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Sex-dependent and STAT5b-dependent Liver Gene Expression

ABSTRACT: A series of dual-channel gene expression profiles obtained using Rosetta/Merck Mouse TOE 75k microarrays was used to examine the sex-dependent and STAT5b-dependent differences in gene expression in adult mouse liver. This series is comprised of 4 pools of 3 randomly chosen independent wildtype male and female mouse liver cDNA samples and 4 pools of 3 randomly chosen independent STAT5b-deficient male and female mouse liver cDNA samples, totaling 16 pools. The pools were paired randomly to generate 4 comparisons of M-WT:F-WT, M-WT:M-KO, F-KO:F-WT, and F-KO:M-KO. Comparison of the set of sex-dependent genes with the set of genes responsive to the loss of STAT5b in males shows that 75% of the sex-specific genes were also regulated by STAT5b in males. Only 20% of the sex-specific genes retained sex-specificity in the absence of STAT5b, indicating a large role for STAT5b in sex-specific liver gene expression. Keywords: genetic knockout and sex response

ORGANISM(S): Mus musculus

PROVIDER: GSE5072 | GEO | 2006/07/26

SECONDARY ACCESSION(S): PRJNA95511

REPOSITORIES: GEO

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Sex-dependent and STAT5b-dependent Liver Gene Expression

Project description:A series of dual-channel gene expression profiles obtained using Rosetta/Merck Mouse TOE 75k microarrays was used to examine the sex-dependent and STAT5b-dependent differences in gene expression in adult mouse liver. This series is comprised of 4 pools of 3 randomly chosen independent wildtype male and female mouse liver cDNA samples and 4 pools of 3 randomly chosen independent STAT5b-deficient male and female mouse liver cDNA samples, totaling 16 pools. The pools were paired randomly to generate 4 comparisons of M-WT:F-WT, M-WT:M-KO, F-KO:F-WT, and F-KO:M-KO. Comparison of the set of sex-dependent genes with the set of genes responsive to the loss of STAT5b in males shows that 75% of the sex-specific genes were also regulated by STAT5b in males. Only 20% of the sex-specific genes retained sex-specificity in the absence of STAT5b, indicating a large role for STAT5b in sex-specific liver gene expression. A pool of cDNA from 3 mice is Cy3-labeled and compared to another pool of cDNA from 3 mice that is Cy5-labeled. The pools are then dye-swapped and compared again. The two pairs of data are averaged together, the averages are normalized across the fluorescent reverse pairings, and the log2 value is reported for each average as well as the anti-log. This is replicated 3 times with independent pools of cDNA for each pair of conditions being compared. There are a total of 4 pairs of conditions compared for a grand total of 12 samples.

2010-07-01 | E-GEOD-5072 | biostudies-arrayexpress

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2007-07-30 | GSE7169 | GEO

Sex-dependent and HNF4alpha-dependent Mouse Liver Gene Expression

2008-03-21 | GSE10390 | GEO

Sex-dependent and strain-dependent gene liver gene expression

Project description:A series of dual-channel gene expression profiles obtained using Agilent Mouse TOE 75k microarrays was used to examine the sex-dependent differences in gene expression across three outbred mouse strains, 129J x Black Swiss, 129J x BALB/c, and ICR. This series is comprised of samples obtained from 3 pools of randomly chosen independent cDNA samples of male and female 129Jx BALB/c mice and 3 randomly chosen independent cDNA samples of male and female 129J x Black Swiss mice and 5 randomly chosen independent cDNA samples of male and female ICR mice. The ICR mice were randomly distributed into three and two member pools for each sex and two of the 5 samples for each sex were independently hybridized separately as well. Comparison of the sex-specific genes for the three outbred strains generated lists of strain-dependent and strain-independent sex-specific genes. Keywords: sex response and strain response

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Transcription profiling of mouse adult male wild-type liver (M-WT), adult female wild-type liver (F-WT), adult male liver-specific HNF4alpha knockout liver (M-KO) and adult female liver-specific HNF4alpha knockout liver (F-KO) to investigate sex-dependent and HNF4alpha-dependent gene expression

Project description:A series of dual-channel gene expression profiles obtained using Rosetta/Agilent Whole Mouse Genome oligonucleotide microarrays, 4 x 44K format, was used to identify sex-dependent and HNF4alpha-dependent differences in gene expression in adult mouse liver. This series is comprised of four sex-genotype combinations: adult male wild-type liver (M-WT), adult female wild-type liver (F-WT), adult male liver-specific HNF4alpha knockout liver (M-KO) and adult female liver-specific HNF4alpha knockout liver (F-KO). Four pools, each comprised of 4 randomly selected individual liver RNAs, were prepared for each sex-genotype combination. The pools were paired randomly to generate 4 separate experimental comparisons: M-WT:F-WT (first array comparison), M-WT:M-KO (second array comparison), F-WT:F-KO (third array comparison), and M-KO:F-KO (fourth array comparison). A total of 4994 HNF4alpha-dependent genes were identified, of which ~1000 fewer genes responded to the loss of HNF4alpha in female liver as compared to male liver. Moreover, 90% of the genes showing sex-specific expression in the liver were shown to lose sex specificity in HNF4alpha-deficient liver. Experiment Overall Design: An Alexa555-labeled cDNA sample is co-hybridized with an Alexa647-labeled cDNA sample. The samples are then dye-swapped and compared again on a second microarray chip. Together, these two mixed cDNA samples are considered a fluorescent reverse pair (dye swap). Similarly, a second fluorescent reverse pair is generated and the two pairs are averaged. The normalized expression ratio for each array is reported along with the two separate intensities. In this way, dye swaps were carried out for each of the four experimental comparisons. Thus, four microarrays, one for each mixed cDNA sample, were hybridized for each of the four fluorescent reverse pairs, giving a total of 16 microarrays.

2008-04-04 | E-GEOD-10390 | biostudies-arrayexpress

Murine Liver Cells: Control B6 males vs. little (GH-deficient) and Tfm (AR-null) males

Project description:Transcriptional profiling of mouse whole liver comparing control WT B6 mice with B6 growth hormone-deficient little, B6 androgen receptor-null Tfm mice, and STAT5b KOs normalized to WT on B6 and BALB/c backgrounds. All animals were 10-week-old males initiated with DEN. Oberley et al. Molecular carcinogenesis 2014 May 17. doi: 10.1002/mc.22165. Three-condition experiment, WT vs. little and Tfm livers. Biological replicates: 3 control replicates, 3 mutant replicates. Little and Tfm normalized to WTa, B6 STAT5b KO

2014-08-09 | E-GEOD-60253 | biostudies-arrayexpress

Murine Liver Cells: Control B6 males vs. little (GH-deficient) and Tfm (AR-null) males

2014-08-09 | GSE60253 | GEO

Gene expression profiling of mouse liver with hepatocyte-specific knockout of STAT5a/STAT5b genes (STAT5ab-KO)

Project description:rRNA-depleted RNA isolated from livers of control male and female mice and from male mice with hepatocyte-specific STAT5ab-KO was analyzed by RNA-seq. This study revealed a substantial, albeit incomplete loss of liver sex bias in hepatocyte-specific STAT5a/STAT5b (collectively, STAT5)-deficient mouse liver. Notably, in male liver, many male-biased genes were down regulated in direct association with the loss of STAT5 binding; many female-biased genes, which show low STAT5 binding, were de-repressed, indicating an indirect mechanism for repression by STAT5.

2020-12-01 | GSE103885 | GEO

Gene expression profiling of Male and Female adult mouse liver using RNA-seq

Project description:Liver sex-specific long noncoding RNAs (lncRNAs) were identified based on three pools of male and three pools of female ribosomal RNA-depleted total liver RNAs, as well as three pools of male and three pools of female ribosomal RNA-depleted nuclear liver RNAs from CD-1 mice. This dataset is part of a larger study, entitled "Sex-biased lncRNAs inversely correlate with sex-opposite gene co-expression networks in Diversity Outbred mouse liver", Endocrinology (2019) 160:989-1007, PMID:30840070.

2020-05-22 | GSE109621 | GEO

Sex-dependent and growth hormone (GH)-dependent gene expression

Project description:A series of dual-channel gene expression profiles obtained using MWG Rat 5K microarrays (~5535 unique rat genes) and MWG Rat Liver microarrays (~1353 unique rat genes with 999 of these genes also represented on the Rat 5K microarray) was used to examine the sex-dependent and GH-dependent differences in gene expression in adult rat liver. This series is comprised of 8 randomly chosen pairings of independent male and female rat liver cDNA samples and 8 randomly chosen pairings of independent male and continuous GH-treated male rat liver cDNA samples, totaling 16 samples. Half of the samples were hybridized to the MWG Rat 5K microarrays and the other half were hybridized to the MWG Rat Liver microarrays. Comparison of the set of sex-dependent genes with the set of GH-responsive genes shows that 90% of male-dominant genes are suppressed in male rats treated with a female pattern of GH. Approximately 73% of female-dominant genes were up-regulated in the continuous GH-treated male rats. Keywords = Growth hormone Keywords = liver sexual dimorphism Keywords = cytochrome P450 Keywords = liver gene expression Keywords = dual channel cDNA microarray Keywords: repeat sample

2004-03-27 | GSE1146 | GEO

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