Series Summary for DCD000370SR

RNA-seq, Ribo-seq and PAL-seq of 3 stages: Poly(A)-tail profiling reveals an embryonic switch in translational control

Case Control

10.1038/nature13007

GSE52809

Here we describe poly(A)-tail length profiling by sequencing (PAL-seq) and apply it to measure tail lengths of millions of individual RNAs isolated from yeasts, cell lines, Arabidopsis thaliana leaves, mouse liver, and zebrafish and frog embryos. Poly(A)-tail lengths were conserved between orthologous mRNAs, with mRNAs encoding ribosomal proteins and other 'housekeeping' proteins tending to have shorter tails.

True

mickael.dong

Oct. 9, 2017, 8:36 a.m.

March 12, 2018, 3:49 a.m.

Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007002BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB 64-cell 2
Applied Assay ID Biosample Replicate Assay
DCD001979AA DCD013550BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002337SQ DCD002349TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007893DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001978AA DCD013551BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002336SQ DCD002348TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007892DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001977AA DCD013552BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002335SQ DCD002347TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007891DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007003BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Sphere 4
Applied Assay ID Biosample Replicate Assay
DCD001982AA DCD013547BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002340SQ DCD002352TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007896DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001981AA DCD013548BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002339SQ DCD002351TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007895DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001980AA DCD013549BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002338SQ DCD002350TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007894DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007004BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Shield 6
Applied Assay ID Biosample Replicate Assay
DCD001985AA DCD013544BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002343SQ DCD002355TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007899DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001984AA DCD013545BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002342SQ DCD002354TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007898DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001983AA DCD013546BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002341SQ DCD002353TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007897DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007005BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB 64-cell 2
Applied Assay ID Biosample Replicate Assay
DCD001988AA DCD013541BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002346SQ DCD002358TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007902DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001987AA DCD013542BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002345SQ DCD002357TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007901DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001986AA DCD013543BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002344SQ DCD002356TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007900DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007006BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB 64-cell 2
Applied Assay ID Biosample Replicate Assay
DCD001991AA DCD013538BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002349SQ DCD002361TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007905DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001990AA DCD013539BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002348SQ DCD002360TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007904DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001989AA DCD013540BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002347SQ DCD002359TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007903DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007007BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Sphere 4
Applied Assay ID Biosample Replicate Assay
DCD001994AA DCD013535BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002352SQ DCD002364TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007908DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001993AA DCD013536BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002351SQ DCD002363TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007907DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001992AA DCD013537BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002350SQ DCD002362TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007906DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007008BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Sphere 4
Applied Assay ID Biosample Replicate Assay
DCD001997AA DCD013532BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002355SQ DCD002367TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007911DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001996AA DCD013533BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002354SQ DCD002366TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007910DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001995AA DCD013534BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002353SQ DCD002365TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007909DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007009BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Shield 6
Applied Assay ID Biosample Replicate Assay
DCD002000AA DCD013529BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002358SQ DCD002370TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007914DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001999AA DCD013530BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002357SQ DCD002369TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007913DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD001998AA DCD013531BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002356SQ DCD002368TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007912DT: FASTQ
Biosample ID Series biosample_type biosample_lab genetic_background stage Hours Post Fertilization
DCD007010BS DCD000370SR whole organism Bartel Lab, Whitehead Institute for Biomedical Research AB Shield 6
Applied Assay ID Biosample Replicate Assay
DCD002003AA DCD013526BR PAL-seq_Bartel_Lab_0003AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002361SQ DCD002373TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina GAIIx 01/09/2014
DCD007917DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD002002AA DCD013527BR Ribo-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002360SQ DCD002372TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007916DT: FASTQ
Applied Assay ID Biosample Replicate Assay
DCD002001AA DCD013528BR miRNA-seq_Bartel_Lab_0001AS
Sequencing ID Technical Replicate Sequencing Lab Platform Instrument Sequencing Date
DCD002359SQ DCD002371TR Bartel Lab, Whitehead Institute for Biomedical Research Illumina HiSeq 2000 01/09/2014
DCD007915DT: FASTQ