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Protocols

Diff-seq specifications

Information


Unique identifier OMICS_26241
Name Diff-seq
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python, R
Computer skills Advanced
Version 1.0.7.5.2017
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Gavin Sherlock

Publication for Diff-seq

Diff-seq citation

call_split

MitoRCA seq reveals unbalanced cytocine to thymine transition in Polg mutant mice

2015
Sci Rep
PMCID: 4648470
PMID: 26212336
DOI: 10.1038/srep12049
call_split See protocol

[…] using the default parameters. all hits with length over 50 bp were kept as numts fragments. a total of 143 numts were defined in this way, with about 2.5× of the mitochondrial genome in size. diff-seq package of emboss suite of 6.5.7 version was used to identify single nucleotide variations between mitochondrial genome and the candidate numts. since the datasets from li et al. […]


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Diff-seq institution(s)
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA; Department of Medicine, Stanford University School of Medicine, Stanford, CA, USA; Department of Applied Physics, Stanford University, Stanford, CA, USA; Chan Zuckerberg Biohub, San Francisco, CA, USA
Diff-seq funding source(s)
Supported by Stanford Transformative Innovation Fund in Basic Biomedical Sciences Grant; National Institutes of Health Grants P50 HG007735 and U19AI057266 and Rita Allen Foundation and Human Frontiers Science Program; US Department of Defense National Defense Science and Engineering Graduate (NDSEG) Fellowship and Stanford Graduate Fellowship.

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