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| Status |
Public on Oct 12, 2016 |
| Title |
RNA-seq analysis in C. elegans larval development and heat shock |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To understand the function and regulation of the C. elegans heat shock factor (HSF-1) in larval development, we have used ChIP-seq to analyze the occupancy of HSF1 and RNA Pol II in L2 larvae and young adult (YA) animals grown at 20°C or upon heat shock at 34°C for 30 min. In addition, we have used RNA-seq to analyze the transcriptomes of wild type (N2), hsf-1(ok600) mutants and hsf-1(ok600); rmSi1[hsf-1::gfp] L2 larvae grown at 20°C and characterized the gene expression change by heat shock in wild type (N2), hsf-1(sy441) and hsf-1(sy441);rmSi1[hsf-1::gfp] animals at L2 stage.
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| Overall design |
Experiment type: RNA-seq. Biological Source: strain: N2, hsf-1(sy441), hsf-1(sy441);rmSi1[hsf-1::gfp]; developmental dtage: L2 Larva. Experimental Factors: temperature: 20 degree celsius, 34 degree celsius.
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| Contributor(s) |
Morimoto RI, Li J |
| Citation(s) |
27688402 |
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| Submission date |
May 17, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jian Li |
| E-mail(s) |
[email protected]
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| Organization name |
Northwestern University
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| Department |
Molecular Biosciences
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| Lab |
Morimoto
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| Street address |
2205 Tech Drive, Hogan 2-100
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| City |
Evanston |
| State/province |
IL |
| ZIP/Postal code |
60208 |
| Country |
USA |
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| Platforms (1) |
| GPL13657 |
Illumina HiSeq 2000 (Caenorhabditis elegans) |
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| Samples (18)
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| GSM2155050 |
RNA-seq of L2 larvae at 20°C, replicate 1 |
| GSM2155051 |
RNA-seq of L2 larvae at 20°C, replicate 2 |
| GSM2155052 |
RNA-seq of L2 larvae at 20°C, replicate 3 |
| GSM2155053 |
RNA-seq of L2 larvae at 34°C, replicate 1 |
| GSM2155054 |
RNA-seq of L2 larvae at 34°C, replicate 2 |
| GSM2155055 |
RNA-seq of L2 larvae at 34°C, replicate 3 |
| GSM2293711 |
RNA-seq of hsf-1(sy441) L2 larvae at 20°C, replicate 1 |
| GSM2293712 |
RNA-seq of hsf-1(sy441) L2 larvae at 20°C, replicate 2 |
| GSM2293713 |
RNA-seq of hsf-1(sy441) L2 larvae at 20°C, replicate 3 |
| GSM2293714 |
RNA-seq of hsf-1(sy441) L2 larvae at 34°C, replicate 1 |
| GSM2293715 |
RNA-seq of hsf-1(sy441) L2 larvae at 34°C, replicate 2 |
| GSM2293716 |
RNA-seq of hsf-1(sy441) L2 larvae at 34°C, replicate 3 |
| GSM2293717 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 20°C, replicate 1 |
| GSM2293718 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 20°C, replicate 2 |
| GSM2293719 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 20°C, replicate 3 |
| GSM2293720 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 34°C, replicate 1 |
| GSM2293721 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 34°C, replicate 2 |
| GSM2293722 |
RNA-seq of hsf-1(sy441);rmSi1[hsf-1::gfp] L2 larvae at 34°C, replicate 3 |
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| This SubSeries is part of SuperSeries: |
| GSE81523 |
E2F coregulates an essential HSF developmental program that is distinct from the heat-shock response |
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| Relations |
| BioProject |
PRJNA321853 |
| SRA |
SRP075274 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE81520_20C_gene_differential_expression_testing.txt.gz |
2.2 Mb |
(ftp)(http) |
TXT |
| GSE81520_34C_gene_differential_expression_testing.txt.gz |
2.2 Mb |
(ftp)(http) |
TXT |
| GSE81520_Differential_expression_FDR_0.05_.txt.gz |
65.8 Kb |
(ftp)(http) |
TXT |
| GSE81520_all_20C_and_34C_genes_read_group_tracking.txt.gz |
4.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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