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PathwayAssist 3.0, Causeway, Lasergene 6.0, FRED 2.0, Ensembl 26, BioCham 2.2, Pfam 16.0, E-Utilities

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Ariadne Genomics has released PathwayAssist 3.0, which includes a database of more than 500,000 molecular interactions extracted from the literature using the company’s MedScan text processing tool.


QBioCom has launched version 1.2 of its Causeway sequence annotation software. The new release enables researchers to share annotations within an organization.


DNAStar has released Lasergene 6.0, an upgrade to its sequence analysis software that includes SeqBuilder, a new module for plasmid construction, as well as map creation capabilities and presentation-quality graphics, among other new features.


OpenEye Scientific Software has released FRED 2.0, a docking program that searches all possible poses within a protein active site, filtering for shape complementarity and optional features before being evaluated by several scoring functions.


Ensembl 26 is available at http://www.ensembl.org/. The release includes a new human assembly (NCBI build 35). Ensembl has also released preliminary assemblies for Xenopus tropicalis and Rattus norvegicus at http://pre.ensembl.org/.


BioCham 2.2, an environment for modeling and simulating biochemical systems, is available at http://contraintes.inria.fr/BIOCHAM/.


Pfam 16.0 is available at http://www.sanger.ac.uk/Software/Pfam and http://pfam.wustl.edu. The latest collection of protein domain family alignments contains 7,677 families.


NCBI has released a new version of the SOAP interface for its E-Utilities at http://eutils.ncbi.nlm.nih.gov/entrez/query/static/esoap_help.html.

Filed under

The Scan

UK Pilot Study Suggests Digital Pathway May Expand BRCA Testing in Breast Cancer

A randomized pilot study in the Journal of Medical Genetics points to similar outcomes for breast cancer patients receiving germline BRCA testing through fully digital or partially digital testing pathways.

Survey Sees Genetic Literacy on the Rise, Though Further Education Needed

Survey participants appear to have higher genetic familiarity, knowledge, and skills compared to 2013, though 'room for improvement' remains, an AJHG paper finds.

Study Reveals Molecular, Clinical Features in Colorectal Cancer Cases Involving Multiple Primary Tumors

Researchers compare mismatch repair, microsatellite instability, and tumor mutation burden patterns in synchronous multiple- or single primary colorectal cancers.

FarGen Phase One Sequences Exomes of Nearly 500 From Faroe Islands

The analysis in the European Journal of Human Genetics finds few rare variants and limited geographic structure among Faroese individuals.