Transcription profiling of hypothalamus, liver, kidney, ovaries and testis from male and female humans and mice
Ontology highlight
ABSTRACT:
INSTRUMENT(S): 418 [Affymetrix]
ORGANISM(S): Homo sapiens
SUBMITTER: Joel Rozowsky
PROVIDER: E-MEXP-114 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Publications
Major molecular differences between mammalian sexes are involved in drug metabolism and renal function.
Rinn John L JL Rozowsky Joel S JS Laurenzi Ian J IJ Petersen Petur H PH Zou Kaiyong K Zhong Weimin W Gerstein Mark M Snyder Michael M
Developmental cell 20040601 6
Many anatomical differences exist between males and females; these are manifested on a molecular level by different hormonal environments. Although several molecular differences in adult tissues have been identified, a comprehensive investigation of the gene expression differences between males and females has not been performed. We surveyed the expression patterns of 13,977 mouse genes in male and female hypothalamus, kidney, liver, and reproductive tissues. Extensive differential gene expressi ...[more]
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Project description:modENCODE_submission_486 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition P. luminescens (Hb); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24
2010-08-04 | E-GEOD-23272 | biostudies-arrayexpress
Project description:modENCODE_submission_487 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 2; EXPERIMENTAL FACTORS: GrowthCondition E. faecalis (OG1RF); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24
2010-08-04 | E-GEOD-23273 | biostudies-arrayexpress
Project description:modENCODE_submission_489 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition S. marcescens (Db11); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24
2010-08-04 | E-GEOD-23275 | biostudies-arrayexpress
Project description:modENCODE_submission_488 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition S. marcescens (Db11); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 48
2010-08-04 | E-GEOD-23274 | biostudies-arrayexpress
Project description:modENCODE_submission_491 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition E. coli (OP50); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24
2010-08-04 | E-GEOD-23277 | biostudies-arrayexpress
Project description:modENCODE_submission_490 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition E. coli (OP50); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 48
2010-08-04 | E-GEOD-23276 | biostudies-arrayexpress
Project description:In the pathogenic yeast Candida albicans, the zinc cluster transcription factor Upc2p has been shown to regulate expression of ERG11 and other genes involved in ergosterol biosynthesis upon exposure to azole antifungals. ERG11 encodes lanosterol demethylase, the target enzyme of this antifungal class. Over-expression of UPC2 reduces azole susceptibility, whereas its disruption results in hypersusceptibility to azoles and reduced accumulation of exogenous sterols. Constitutive up-regulation of ERG11 is a major cause of resistance to fluconazole in clinical isolates of C. albicans, yet the mechanism for this has yet to be determined. Using genome-wide gene expression profiling, we found UPC2 and other genes involved in ergosterol biosynthesis to be coordinately up-regulated with ERG11 in a fluconazole resistant clinical isolate as compared with a matched susceptible isolate from the same patient. Sequence analysis of the UPC2 alleles of these isolates revealed that the resistant isolate contained a single nucleotide substitution in one UPC2 allele that resulted in a G648D exchange in the encoded protein. Introduction of the mutated allele into a drug susceptible strain resulted in constitutive up-regulation of ERG11 and increased resistance to fluconazole. By comparing the gene expression profiles of the fluconazole resistant isolate and of strains carrying wild-type and mutated UPC2 alleles, we identified target genes that are controlled by Upc2p. Here we show for the first time that a gain-of-function mutation in UPC2 leads to increased expression of ERG11 and imparts resistance to fluconazole in clinical isolates of C. albicans. Keywords: genome-wide expression profiling Clinical isolates S1 (susceptible) and S2 (resistant), genome strain SC5314, UPC2 disruption strains (UPC2M4A and UPC2M4B), UPC2 re-integrant strains of non-mutated UPC2 allele (UPC2M2K21A and UPC2M2K21B), and UPC2 re-integrant strains of mutated UPC2 allele (UPC2M2K31A and UPC2M2K31B) were grown for 3 hours until log phase. RNA was extracted for each isolate/strain. Experiments were performed in duplicate.
2008-11-04 | E-GEOD-11320 | biostudies-arrayexpress
Project description:The polycomb group proteins form large repressive complexes. It has recently become evident, via ChIP on chip analysis, that the polycomb complexes, PRC1 and PRC2, target a large number of genes (Boyer et al., 2006; Bracken et al., 2006; Tolhuis et al., 2006), which are involved in cell fate decisions. In order to identify genes which are truly regulated by the polycomb group proteins, CBX8 and BMI1, we expressed these two proteins in mouse embryonic fibroblasts (MEFs) by retroviral infection.
2007-03-05 | E-MEXP-793 | biostudies-arrayexpress
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2010-08-04 | E-GEOD-23270 | biostudies-arrayexpress
Project description:modENCODE_submission_477 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commerically available genome tiling arrays. To maximize the chances of detecting rare transcripts with limited expression in specific cells, we are extracting RNA from selected embryonic cells isolated by FACS and from postembryonic cells by use of the mRNA tagging method. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: larva mid-L2 25dC 17.75 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 2; EXPERIMENTAL FACTORS: Strain N2; Developmental Stage larva mid-L2 25dC 17.75 hrs post-L1
2010-08-04 | E-GEOD-23266 | biostudies-arrayexpress