Welcome to the 10x Blog

From tips and tricks to 10x news, our blog is here to help you learn about all things 10x. Let us know what topics you would like to see in the Community Suggestions forum.

In a new Cell Stem Cell publication, Yan et al, demonstrate the utility of single cell RNA-seq to study intestinal stem cell heterogeneity, lineage hierarchy and identify potential new stem cell markers.
Researchers at Stanford University have developed novel bioinformatics tools that leverage 10x Genomics’ Linked-Read sequencing to phase and resolve the complete structure of cancer genomic rearrangements. 
The introduction of single cell technologies has provided researchers the tools to dissect and understand biological systems like never before.  Insights into the burgeoning single-cell field has recently been the focus of a special issue in Nature.
Two recent publications applied the power of Linked-Reads and the Chromium™ Genome Solution to genetically characterize gastric and triple-negative breast cancer. In both cases, the researchers discovered complex genomic rearrangements that they associated with the amplification of oncogenic driver genes.
New to 10x or need a refresher?  No problem.  Check out our new Chromium™ Single Cell 3’ training video series. Learn more about GemCode™ technology, single cell sample prep, data analysis and more.
Get the most out of your Linked-Read data with Long Ranger™ version 2.1.4: improved run-times, extended support for NovaSeq and more.
In a new scientific seminar video, Dr. Britt Adamson, a Postdoctoral Fellow from the Weissman Lab at UCSF, presents her work using a novel method, Perturb-seq, to dissect the dynamic transcriptional mechanisms of the unfolded protein response.
In our June 22nd Nature Webcast, Dr. Aude Chapuis, who was recently awarded initial funding in a competition to develop projects that utilize single-cell RNA sequencing to improve research into immunotherapy-based cancer treatment, presented her T-cell immunotherapy research, highlighting the applications of scRNA-seq in developing new T-cell therapy approaches.
In a recent article in GEN, Brian Fritz, Ph.D. describes how the Chromium™ Single Cell V(D)J Solution reveals true T-cell diversity by combining microfluidics and 5' molecular barcoding to assemble full-length V(D)J sequences on a cell-by-cell basis.
A collaborative research study with Stanford University School of Medicine researchers was recently published in Nature. The article, “Non-equivalence of Wnt and R-spondin ligands during Lgr5+ intestinal stem-cell self-renewal,” describes how the 10x Genomics’ Single Cell 3’ Solution for single-cell RNA-seq (scRNA-seq) was utilized to help unravel the priming and self-renewal mechanisms of intestinal stem cells (ISCs).     
Using single-cell sequencing and a battery of molecular tools, the authors achieved unprecedented insight into epithelial cell lineage relationships and the dynamics of differentiation in murine lacrimal gland development.
The International Society for Stem Cell Research (ISSCR) annual meeting brings together stem cell researchers from around the world to share their work, discuss tools and techniques, and advance stem cell science and regenerative medicine.  Join us for our Innovation Showcase on Friday June 16 featuring 10x's Tarjei Mikkelsen and featured guest speaker, Julie Sneddon, Assitant Professor, UCSF School of Medicine.
There are many examples of how microbes influence the behavior of animals; however, studying the molecular basis for microbial behavior manipulation has suffered from a lack of tools. At our Bay Area User Group Meeting, Carolyn Elya spoke about establishing a D. melanogaster – E. muscae system and setting out to sequence and assemble the mind-controlling fungal pathogen.
Using 10x Linked-Read technology combined with standard, short-read sequencing, Dr. Noah Spies and his team at Stanford University were able to develop a statistical method for complex structural variant detection—Genome-wide Reconstruction of Complex Structural Variants (GROC-SVs).
The Supernova™ Assembler enables true diploid assembly from Linked-Reads and the latest release makes everyday de novo assembly more accessible than ever.
Profile full-length paired V(D)J transcripts from hundreds to millions of lymphocytes with the new Chromium™ Single Cell V(D)J Software Suite – part of the Chromium™ Single Cell V(D)J Solution.
Seattle Children’s announces the first clinical trial applying next-generation T-cell receptor (TCR) sequencing and single-cell gene expression analysis to better understand the role of the immune system in inflammatory bowel disease and graft-versus host disease in pediatric patients.
We'll be at ESHG 2017 in Copenhagen! Join us for our Corporate Satellite on Monday, May 29th to hear more about the Chromium System, 10x Software Solutions and more.
There’s a growing number of data analysis tools being developed for single cell and Linked-Read applications, including gene expression, genome assembly, structural variant detection and more.  Check out the list we’ve compiled so far.
Genomic analysis is an important tool for conservation biology, enabling researchers to help better understand and preserve endangered species. In a new Biorxiv preprint, researchers at Johns Hopkins describe a cost-effective and low DNA input method of de novo assembly for the endangered Hawaiian monk seal genome using 10x Linked-Reads and Supernova™ software.
Although thousands of human genomes have been sequenced in the last decade, de novo assembly of individual genomes is not common due to the high cost and experimental burden.  In a recent Genome Research paper, Weisenfeld et al describe a straightforward, low cost method for creating true diploid de novo assemblies using 10x Genomics Linked-Reads and the Supernova™ assembler.
Five scientists from Fred Hutchinson Cancer Research Center were awarded the initial stage of funding in a competition sponsored by the Immunotherapy Integrated Research Center to develop projects that utilize single-cell RNA sequencing and 10x Genomics technology.
The large scale and repetitive nature of conifer genomes make them an important benchmark for assembly technologies. At 31 Gb, the Pinus lambertiana (sugar pine) genome is the largest genome assembled to date. Using the GemCode™ System from 10x Genomics, researchers at UC Davis scaffolded the de novo assembly and produced a new reference assembly for sugar pine with 8-fold improvement in contiguity.
This month The Scientist is featuring a 10x Genomics infographic, “Revolutionizing Gene Expression with Single-Cell RNA-seq”, recognizing the promise of single cell analysis for powering discoveries in immunology, neurology, stem cell biology, oncology, and immuno-oncology.
It’s the last day of #AACR17 and there’s still some great science to be seen.  And, don’t forget to stop by Booth #1644 to see how our single cell analysis and Linked-Read genomic analysis solutions can help advance your cancer research. 
It’s day four at #AACR17 and the inspiring science continues.  Refuel with some coffee and check out these posters that utilized 10x technology for single cell analysis and whole genome sequencing (WGS) with Linked-Reads.
AACR is officially in full swing!  Make sure to check out Poster 1436 "Identification of novel tumor suppressor candidates in familial cholangiocarcinoma using sequencing-based Megabase-scale haplotypes from germline and cancer genomes" today from 8am - 12pm in Section 17, Board 5.
Today’s the day! Don’t miss our workshop “Comprehensive Single Cell Analysis and Cancer Genomics with the Chromium™ System” featuring talks by 10x's Tarjei Mikkelsen and Dr. Hanlee Ji from Stanford University.
AACR 2017 has officially begun, and we want to make sure you stay up-to-date with all the exciting 10x events and announcements going on here in Washington, D.C.  Here's what's going on for Day 1.
To celebrate Women's History Month we talked to four 10x’ers about how they got into science, what they do at 10x, and how we can all promote women in science.  March is almost over, but we've still one more 10x’er for you to meet - Kamila Belhocine, a scientist on our molecular biology team.