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Downloads and Upgrades: TopHat 1.4.1; GeneMania Cytoscape plugin 2.4; BioModels 21; DGRP

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TopHat 1.4.1 is now available.

The release addresses some issues found in version 1.4.0 including a bug fix and the addition of basic file checks for extreme cases when there are no initially unmapped reads.


Version 2.4 of the GeneMania Cytoscape plugin is now available here. The release fixes several bugs that were introduced in version 2.3.


Version 21 of the BioModels database has been released.

The release includes 68 new models and updates to several existing ones. The public version of the BioModels database now contains 409 models in the curated and 420 in the non-curated branch. Together, models comprise 130,800 species; 151,274 relationships including reactions, rate rules, events and assignment rules; and 106,210 cross-references among other updates.


Sequences for the Drosophila Genetic Reference Panel, which contains the genome structure and variation in a population of 192 fruit flies with diverse traits, are now available from the National Center for Biotechnology Information's Short Read Archives.


Filed under

The Scan

Genetic Risk Factors for Hypertension Can Help Identify Those at Risk for Cardiovascular Disease

Genetically predicted high blood pressure risk is also associated with increased cardiovascular disease risk, a new JAMA Cardiology study says.

Circulating Tumor DNA Linked to Post-Treatment Relapse in Breast Cancer

Post-treatment detection of circulating tumor DNA may identify breast cancer patients who are more likely to relapse, a new JCO Precision Oncology study finds.

Genetics Influence Level of Depression Tied to Trauma Exposure, Study Finds

Researchers examine the interplay of trauma, genetics, and major depressive disorder in JAMA Psychiatry.

UCLA Team Reports Cost-Effective Liquid Biopsy Approach for Cancer Detection

The researchers report in Nature Communications that their liquid biopsy approach has high specificity in detecting all- and early-stage cancers.