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New Products: Feb 1, 2011

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DNAStar has released its SeqMan NGen3 software for assembling genomes. According to the company, the software can assemble a human genome on a desktop computer in less than a day and bacterial genomes in less than a minute.

The software is compatible with all next-gen sequencing technologies and is being made available with SeqMan Pro analysis, which supports Bayesian SNP identification and the scanning of genomic data in BAM format.


Halo Genomics has made its new reagent kit for targeted resequencing available to early-access customers. The kit directly incorporates sequence primers and barcodes during amplification. According to the company, it enables thousands of exons to be enriched without library preparation, thus avoiding steps such as shearing, size selection, gel purification, and adaptor ligation reactions.



NuGen Technologies
has released its Ovation Prokaryotic RNA-seq System, which can be used to sequence transcriptomes extracted from both pure and mixed microbial cultures.

The company said it is offering the technology under a limited-access program, targeting medical and environmental microbial research centers, with Washington University in St. Louis and the University of Washington as the first two recipients.


The Wellcome Trust Sanger Institute has released version 51 of COSMIC, the Catalogue of Somatic Mutations in Cancer. The new version includes the curation of three newly identified cancer genes, four gene fusions, and updates from the International Cancer Genome Consortium and The Cancer Genome Atlas. Upgrades to the website are also now available.

The newly curated genes include DNMT3A, which has been found to be mutated in 22 percent of adult acute myeloma leukemia patients; BAP1, a tumor suppressor gene; and GNA11, which has been found to be mutated in uveal melanoma.

The TCGA released data from the full-exome sequencing of 325 ovarian tumors, and the ICGC has released data on Japanese liver cancer, breast cancer, colorectal cancer, glioblastoma multiforme, pancreatic cancer, and lung adenocarcinoma.


The Scan

Germline-Targeting HIV Vaccine Shows Promise in Phase I Trial

A National Institutes of Health-led team reports in Science that a broadly neutralizing antibody HIV vaccine induced bnAb precursors in 97 percent of those given the vaccine.

Study Uncovers Genetic Mutation in Childhood Glaucoma

A study in the Journal of Clinical Investigation ties a heterozygous missense variant in thrombospondin 1 to childhood glaucoma.

Gene Co-Expression Database for Humans, Model Organisms Gets Update

GeneFriends has been updated to include gene and transcript co-expression networks based on RNA-seq data from 46,475 human and 34,322 mouse samples, a new paper in Nucleic Acids Research says.

New Study Investigates Genomics of Fanconi Anemia Repair Pathway in Cancer

A Rockefeller University team reports in Nature that FA repair deficiency leads to structural variants that can contribute to genomic instability.