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

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 Controlled By anatomical_term Treatment Hours Post Fertilization Mutation Description
DCD006969BS DCD000360SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research WT 1-cell 0.2
Applied Assay ID Biosample Replicate Assay Controlled By
DCD001943AA DCD013481BR 3P-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Chemistry Version Paired End Strand Maximum Read Length 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