DANIO-CODE DCC

Series Summary for DCD000072SR

Active DNA demethylation at enhancers during the vertebrate phylotypic period (MethylC-Seq, ATAC-seq, TAB-seq, RNA-seq)

Series type: Case Control

Publication: 10.1038/ng.3522

GEO/SRA ID: GSE68087

Description: MethylC-Seq, TAB-seq, ATAC-seq and RNA-seq in zebrafish embryos. Also, MethylC-Seq in zebrafish tissues

Is public: True

Added by User: panosfirbas

Date Added: May 6, 2016, 5:15 a.m.

Series Last Edited: Feb. 28, 2019, 12:46 a.m.

Assays

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD000152BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD000589AA	DCD000459BR	ATAC-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD000394SQ	DCD000597TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 2000	01/01/2015

DCD000158DT: FASTQ

DCD007781DT: BED GRCz10/danRer10

DCD007784DT: BIGWIG GRCz10/danRer10

DCD007785DT: BIGWIG GRCz10/danRer10

DCD007786DT: BED GRCz10/danRer10

DCD007787DT: BIGWIG GRCz10/danRer10

DCD007789DT: LOG GRCz10/danRer10

DCD007790DT: LOG GRCz10/danRer10

DCD007791DT: LOG GRCz10/danRer10

DCD007792DT: LOG GRCz10/danRer10

DCD007793DT: BED GRCz10/danRer10

DCD007794DT: LOG GRCz10/danRer10

DCD007795DT: LOG GRCz10/danRer10

DCD007796DT: LOG GRCz10/danRer10

DCD007797DT: LOG GRCz10/danRer10

DCD007798DT: LOG GRCz10/danRer10

DCD007799DT: BED GRCz10/danRer10

DCD007800DT: BED GRCz10/danRer10

DCD007801DT: BED GRCz10/danRer10

DCD007802DT: BED GRCz10/danRer10

DCD007803DT: BED GRCz10/danRer10

DCD007804DT: BED GRCz10/danRer10

DCD007805DT: BED GRCz10/danRer10

DCD007806DT: BED GRCz10/danRer10

DCD007807DT: BIGWIG GRCz10/danRer10

DCD007808DT: BIGWIG GRCz10/danRer10

DCD007835DT: BAM GRCz10/danRer10

DCD007836DT: BAM GRCz10/danRer10

DCD008904DT: BIGNARROWPEAK GRCz10/danRer10

DCD018705DT: BIGNARROWPEAK GRCz10/danRer10

DCD018706DT: BIGNARROWPEAK GRCz10/danRer10

DCD018707DT: BIGWIG GRCz10/danRer10

DCD018708DT: BED GRCz10/danRer10

DCD018715DT: BAM GRCz10/danRer10

DCD019013DT: BIGNARROWPEAK GRCz11/danRer11

DCD019016DT: BIGNARROWPEAK GRCz11/danRer11

DCD019017DT: BED GRCz11/danRer11

DCD019018DT: BIGWIG GRCz11/danRer11

DCD019027DT: BAM GRCz11/danRer11

Applied Assay ID	Biosample Replicate	Assay
DCD000590AA	DCD000460BR	ATAC-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD000395SQ	DCD000598TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 2000	01/01/2015

DCD000162DT: FASTQ

DCD007700DT: BED GRCz10/danRer10

DCD007701DT: BED GRCz10/danRer10

DCD007702DT: BED GRCz10/danRer10

DCD007703DT: BIGWIG GRCz10/danRer10

DCD007704DT: BIGWIG GRCz10/danRer10

DCD007705DT: BIGWIG GRCz10/danRer10

DCD007706DT: BAM GRCz10/danRer10

DCD007708DT: LOG GRCz10/danRer10

DCD007709DT: LOG GRCz10/danRer10

DCD007710DT: BIGWIG GRCz10/danRer10

DCD007711DT: LOG GRCz10/danRer10

DCD007712DT: LOG GRCz10/danRer10

DCD007713DT: LOG GRCz10/danRer10

DCD007714DT: LOG GRCz10/danRer10

DCD007715DT: LOG GRCz10/danRer10

DCD007716DT: LOG GRCz10/danRer10

DCD007717DT: LOG GRCz10/danRer10

DCD007718DT: BED GRCz10/danRer10

DCD007719DT: BED GRCz10/danRer10

DCD007720DT: BED GRCz10/danRer10

DCD007721DT: BED GRCz10/danRer10

DCD007722DT: BED GRCz10/danRer10

DCD007723DT: BED GRCz10/danRer10

DCD007724DT: BED GRCz10/danRer10

DCD007725DT: BED GRCz10/danRer10

DCD007726DT: BIGWIG GRCz10/danRer10

DCD007788DT: BAM GRCz10/danRer10

DCD008903DT: BIGNARROWPEAK GRCz10/danRer10

DCD018710DT: BAM GRCz10/danRer10

DCD018711DT: BIGNARROWPEAK GRCz10/danRer10

DCD018712DT: BIGNARROWPEAK GRCz10/danRer10

DCD018713DT: BIGWIG GRCz10/danRer10

DCD018714DT: BED GRCz10/danRer10

DCD019019DT: BED GRCz11/danRer11

DCD019020DT: BIGNARROWPEAK GRCz11/danRer11

DCD019021DT: BIGNARROWPEAK GRCz11/danRer11

DCD019023DT: BAM GRCz11/danRer11

DCD019024DT: BIGWIG GRCz11/danRer11

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD006644BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Long-pec	48

Applied Assay ID	Biosample Replicate	Assay
DCD001404AA	DCD012900BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001221SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000885DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001222SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000882DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001230SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000881DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001233SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000884DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001240SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000886DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001270SQ	DCD001429TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000883DT: FASTQ

DCD018639DT: BEDGRAPH GRCz10/danRer10

DCD018641DT: BIGWIG GRCz10/danRer10

Applied Assay ID	Biosample Replicate	Assay
DCD002967AA	DCD014385BR	TAB-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003306SQ	DCD003460TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD017686DT: FASTQ

DCD018652DT: BEDGRAPH GRCz10/danRer10

DCD018655DT: BIGWIG GRCz10/danRer10

DCD018656DT: BEDGRAPH GRCz10/danRer10

DCD018657DT: BIGWIG GRCz10/danRer10

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD006645BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD001401AA	DCD012898BR	TAB-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001214SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000873DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001215SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000879DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001216SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000875DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001218SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000871DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001227SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000877DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001229SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000874DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001256SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000869DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001257SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000868DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001259SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000880DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001261SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000878DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001264SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000867DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001265SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000870DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001266SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000866DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001267SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000872DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001269SQ	DCD001421TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2015

DCD000876DT: FASTQ

DCD018637DT: BEDGRAPH GRCz10/danRer10

DCD018640DT: BIGWIG GRCz10/danRer10

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD006646BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD001405AA	DCD012895BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001212SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001008DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001242SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000968DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001243SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000970DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001244SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000973DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001245SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000976DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001272SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000996DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001273SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000995DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001274SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001005DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001275SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001001DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001276SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000988DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001277SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000985DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001278SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000992DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001279SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000990DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001282SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000981DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001283SQ	DCD001425TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000979DT: FASTQ

DCD018646DT: BEDGRAPH GRCz10/danRer10

DCD018649DT: BIGWIG GRCz10/danRer10

Applied Assay ID	Biosample Replicate	Assay
DCD001406AA	DCD012896BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001220SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000928DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001225SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000930DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001228SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000946DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001231SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000943DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001234SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000953DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001235SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000959DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001236SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000963DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001237SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000964DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001239SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000935DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001254SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000925DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001262SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000918DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001268SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000939DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001280SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000947DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001281SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000921DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001284SQ	DCD001424TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD000950DT: FASTQ

DCD018650DT: BEDGRAPH GRCz10/danRer10

DCD018651DT: BEDGRAPH GRCz10/danRer10

DCD018653DT: BIGWIG GRCz10/danRer10

DCD018654DT: BIGWIG GRCz10/danRer10

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD006647BS	DCD000072SR	tissue	Sauka-Spengler Lab, University of Oxford	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD001403AA	DCD012903BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001209SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000887DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001210SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000889DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001211SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000891DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001213SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000909DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001217SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000911DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001219SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000914DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001223SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000906DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001224SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000899DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001226SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000901DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001232SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000897DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001238SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000892DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001241SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000902DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001252SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000896DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001255SQ	DCD001427TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2014

DCD000894DT: FASTQ

DCD018644DT: BEDGRAPH GRCz10/danRer10

DCD018647DT: BIGWIG GRCz10/danRer10

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD006648BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	90%-epiboly	8.5

Applied Assay ID	Biosample Replicate	Assay
DCD001407AA	DCD012899BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001246SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001020DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001247SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001015DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001248SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001024DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001249SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001021DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001250SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001029DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001251SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001025DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001253SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001031DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD001258SQ	DCD001423TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	01/01/2013

DCD001012DT: FASTQ

DCD018638DT: BEDGRAPH GRCz10/danRer10

DCD018643DT: BIGWIG GRCz10/danRer10

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD007257BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD002669AA	DCD014035BR	RNA-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003069SQ	DCD003099TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 1500	01/30/2016

DCD011066DT: FASTQ

Applied Assay ID	Biosample Replicate	Assay
DCD002667AA	DCD014037BR	RNA-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003070SQ	DCD003100TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 1500	01/30/2016

DCD011065DT: FASTQ

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD007258BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD002670AA	DCD014036BR	RNA-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003071SQ	DCD003101TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 1500	01/30/2016

DCD011068DT: FASTQ

Applied Assay ID	Biosample Replicate	Assay
DCD002668AA	DCD014038BR	RNA-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003068SQ	DCD003098TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 1500	01/30/2016

DCD011067DT: FASTQ

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD007260BS	DCD000072SR	whole organism	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	Prim-5	24

Applied Assay ID	Biosample Replicate	Assay
DCD002673AA	DCD014041BR	ATAC-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Sequencing Date
DCD003074SQ	DCD003104TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 2000	01/01/2015

DCD011069DT: FASTQ

DCD018716DT: BIGNARROWPEAK GRCz10/danRer10

DCD018717DT: BIGNARROWPEAK GRCz10/danRer10

DCD018718DT: BIGWIG GRCz10/danRer10

DCD018719DT: BED GRCz10/danRer10

DCD018720DT: BAM GRCz10/danRer10

DCD019025DT: BIGNARROWPEAK GRCz11/danRer11

DCD019026DT: BED GRCz11/danRer11

DCD019028DT: BIGNARROWPEAK GRCz11/danRer11

DCD019029DT: BAM GRCz11/danRer11

DCD019030DT: BIGWIG GRCz11/danRer11

Applied Assay ID	Biosample Replicate	Assay
DCD002674AA	DCD014042BR	ATAC-seq_Skarmeta_Lab_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003075SQ	DCD003105TR	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	Illumina	HiSeq 2000	—	—	01/01/2015

DCD011070DT: FASTQ

DCD018721DT: BIGNARROWPEAK GRCz10/danRer10

DCD018722DT: BIGNARROWPEAK GRCz10/danRer10

DCD018723DT: BIGWIG GRCz10/danRer10

DCD018724DT: BED GRCz10/danRer10

DCD018725DT: BAM GRCz10/danRer10

DCD019031DT: BED GRCz11/danRer11

DCD019032DT: BIGNARROWPEAK GRCz11/danRer11

DCD019033DT: BIGNARROWPEAK GRCz11/danRer11

DCD019034DT: BAM GRCz11/danRer11

DCD019035DT: BIGWIG GRCz11/danRer11

Biosample ID	Series	biosample_type	biosample_lab	genetic_background	stage	Hours Post Fertilization
DCD007394BS	DCD000072SR	tissue	Skarmeta Lab, Centro Andaluz de Biologia del Desarrollo	AB/TU	90 Days-2 Years	adult

Applied Assay ID	Biosample Replicate	Assay
DCD002966AA	DCD014384BR	MethylC-seq_Lister_lab_DNA_0001AS

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Chemistry Version	Paired End	Strand	Maximum Read Length	Sequencing Date
DCD003305SQ	DCD003458TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	—	✘	unstranded	100	01/29/2016

DCD017678DT: FASTQ

DCD018645DT: BEDGRAPH GRCz10/danRer10

DCD018648DT: BIGWIG GRCz10/danRer10

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003298SQ	DCD003456TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017683DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003301SQ	DCD003455TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017684DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003297SQ	DCD003454TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017685DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003302SQ	DCD003453TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017679DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003304SQ	DCD003452TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017680DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003299SQ	DCD003451TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017681DT: FASTQ

Sequencing ID	Technical Replicate	Sequencing Lab	Platform	Instrument	Strand	Maximum Read Length	Sequencing Date
DCD003300SQ	DCD003450TR	Lister lab, University of Western Australia	Illumina	HiSeq 1500	unstranded	100	01/29/2016

DCD017682DT: FASTQ

Series Summary for DCD000072SR

Active DNA demethylation at enhancers during the vertebrate phylotypic period (MethylC-Seq, ATAC-seq, TAB-seq, RNA-seq)

Assays

ATAC-seq

MethylC-seq

RNA-seq

TAB-seq