Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA

View ORCID ProfileJin Xu, Kevin Nuno, Ulrike M. Litzenburger, Yanyan Qi, M Ryan Corces, Ravindra Majeti, Howard Y. Chang
doi: https://doi.org/10.1101/480202
Jin Xu
1Center for Personal Dynamic Regulomes, Stanford, CA 94305, USA
2Dept. of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
3Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Jin Xu
Kevin Nuno
4Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, California, USA
5Division of Hematology, Department of Medicine, Stanford University School of Medicine, Stanford, California, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Ulrike M. Litzenburger
1Center for Personal Dynamic Regulomes, Stanford, CA 94305, USA
2Dept. of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
3Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Yanyan Qi
1Center for Personal Dynamic Regulomes, Stanford, CA 94305, USA
2Dept. of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
3Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
M Ryan Corces
1Center for Personal Dynamic Regulomes, Stanford, CA 94305, USA
2Dept. of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
3Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Ravindra Majeti
4Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, California, USA
5Division of Hematology, Department of Medicine, Stanford University School of Medicine, Stanford, California, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Howard Y. Chang
1Center for Personal Dynamic Regulomes, Stanford, CA 94305, USA
2Dept. of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA
3Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Supplementary material
  • Preview PDF
Loading

Abstract

Simultaneous measurement of cell lineage and cell fates is a longstanding goal in biomedicine. Here we describe EMBLEM, a strategy to track cell lineage using endogenous mitochondrial DNA variants in ATAC-seq data. We show that somatic mutations in mitochondrial DNA can reconstruct cell lineage relationships at single cell resolution with high sensitivity and specificity. Using EMBLEM, we define the genetic and epigenomic clonal evolution of hematopoietic stem cells and their progenies in patients with acute myeloid leukemia. EMBLEM extends lineage tracing to any eukaryotic organism without genetic engineering.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
Back to top
PreviousNext
Posted November 29, 2018.
Download PDF

Supplementary Material

Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA
Jin Xu, Kevin Nuno, Ulrike M. Litzenburger, Yanyan Qi, M Ryan Corces, Ravindra Majeti, Howard Y. Chang
bioRxiv 480202; doi: https://doi.org/10.1101/480202
Digg logo Reddit logo Twitter logo Facebook logo Google logo LinkedIn logo Mendeley logo
Citation Tools
Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA
Jin Xu, Kevin Nuno, Ulrike M. Litzenburger, Yanyan Qi, M Ryan Corces, Ravindra Majeti, Howard Y. Chang
bioRxiv 480202; doi: https://doi.org/10.1101/480202

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Genomics
Subject Areas
All Articles
  • Animal Behavior and Cognition (3514)
  • Biochemistry (7367)
  • Bioengineering (5347)
  • Bioinformatics (20326)
  • Biophysics (10046)
  • Cancer Biology (7777)
  • Cell Biology (11353)
  • Clinical Trials (138)
  • Developmental Biology (6453)
  • Ecology (9980)
  • Epidemiology (2065)
  • Evolutionary Biology (13357)
  • Genetics (9373)
  • Genomics (12614)
  • Immunology (7725)
  • Microbiology (19104)
  • Molecular Biology (7465)
  • Neuroscience (41153)
  • Paleontology (301)
  • Pathology (1235)
  • Pharmacology and Toxicology (2142)
  • Physiology (3180)
  • Plant Biology (6880)
  • Scientific Communication and Education (1276)
  • Synthetic Biology (1900)
  • Systems Biology (5328)
  • Zoology (1091)