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Series GSE173580 Query DataSets for GSE173580
Status Public on Sep 19, 2022
Title RNA-seq Files : The Hypoxia Response Pathway Promotes PEP Carboxykinase And Gluconeogenesis In C. elegans
Organism Caenorhabditis elegans
Experiment type Expression profiling by high throughput sequencing
Summary RNA was isolated from L4 stage animals for the following genotypes: N2, hif-1(ia4), egl-9(sa307), hif-1(ia4);egl-9(sa307) grown at 20C. Total RNA was isolated and used to prepare libraries using the Illumina Truseq with polyA selection. Libraries were sequenced across two lanes on an Illumina HiSeq2000 (GeneWiz) or an Illumina HiSeq 2500 in Rapid Run Mode (RUCDR).
 
Overall design Developmentally synchronized animals were obtained by hypochlorite treatment of gravid adults and embryos hatched overnight for 15-17 hours in M9. Starvation-arrested L1s were plated on NGM plates and grown at 20°C until L4 stage. Total RNA was isolated from animals using Trizol (Invitrogen) combined with Bead Beater lysis in four biological replicates for each genotype. An mRNA library (single-end, 50-bp reads) was prepared for each sample/replicate using Illumina Truseq with PolyA selection (Genewiz or RUCDR). Libraries were sequenced across two lanes on an Illumina HiSeq2000 (GeneWiz) or an Illumina HiSeq 2500 in Rapid Run Mode (RUCDR).
 
Contributor(s) Rongo C, Vora M, Pyonteck S
Citation(s) 36257965, 37402706
Submission date Apr 29, 2021
Last update date Sep 11, 2023
Contact name Christopher Rongo
E-mail(s) crongo@waksman.rutgers.edu
Organization name Rutgers University
Department Waksman Institute
Street address 190 Frelinghuysen Road, #163
City Piscataway
State/province NJ
ZIP/Postal code 08854
Country USA
 
Platforms (2)
GPL13657 Illumina HiSeq 2000 (Caenorhabditis elegans)
GPL18245 Illumina HiSeq 2500 (Caenorhabditis elegans)
Samples (20)
GSM5271168 N2_rep1
GSM5271169 N2_rep2
GSM5271170 Hif1_rep1
This SubSeries is part of SuperSeries:
GSE173581 The Hypoxia Response Pathway Promotes PEP Carboxykinase And Gluconeogenesis In C. elegans
Relations
BioProject PRJNA726201
SRA SRP317333

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE173580_DEGenes_All_Samples_and_Comparisons_Modified.xlsx 6.8 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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