Blog Archives

January News: Batch-Tag-Seq – Gene Expression Profiling

Dear DNA Technologies Core Users, We are happy to announce a new service for the new year: Batch-Tag-Seq Gene Expression Profiling.  This service is designed to simplify both the planning and the analysis of gene expression profiling studies. Batch-Tag-Seq is offered

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Holiday Schedule

Except the official university holidays, the DNA Technologies Core will be open throughout the holiday season. The university holidays are December 22nd 2017, December 25th and 29th, as well as January 1st, 2018. However, please do not ship any samples with courier

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Genotyping and Genotyping-By-Sequencing Meeting, UC Davis Genome Center, December 5th — Genotyping Workflows: From Sequencing and Arrays to Data Analysis

Dear DNA Technologies Core User,   We are happy to announce the Genotyping and Genotyping-By-Sequencing Meeting in the UC Davis Genome Center for December 5th.  The talks will introduce the basic concepts as well as the latest technologies.   Lunch will be provided. Please

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Single-Cell Expression Profiling News

The 10X Genomics Single Cell system is the single-cell expression profiling platform enabling the analysis of large cell numbers at the highest capture efficiency (of up to 65%). The technology allows for high-throughput single cell transcriptomics of many different cell types.  A new protocol now also

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RNA-Seq Workshop – Library Preparation and Introduction to Data Analysis – August 9th to 11th 2017

August 9th, 9 a.m. – August  11th,  5 p.m. RNA-seq has revolutionized the way we address complex biological questions, allowing for differential gene expression, differential transcript analysis, as well as transcriptome assemblies. As sequencing output rapidly increases and sample numbers increase, library

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Another Update on the Barcode Mis-Assignment Issue: Illumina’s White Paper

Illumina published a white paper today on the barcode mis-assignment issue (Illumina calls it somewhat euphemistically “barcode hopping”). In contrast to the Sinha et al. paper, which only presented data for libraries with NextSeq adapter sequences, the white paper shows that

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Update on Barcode Mis-Assignment Issue

A “much-tweeted” manuscript was recently published on Biorxiv, investigating the barcode mis-assignment issues affecting HiSeq 3000, 4000, and HiSeq X, reported in our last newsletter.  Please see the manuscript here: Sinha et al. 2017 . As mentioned previously in our newsletter, the

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April News: High-Throughput Gene-Expression Analysis – Index mis-assignments on HiSeq – NextSeq sequencing – Pippin HT library size selection

New High-Throughput Gene-Expression Analysis Services (3’Tag-Seq) The DNA Technologies and the Bioinformatics Cores have been working for more than half a year with a simplified RNA-Seq protocol that promises to drastically reduce the costs of many gene-expression studies, while fully maintaining the

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PacBio Sequel Version 2 Chemistry and new Iso-Seq Protocol

PacBio Sequel Version 2 Chemistry   We have recently beta-tested the new PacBio Sequel chemistry (V2).  The tests have demonstrated significant yield and read-length improvements.  All current and future Sequel runs will be carried out with the new chemistry.  In

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Open between the holidays

We will be open before, after, and between the holidays and closed only on official UC holidays. The UC holidays are Friday the 23rd, Monday the 26th, Friday the 30th, and Monday the 2nd. Happy Holidays! The DNA Tech Core

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