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Genome Technology s Peer Review: A Weekly Forum of Recently Published Journal Articles: Jan 11, 2005

Following is a description of a recently published research paper recommended by a scientist involved in integrated biology. The recommender, Michael Metzker, is an assistant professor of cell and molecular biology at Baylor College of Medicine.


For a complete list of this month's recommended papers, read  Genome Technology, a GenomeWeb News sister publication.

High-Resolution Global Profiling of Genomic Alterations with Long Oligonucleotide Microarray. Brennan, C., Zhang, Y., Leo, C., Feng, B., Cauwels, C., Aguirre, A. J., Kim, M., Protopopov, A., and Chin, L. (2004).  Cancer Res. 64, 4744-4748


"In this paper, the authors describe their work using a commercially available array with 60-mer oligonucleotides as well as the assay conditions and bioinformatics tools they developed to detect 'single-copy difference in gene dosage of full complexity genomic DNA while offering high resolution,' they write in the abstract. This research enables 'high-resolution genome-wide array-comparative genome hybridization profiling of human and mouse tumors' to help track down the multiple regional insertions and deletions common to genomic sites of interest for oncology researchers, the authors say.


"The authors believe this effort could have an immediate impact in the field. 'The commercial availability of the microarrays and associated reagents, along with the technical protocols and analytical tools described in this report, should provide investigators with the immediate capacity to perform DNA analysis of normal and diseased genomes in a global and detailed manner,' according to the abstract."

The views expressed here do not necessarily represent the opinions of Genome Technology or GenomeWeb News.

The Scan

Nucleotide Base Detected on Near-Earth Asteroid

Among other intriguing compounds, researchers find the nucleotide uracil, a component of RNA sequences, in samples collected from the near-Earth asteroid Ryugu, as they report in Nature Communications.

Clinical Trial Participants, Investigators Point to Importance of Clinical Trial Results Reporting in Canadian Study

Public reporting on clinical trial results is crucial, according to qualitative interviews with clinical trial participants, investigators, and organizers from three provinces appearing in BMJ Open.

Old Order Amish Analysis Highlights Autozygosity, Potential Ties to Blood Measures

Researchers in BMC Genomics see larger and more frequent runs-of-homozygosity in Old Order Amish participants, though only regional autozygosity coincided with two blood-based measures.

Suicidal Ideation-Linked Loci Identified Using Million Veteran Program Data

Researchers in PLOS Genetics identify risk variants within and across ancestry groups with a genome-wide association study involving veterans with or without a history of suicidal ideation.