|
| Status |
Public on Jul 12, 2022 |
| Title |
Analysis of PMK-1 p38 MAPK and PMK-1(D327E) Caspase Cleavage Resistant Mutant and Effect of DAF-16 (FOXO) Mutants on Gene Regulation in C. elegans |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We identified genes inversely regulated by pmk-1 null mutation and pmk-1(D327E). We also identified genes working through daf-16, working around daf-16 and working independent of daf-16
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| Overall design |
We analyzed total mRNA at the late L4 stage for wild type, pmk-1(km25), pmk-1(D327E), daf-16(m26), daf-16(mgDf50), daf-16(m26);pmk-1(km25) double mutant, daf-16(m26);pmk-1(D327E) double mutant, daf-16(mgDf50);pmk-1(km25) double mutant, and daf-16(mgDf50);pmk-1(D327E) double mutant. wild type, pmk-1(km25), pmk-1(D327E) had three biological replicates. Remainder had two biological replicates.
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| Contributor(s) |
Weaver BP, Weaver YW, Yuan W |
| Citation missing |
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| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R35 GM133755 |
Proteolytic Mechanisms Mediating Diverse Non-Apoptotic Caspase Functions |
UT SOUTHWESTERN MEDICAL CENTER |
Benjamin P. Weaver |
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| |
| Submission date |
Jan 03, 2022 |
| Last update date |
Jul 12, 2022 |
| Contact name |
Benjamin Weaver |
| Organization name |
University of Texas Southwestern Medical Center
|
| Department |
Pharmacology
|
| Lab |
Weaver
|
| Street address |
6001 Forest Park Rd
|
| City |
Dallas |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL19757 |
Illumina NextSeq 500 (Caenorhabditis elegans) |
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| Samples (21)
|
| GSM5769333 |
pmk-1(km25) mRNA Replicate 1 [BPW156_1] |
| GSM5769334 |
pmk-1(km25) mRNA Replicate 2 [BPW156_2] |
| GSM5769335 |
pmk-1(km25) mRNA Replicate 3 [BPW156_3] |
| GSM5769336 |
pmk-1(miy7) mRNA Replicate 1 [BPW157_1] |
| GSM5769337 |
pmk-1(miy7) mRNA Replicate 2 [BPW157_2] |
| GSM5769338 |
pmk-1(miy7) mRNA Replicate 3 [BPW157_3] |
| GSM5769339 |
wild type mRNA Replicate 1 [BPW158_1] |
| GSM5769340 |
wild type mRNA Replicate 2 [BPW158_2] |
| GSM5769341 |
wild type mRNA Replicate 3 [BPW158_3] |
| GSM5769342 |
daf-16(m26) mRNA Replicate 1 [DR_1] |
| GSM5769343 |
daf-16(m26) mRNA Replicate 2 [DR_2] |
| GSM5769344 |
daf-16(m26);pmk-1(km25) Replicate 1 [DRP1_1] |
| GSM5769345 |
daf-16(m26);pmk-1(km25) Replicate 2 [DRP1_2] |
| GSM5769346 |
daf-16(m26);pmk-1(miy7) Replicate 1 [DRDE_1] |
| GSM5769347 |
daf-16(m26);pmk-1(miy7) Replicate 2 [DRDE_2] |
| GSM5769348 |
daf-16(mgDf50) mRNA Replicate 1 [d16_1] |
| GSM5769349 |
daf-16(mgDf50) mRNA Replicate 2 [d16_2] |
| GSM5769350 |
daf-16(mgDf50);pmk-1(km25) Replicate 1 [d16P1_1] |
| GSM5769351 |
daf-16(mgDf50);pmk-1(km25) Replicate 1 [d16P1_2] |
| GSM5769352 |
daf-16(mgDf50);pmk-1(miy7) Replicate 1 [d16DE_1] |
| GSM5769353 |
daf-16(mgDf50);pmk-1(miy7) Replicate 2 [d16DE_2] |
|
| Relations |
| BioProject |
PRJNA793860 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE192941_genes.gtf_genes_WT-VS-DE.glmLRT.txt.gz |
768.0 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-Df50.glmLRT.txt.gz |
820.8 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-Df50DE.glmLRT.txt.gz |
824.0 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-Df50P1.glmLRT.txt.gz |
813.4 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-P1.glmLRT.txt.gz |
813.7 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-m26.glmLRT.txt.gz |
816.0 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-m26DE.glmLRT.txt.gz |
765.6 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_WT-VS-m26P1.glmLRT.txt.gz |
799.4 Kb |
(ftp)(http) |
TXT |
| GSE192941_genes.gtf_genes_normalized.counts.TPM.tab.gz |
3.2 Mb |
(ftp)(http) |
TAB |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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