This is a protocol preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Method Article
Andrew Adey
Adey Lab (Oregon Health & Science University)
Corresponding Author
License:
This work is licensed under a CC BY-NC 3.0 License. Read Full License
Single-cell genome sequencing has proven valuable for the detection of somatic variation, particularly in the context of tumor evolution. Current technologies suffer from high library construction costs which restrict the number of cells that can be assessed and thus impose limitations on the ability to measure heterogeneity within a tissue. Here, we present Single cell Combinatorial Indexed Sequencing (SCI-seq) as a means of simultaneously generating thousands of low-pass single cell libraries for somatic copy number variant detection.
Keywords
single cell, genome sequencing, combinatorial indexing, transposase
Figure 1
F.J.S. and L. C. declare competing financial interests in the form of paid employment by Illumina, Inc. One or more embodiments of one or more patents and patent applications filed by Illumina may encompass the methods, reagents, and data disclosed in this protocol. Some work in this study is related to technology described in patent applications WO2014142850, 2014/0194324, 2010/0120098, 2011/0287435, 2013/0196860, and 2012/0208705. A.A. and S.A.V. have a provisional patent filed for some of the methods pertaining to this study.
This is a list of supplementary files associated with this preprint. Click to download.
- supplement0.xlsx
Tables 1-3 Oligonucleotide Sequence Tables 1-3
- supplement0.zip
SCI-seq Software Software and Instructions for Processing SCI-seq Data Updated versions of these tools can be found at http://sci-seq.sourceforge.net.
Loading...
Version History
CURRENT STATUS: Posted
Version 1
Posted 31 Jan, 2017
No community comments so far
Metrics
Comments: 0
HTML Views: ...
Subject Areas
Biotechnology
Associated Publications
Sequencing thousands of single-cell genomes with combinatorial indexing
by Sarah A Vitak, Kristof A Torkenczy, Jimi L Rosenkrantz, +6
Nature Methods (31 January, 2017)
Method Article
Andrew Adey
Adey Lab (Oregon Health & Science University)
Corresponding Author
Version History
CURRENT STATUS: Posted
Version 1
Posted 31 Jan, 2017
No community comments so far
Metrics
Comments: 0
HTML Views: ...
Subject Areas
Biotechnology
License:
This work is licensed under a CC BY-NC 3.0 License. Read Full License
Single-cell genome sequencing has proven valuable for the detection of somatic variation, particularly in the context of tumor evolution. Current technologies suffer from high library construction costs which restrict the number of cells that can be assessed and thus impose limitations on the ability to measure heterogeneity within a tissue. Here, we present Single cell Combinatorial Indexed Sequencing (SCI-seq) as a means of simultaneously generating thousands of low-pass single cell libraries for somatic copy number variant detection.
Figure 1
Loading...
Associated Publications
Sequencing thousands of single-cell genomes with combinatorial indexing
by Sarah A Vitak, Kristof A Torkenczy, Jimi L Rosenkrantz, +6
Nature Methods (31 January, 2017)