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Genome Graphs, MCODE

The Genome Bioinformatics Group at the University of California, Santa Cruz, has released Genome Graphs, a new software tool for the UCSC Genome Browser that allows users to upload and display genome-wide data sets such as the results of genome-wide SNP association studies, linkage studies, and homozygosity mapping. Genome Graphs, available here, enables users to upload several sets of genome-wide data and display them simultaneously; click on an area of interest and go directly to the genome browser at that position; and set a significance threshold for data in order to view only regions that meet that threshold.

The University of Toronto has released a new version of MCODE, a Cytoscape plug-in that finds clusters, or highly interconnected regions, in a network. The new version, available here, offers support for Cytoscape 2.4.0 and allows users to explore individual cluster results interactively.

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The Scan

Genes Linked to White-Tailed Jackrabbits' Winter Coat Color Change

Climate change, the researchers noted in Science, may lead to camouflage mismatch and increase predation of white-tailed jackrabbits.

Adenine Base Editor Targets SCID Mutation in New Study

Researchers from the University of California, Los Angeles, report in Cell that adenine base editing was able to produce functional T lymphocytes in a model of severe combined immune deficiency.

Researchers Find Gene Affecting Alkaline Sensitivity in Plants

Researchers from the Chinese Academy of Science have found a locus affecting alkaline-salinity sensitivity, which could aid in efforts to improve crop productivity, as they report in Science.

International Team Proposes Checklist for Returning Genomic Research Results

Researchers in the European Journal of Human Genetics present a checklist to guide the return of genomic research results to study participants.