GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE112471 Query DataSets for GSE112471
Status Public on Sep 20, 2018
Title Robust single-cell DNA methylome profiling with snmC-seq2
Organisms Homo sapiens; Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Single-cell DNA methylome profiling has enabled the study of epigenomic heterogeneity in complex tissues and during cellular reprogramming. However, broader applications of the method have been impeded by the modest quality of sequencing libraries. Here we report snmC-seq2, which provides improved read mapping, reduced artificial reads, enhanced throughput, and increased library complexity compared to snmC-seq. snmC-seq2 is an efficient strategy suited for large scale single-cell epigenomic studies.
Overall design Single-cell DNA methylome profiling with snmC-seq2
Contributor(s) Luo C, Rivkin A, Zhou J, Sandoval JP, Kurihara L, Lucero J, Castanon R, Nery JR, Pinto-Duarte A, Bui B, Fitzpatrick C, O'Connor C, Ruga S, Van Eden ME, Davis DA, Mash DC, Behrens MM, Ecker JR
Citation(s) 30237449
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 ES025585 Environmental contribution to neuronal-methylome dynamics in animal models of autism spectrum disorders THE SALK INSTITUTE FOR BIOLOGICAL STUDIES Joseph R Ecker
R21 HG009274 Multidimensional Epigenomic Single Cell Analyses THE SALK INSTITUTE FOR BIOLOGICAL STUDIES Joseph R Ecker
R21 MH112161 Epigenomic Approaches for Unbiased Single Human-Neuron Subtype Census THE SALK INSTITUTE FOR BIOLOGICAL STUDIES Joseph R Ecker
U01 MH105985 Epigenomic mapping approaches for cell-type classification in the brain THE SALK INSTITUTE FOR BIOLOGICAL STUDIES Joseph R Ecker
U19 MH114831 Center for Epigenomics of the Mouse Brain Atlas (CEMBA) THE SALK INSTITUTE FOR BIOLOGICAL STUDIES Joseph R Ecker
Submission date Mar 28, 2018
Last update date Mar 21, 2019
Contact name Joseph R Ecker
Phone 8584534100
Organization name HHMI-Salk-Institute
Department Genomic Analysis Laboratory
Lab Ecker lab
Street address 10010 North Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (249)
GSM3070589 Pool_1681_AD010_indexed
GSM3070590 Pool_1686_AD006_indexed
GSM3070591 Pool_1693_AD008_indexed
BioProject PRJNA447435
SRA SRP136737

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE112471_RAW.tar 37.2 Gb (http)(custom) TAR (of TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap