Series Summary for DCD000360SR

PolyA-seq (3P-Seq) of several stages: Extensive alternative polyadenylation during zebrafish development

Survey

10.1101/gr.139733.112

GSE37453

Poly(A) sites at eight developmental stages and tissues in the zebrafish.

True

mickael.dong

Sept. 26, 2017, 7:12 a.m.

Oct. 19, 2018, 4:19 a.m.

Assays

3P-seq

Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006960BS DCD000360SR tissue Bartel Lab, Whitehead Institute for Biomedical Research WT 90 Days-2 Years adult
Applied Assay ID Biosample Replicate Assay
DCD001952AA DCD013472BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002302SQ DCD002314TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007858DT: FASTQ
DCD011438DT: BIGBED GRCz11/danRer11
DCD011439DT: BED GRCz11/danRer11
DCD011440DT: BIGWIG GRCz11/danRer11
DCD011441DT: BAM GRCz11/danRer11
DCD011442DT: BED GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006961BS DCD000360SR tissue Bartel Lab, Whitehead Institute for Biomedical Research WT 90 Days-2 Years adult
Applied Assay ID Biosample Replicate Assay
DCD001951AA DCD013473BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002301SQ DCD002313TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007857DT: FASTQ
DCD011432DT: BIGBED GRCz11/danRer11
DCD011433DT: BED GRCz11/danRer11
DCD011435DT: BAM GRCz11/danRer11
DCD011436DT: BED GRCz11/danRer11
DCD011437DT: BIGWIG GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006962BS DCD000360SR tissue Bartel Lab, Whitehead Institute for Biomedical Research WT 90 Days-2 Years adult
Applied Assay ID Biosample Replicate Assay
DCD001950AA DCD013474BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002300SQ DCD002312TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007856DT: FASTQ
DCD011428DT: BED GRCz11/danRer11
DCD011429DT: BAM GRCz11/danRer11
DCD011430DT: BED GRCz11/danRer11
DCD011431DT: BIGBED GRCz11/danRer11
DCD011434DT: BIGWIG GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006963BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT 90 Days-2 Years adult
Applied Assay ID Biosample Replicate Assay
DCD001949AA DCD013475BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002299SQ DCD002311TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007855DT: FASTQ
DCD011422DT: BAM GRCz11/danRer11
DCD011424DT: BED GRCz11/danRer11
DCD011425DT: BED GRCz11/danRer11
DCD011426DT: BIGBED GRCz11/danRer11
DCD011427DT: BIGWIG GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006964BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT Protruding-mouth 72
Applied Assay ID Biosample Replicate Assay
DCD001948AA DCD013476BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002298SQ DCD002310TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007854DT: FASTQ
DCD011417DT: BAM GRCz11/danRer11
DCD011419DT: BIGBED GRCz11/danRer11
DCD011420DT: BED GRCz11/danRer11
DCD011421DT: BIGWIG GRCz11/danRer11
DCD011423DT: BED GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006965BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT Prim-5 24
Applied Assay ID Biosample Replicate Assay
DCD001947AA DCD013477BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002297SQ DCD002309TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007853DT: FASTQ
DCD011413DT: BIGBED GRCz11/danRer11
DCD011414DT: BED GRCz11/danRer11
DCD011415DT: BIGWIG GRCz11/danRer11
DCD011416DT: BED GRCz11/danRer11
DCD011418DT: BAM GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006966BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT Shield 6
Applied Assay ID Biosample Replicate Assay
DCD001946AA DCD013478BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002296SQ DCD002308TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 unstranded 06/17/2012
DCD007852DT: FASTQ
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002295SQ DCD002307TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007851DT: FASTQ
DCD011407DT: BIGBED GRCz11/danRer11
DCD011408DT: BED GRCz11/danRer11
DCD011410DT: BIGWIG GRCz11/danRer11
DCD011411DT: BAM GRCz11/danRer11
DCD011412DT: BED GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006967BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT Sphere 4
Applied Assay ID Biosample Replicate Assay
DCD001945AA DCD013479BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002294SQ DCD002306TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007850DT: FASTQ
DCD011402DT: BIGBED GRCz11/danRer11
DCD011403DT: BED GRCz11/danRer11
DCD011405DT: BAM GRCz11/danRer11
DCD011406DT: BED GRCz11/danRer11
DCD011409DT: BIGWIG GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006968BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT 16-cell 1.5
Applied Assay ID Biosample Replicate Assay
DCD001944AA DCD013480BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002293SQ DCD002305TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 unstranded 06/17/2012
DCD007849DT: FASTQ
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002292SQ DCD002304TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 unstranded 06/17/2012
DCD007848DT: FASTQ
DCD011397DT: BED GRCz11/danRer11
DCD011399DT: BAM GRCz11/danRer11
DCD011400DT: BED GRCz11/danRer11
DCD011401DT: BIGBED GRCz11/danRer11
DCD011404DT: BIGWIG GRCz11/danRer11
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002291SQ DCD002303TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007847DT: FASTQ
DCD011392DT: BAM GRCz11/danRer11
DCD011394DT: BED GRCz11/danRer11
DCD011395DT: BIGBED GRCz11/danRer11
DCD011396DT: BED GRCz11/danRer11
DCD011398DT: BIGWIG GRCz11/danRer11
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002290SQ DCD002302TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007846DT: FASTQ
DCD011388DT: BAM GRCz11/danRer11
DCD011389DT: BIGBED GRCz11/danRer11
DCD011390DT: BED GRCz11/danRer11
DCD011391DT: BIGWIG GRCz11/danRer11
DCD011393DT: BED GRCz11/danRer11
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD006969BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT 1-cell 0.2
Applied Assay ID Biosample Replicate Assay
DCD001943AA DCD013481BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Strand Sequencing Date
DCD002289SQ DCD002301TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx unstranded 06/17/2012
DCD007845DT: FASTQ
DCD011383DT: BIGBED GRCz11/danRer11
DCD011384DT: BED GRCz11/danRer11
DCD011385DT: BIGWIG GRCz11/danRer11
DCD011386DT: BED GRCz11/danRer11
DCD011387DT: BAM GRCz11/danRer11