TRANSCRIPTOME 2002: From Functional Genomics to Systems Biology
March 10-13, 2002
Seattle, Washington, USA


Comparative Bioinformatics Analysis of Rat and Human ALB-AFP Gene Locus

Ilya Ioshikhes1 and Joseph Locker2, Department of Molecular Genetics1 and Pathology 2, Albert Einstein College of Medicine, Bronx, NY

Alpha-fetoprotein (AFP) is an important developmental marker, expressed in fetal liver and liver cancer, but silent in adult liver. AFP is part of a two gene locus with its sister protein Serum Albumin (Alb). We present comparative bioinformatics sequence analysis of an extended region comprising the Alb-AFP locus from different species. In particular, regions conserved between the rat (a 70 kb region proprietarily sequenced at the Albert Einstein College of Medicine) and human loci were determined and related to known functional elements, coding and noncoding. This demonstrated conserved promoter and enhancer regions and evolutionary divergence through insertion of repetitive DNA elements. Additional analysis predicted TF-binding sites and MARs, correlating these with known regulatory elements. These analyses were extended to more limited sequences available from the mouse genome.

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