Abstract:
:Identification of common sub-sequences for a group of functionally related DNA sequences can shed light on the role of such elements in cell-specific gene expression. In the megakaryocytic lineage, no one single unique transcription factor was described as linage specific, raising the possibility that a cluster of gene promoter sequences presents a unique signature. Here, the megakaryocytic gene promoter group, which consists of both human and mouse 5' non-coding regions, served as a case study. A methodology for group-combinatorial search has been implemented as a customized software platform. It extracts the longest common sequences for a group of related DNA sequences and allows for single gaps of varying length, as well as double- and multiple-gap sequences. The results point to common DNA sequences in a group of genes that is selectively expressed in megakaryocytes, and which does not appear in a large group of control, random and specific sequences. This suggests a role for a combination of these sequences in cell-specific gene expression in the megakaryocytic lineage. The data also point to an intrinsic cross-species difference in the organization of 5' non-coding sequences within the mammalian genomes. This methodology may be used for the identification of regulatory sequences in other lineages.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Hazony Y,Lu J,St Hilaire C,Ravid Kdoi
10.1093/nar/gkl578subject
Has Abstractpub_date
2006-01-01 00:00:00pages
4416-28issue
16eissn
0305-1048issn
1362-4962pii
gkl578journal_volume
34pub_type
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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doi:10.1093/nar/30.9.1935
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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journal_title:Nucleic acids research
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