21 02, 2017

#AGBT17

By | February 21st, 2017|Categories: Conferences, Next-generation sequencing, Single-cell sequencing|0 Comments

This years #AGBT17 did not look as exciting as previous years have done, especially with all the major announcements being made at JP Morgan. In fact Illumina even went as far as to say they’d have no news at all during the conference! However there was […]

15 02, 2017

Nanostring Hyb&Seq

By | February 15th, 2017|Categories: Conferences, Methods and applications, Next-generation sequencing, Other stuff|Tags: , , |4 Comments

Nanostring had an interesting poster presented by Joe Beecham at last years AGBT describing their novel single-molecule hybridization-based sequencing chemistry (see AGBT and JPMorgan 2016 coverage from GenomeWeb). This utilizes the Nanostring optical barcodes in a new configuration to deliver Hyb&Seq: no amplification, no enzymes, and no […]

14 02, 2017

Understanding a 10XGenomics Cell ranger QC report

By | February 14th, 2017|Categories: "Experimental design controls etc", Single-cell sequencing|Tags: , |5 Comments

This post: “Understanding your 10XGenomics cell ranger report” originally appeared on my labs group blog but I thought that people working with single-cell who are at AGBT might like to read it too. Understanding your @10Xgenomics cell ranger reports The 10X Genomics Cell Ranger analysis […]

10 02, 2017

Finding a service provider on Genohub…”quality guaranteed”

By | February 10th, 2017|Categories: Commissioned content, Next-generation sequencing, Other stuff|0 Comments

This article was commissioned by Genohub. If you are looking for someone to run a next-generation sequencing project for you then hopefully many of the readers of the CoreGenomics blog will have seen the googlemap of NGS instruments (watch Enseqlopedia.com/NGS-mapped for a major refresh coming soon). However the […]

10 02, 2017

Fingerprinting for multiplexed single-cell RNA-seq

By | February 10th, 2017|Categories: "Experimental design controls etc", "My almost"..., 10X Genomics, Methods and applications, Next-generation sequencing, Single-cell sequencing|Tags: |0 Comments

In this post I describe an idea for using SNP fingerprinting for single-cell RNA-Seq to identify which sample each individual cell comes from in a multiplexed library prep. The reason for my thinking about this is that single-cell experiments are expensive. Although the cost-per-cell can […]

1 02, 2017

Single-cell copy number analysis with SCI-Seq

By | February 1st, 2017|Categories: Next-generation sequencing, Single-cell sequencing|0 Comments

Andrew Adey’s group at the Department of Molecular & Medical Genetics in Oregon Health & Science University published SCI-seq in Nature Methods earlier this week (it has been on the BioRxiv since July). SCI-Seq is a method for single-cell copy number analysis that is likely […]

26 01, 2017

(almost) everything you wanted to know about @illumina NovaSeq…and some stuff you didn’t

By | January 26th, 2017|Categories: Core facilities, Next-generation sequencing|0 Comments

Introducing NovaSeq This is the first part of a 2 part blog. Part 1 “everything you wanted to know about NovaSeq” covers the technical aspects of NovaSeq, Illumina’s latest sequencer launched on Jan 9th 2017. The instrument is very clearly the next proper step in Illumina technology, which […]

10 01, 2017

Illumina NovaSeq and other news

By | January 10th, 2017|Categories: Uncategorized|0 Comments

I’m not in tomorrow as I’m off to a funeral so I’ll not be writing anymore about the new sequencer from Illumina till later in the week. But here’s my initial thoughts… Illumina’s presentation at JP Morgan is over and they’ve certainly delivered. NovaSeq is the latest […]

5 01, 2017

My predictions for Illumina’s JP Morgan announcments

By | January 5th, 2017|Categories: Next-generation sequencing, Other stuff|4 Comments

I thought I’d follow Keith’s lead and make my own suggestions for what might be revealed during Illumina’s presentation at this years JPMorgan event. All the great announcements, by Illumina and everyone else, used to be made at the AGBT meeting in February and that gave […]

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