue
dc.contributor.authorWilson, MD
 
dc.contributor.authorRiemer, C
 
dc.contributor.authorMartindale, DW
 
dc.contributor.authorSchnupf, P
 
dc.contributor.authorBoright, AP
 
dc.contributor.authorCheung, TL
 
dc.contributor.authorHardy, DM
 
dc.contributor.authorSchwartz, S
 
dc.contributor.authorScherer, SW
 
dc.contributor.authorTsui, LC
 
dc.contributor.authorMiller, W
 
dc.contributor.authorKoop, BF
 
dc.date.accessioned2007-09-12T03:52:10Z
 
dc.date.available2007-09-12T03:52:10Z
 
dc.date.issued2001
 
dc.description.abstractChromosome 7q22 has been the focus of many cytogenetic and molecular studies aimed at delineating regions commonly deleted in myeloid leukemias and myelodysplastic syndromes. We have compared a gene-dense, GC-rich sub-region of 7q22 with the orthologous region on mouse chromosome 5. A physical map of 640 kb of genomic DNA from mouse chromosome 5 was derived from a series of overlapping bacterial artificial chromosomes. A 296 kb segment from the physical map, spanning Ache to Tfr2, was compared with 267 kb of human sequence. We identified a conserved linkage of 12 genes including an open reading frame flanked by Ache and Asr2, a novel cation-chloride cotransporter interacting protein Cip1, Ephb4, Zan and Perq1. While some of these genes have been previously described, in each case we present new data derived from our comparative sequence analysis. Adjacent unfinished sequence data from the mouse contains an orthologous block of 10 additional genes including three novel cDNA sequences that we subsequently mapped to human 7q22. Methods for displaying comparative genomic information, including unfinished sequence data, are becoming increasingly important. We supplement our printed comparative analysis with a new, Web-based program called Laj (local alignments with java). Laj provides interactive access to archived pairwise sequence alignments via the WWW. It displays synchronized views of a dot-plot, a percent identity plot, a nucleotide-level local alignment and a variety of relevant annotations. Our mouse-human comparison can be viewed at http://web.uvic.ca/∼bioweb/laj.html. Laj is available at http://bio.cse.psu.edu/, along with online documentation and additional examples of annotated genomic regions.
 
dc.description.naturelink_to_OA_fulltext
 
dc.identifier.citationNucleic Acids Research, 2001, v. 29 n. 6, p. 1352-1365 [How to Cite?]
 
dc.identifier.epage1365
 
dc.identifier.isiWOS:000167529200012
 
dc.identifier.issn0305-1048
2013 Impact Factor: 8.808
 
dc.identifier.issue6
 
dc.identifier.openurl
 
dc.identifier.pmcidPMC29746
 
dc.identifier.pmid11239002
 
dc.identifier.scopuseid_2-s2.0-0035869121
 
dc.identifier.spage1352
 
dc.identifier.urihttp://hdl.handle.net/10722/44365
 
dc.identifier.volume29
 
dc.languageeng
 
dc.publisherOxford University Press. The Journal's web site is located at http://nar.oxfordjournals.org/
 
dc.publisher.placeUnited Kingdom
 
dc.relation.ispartofNucleic Acids Research
 
dc.relation.referencesReferences in Scopus
 
dc.subject.meshPhysical chromosome mapping
 
dc.subject.meshReceptors, transferrin - genetics
 
dc.subject.meshChromosomes, human, pair 7 - genetics
 
dc.subject.meshDna - chemistry - genetics
 
dc.subject.meshAcetylcholinesterase - genetics
 
dc.titleComparative analysis of the gene-dense ACHE/TFR2 region on human chromosome 7q22 with the orthologous region on mouse chromosome 5
 
dc.typeArticle
 
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Author Affiliations
  1. Pennsylvania State University
  2. University of Victoria
  3. Texas Tech University Health Sciences Center at Lubbock
  4. Hospital for Sick Children University of Toronto