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linnarssonlab.org

Counting mRNA molecules in single cells (paper)

http://linnarssonlab.org/publications/2013/12/22/counting-molecules

Counting mRNA molecules in single cells (paper). Dec 22, 2013. One of the major challenges in single-cell transcriptomics is the distortion introduced by the unavoidable amplification step. In this new paper, we show that nearly all this distortion can be removed by labeling individual cDNA molecules with short, random sequences. The paper builds on previous work. Quantitative single-cell RNA-seq with unique molecular identifiers. Published in Nature Methods.

linnarssonlab.org

Single-cell analysis of dorsal root ganglia (paper)

http://linnarssonlab.org/publications/2014/11/24/drg-paper

Single-cell analysis of dorsal root ganglia (paper). Nov 24, 2014. We performed a comprehensive molecular census of the dorsal root ganglion by analyzing 622 single neurons. We found 11 distinct types of sensory neurons, and were able to map them back to the tissue using combinatorial immunohistochemistry. Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Published in Nature Neuroscience.

linnarssonlab.org

People

http://linnarssonlab.org/people

Job van der Zwan. I was just guessing at numbers and figures, pulling the puzzles apart. Questions of science, science and progress. Do not speak as loud as my heart. Tell me you love me, come back and haunt me. Oh, and I rush to the start. Running in circles, chasing our tails, coming back as we are. Nobody said it was easy. Ever since i was eight or nine, I’ve been standing on the shoreline. I’m proud to be an Okie from Muskogee. Workin’ 9 to 5. Bioinformatician and professional harpsichordist. Well I ...

linnarssonlab.org

Single cancer stem cells drive myelodysplastic disease (paper)

http://linnarssonlab.org/publications/2014/05/13/cancer-cell-paper

Single cancer stem cells drive myelodysplastic disease (paper). May 13, 2014. Myelodysplastic syndrome is a leukemic syndrome that often progresses to life-threatening AML. In a new study, we show that mutations found in the bulk of the tumor originate in individual hematopoietic stem cells, demonstrating clearly that this disease is driven by the stem cells. Myelodysplastic Syndromes Are Propagated by Rare and Distinct Human Cancer Stem Cells In Vivo. Published in Cancer Cell.

linnarssonlab.org

Single-cell analysis of mouse cortex

http://linnarssonlab.org/cortex

Single-cell analysis of mouse cortex. This page contains additional data supporting our manuscript. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Amit Zeisel, Ana B. Muñoz Manchado, Peter Lönnerberg, Gioele La Manno, Simone Codeluppi, Anna Juréus, Sueli Marques, Hermany Munguba, Liqun He, Christer Betsholtz, Charlotte Rolny, Gonçalo Castelo-Branco, Jens Hjerling-Leffler and Sten Linnarsson. Looking for data on perivascular macrophages? Very large PDF) in heatmap order.

linnarssonlab.org

Cell types of the cortex and hippocampus revealed by single-cell RNA-seq (paper)

http://linnarssonlab.org/publications/2015/02/19/cortex

Cell types of the cortex and hippocampus revealed by single-cell RNA-seq (paper). Feb 19, 2015. We applied single-cell analysis to the mouse cortex and hippocampus - to our knowledge the most complex tissues analyzed in this way by single-cell methods. We describe 47 distinct subclasses of cells, and find that transcription factors form a complex, layered regulatory code. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Nya hjärnceller upptäckta Uppsala Nya Tidning.

linnarssonlab.org

About

http://linnarssonlab.org/about

Our research focuses on single-cell biology, in particular applying single-cell expression analysis to discover the cell types and lineages of the mouse nervous system. The long-term goal of our research is to map the stable cellular states (‘cell types’) that mammalian organs are made of, and to understand the regulatory networks that induce and maintain them. To learn more, check out our recent Papers. In the group, or get in touch.

linnarssonlab.org

My Genome

http://linnarssonlab.org/genome

This page collects genetic information and raw sequence data that I have collected from my own DNA. Feel free to download for non-commercial use, but please acknowledge the source in any publication. Scroll down to find:. My Y chromosome haplotype. Genotype data for 500,000 SNPs. My genome (shallow sequencing). Paternal ancestry by Y-chromosome haplotyping. Project. Since the Y chromosome is only inherited from your father (and his father, and his father’s father, and his father’s father’s father. Anyway...

linnarssonlab.org

Amplification-free sequencing (paper)

http://linnarssonlab.org/publications/2015/01/25/ampfree

Jan 25, 2015. We describe an amplification-free method for sequencing of cell-free DNA, even from low levels of starting material. We evaluated this method in the context of prenatal diagnosis of fetal aneuploidy and compared it with a PCR-based library preparation method as well as a recently described method using unique molecular identifiers (UMI). All methods performed well, however coverage was increased by the amplification-free method and GC-induced bias was reduced by both the amplification-f...