![]() Daniel MacArthur, associate director of medical and population genetics at the Broad Institute, sent some "difficult" samples to 10X Genomics for exome library preparation using Chromium, Gabriel said. The Broad team also tested the ability of the exome kit to phase samples. Variant calling was also "good out of the box." she said. While the GemCode libraries displayed a fair amount of bias, the Chromium libraries were "pretty smooth - nearly as smooth our PCR-free libraries," she said. One notable improvement of Chromium compared to GemCode was GC bias, she said. Whole-genome sequence data generated from the 10X platform had similar mean coverage, coverage distribution across the bases, and expected insert sizes to Illumina sequencing with the Broad's standard whole-genome protocol. The workflow has been straightforward and the Chromium library prep is an improvement over the GemCode library prep because the DNA shearing step has been removed, she said. So far Broad researchers have tested Chromium on 30 samples, including reference trios from the Genome in a Bottle Consortium, cancer cell lines, and autism cell lines. The institute has been testing whether a single library system is adequate to call both SNVs and structural variants using Chromium, and evaluating the instrument's workflow, potential biases, and its ability to phase genomes. The Broad received the GemCode platform in June 2015 and has been an early-access user of the Chromium since December, she said. With the GemCode, the firm recommended that users create two libraries - a standard Illumina library and also a 10X-specific library - but with the Chromium, only one 10X library is needed.ĭuring a presentation at the AGBT meeting, Stacey Gabriel, director of the Genomics Platform at the Broad Institute, discussed her institution's experience with 10X's technology. ![]() The new system will also be compatible with Illumina's HiSeq X Ten so customers can use it for large-scale population studies. That means that instead of about 50 molecules of DNA per partition, there are now only five, which improves assembly and "helps get closer to single-molecule resolution," 10X CSO Ben Hindson told GenomeWeb. ![]() The firm increased the number of partitions to 1 million from 100,000 and the number of barcodes to 4 million from 750,000. The new system will cost $125,000, up from the $75,000 price of the original GemCode system, and will begin shipping late in the second quarter, CEO Serge Saxonov told GenomeWeb at the AGBT conference.Ĭustomers will also be able to purchase whole-genome, exome, and single-cell kits, priced at $450 and $250 per sample for the genome and exome kits, respectively, and between around $.20 and $1.20 per cell for the single-cell kit, Saxonov said.Ĭhromium uses the same microfluidics and barcoding technology as the GemCode, but with greater resolution. Last week, the company provided additional details on the single-cell technology and the second iteration of its platform, which it has dubbed Chromium. NEW YORK (GenomeWeb) – 10X Genomics discussed details of its new Chromium system and presented some data from collaborations with a few early-access customers at last week's Advances in Genome Biology and Technology meeting in Orlando, Florida.ġ0X Genomics launched its first system, GemCode, at last year's AGBT meeting and in January, at the JP Morgan Healthcare conference in San Francisco, the firm announced that it planned to launch version two of its platform and an application for single-cell analysis. ![]() Advances in Clinical Genomics Profiling.
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