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Links from GEO DataSets

Items: 18

1.

Transcriptional response of muscle tissue to a high energy feeding regimen in Japanese Black and Holstein steers

(Submitter supplied) Microarray gene expression profiling to identify differentially regulated genes in Musculus longissimus dorsi (MLD) of Japanese Black (JB) steers compared to Holstein steers (HS)
Organism:
Bos taurus
Type:
Expression profiling by array
Platform:
GPL2112
6 Samples
Download data: CEL
Series
Accession:
GSE75348
ID:
200075348
2.

Comparative analysis of Musculus longissimus dorsi expression of Holstein x Charolais F2 cattle (SEGFAM) with high and low intramuscular fat (IMF) content

(Submitter supplied) 10 + 10 Holstein x Charolais F2 cattle were assigned to 2 groups with high and low IMF content, respectively; Musculus longissimus dorsi mRNA expression was determined by microarray analysis
Organism:
Bos taurus
Type:
Expression profiling by array
Platform:
GPL2112
20 Samples
Download data: CEL
Series
Accession:
GSE75347
ID:
200075347
3.

miRNA expression data from bulls with high and low intramusclar fat (IMF) content

(Submitter supplied) Intramuscular fat content is a known trait that attributes to meat quality, taste and juiciness. MicroRNAs have been reported to play key role in lipid metabolism, hence in fat deposition. There is little understanding of miRNA regulation of IMF content and identification of these non-coding factors is important for further understanding of pathways involved in intramuscular fat deposition Differentially expressed miRNAs were identified and their gene targets predicted.
Organism:
synthetic construct; Bos taurus
Type:
Non-coding RNA profiling by array
Platform:
GPL16384
20 Samples
Download data: CEL, XLSX
Series
Accession:
GSE147622
ID:
200147622
4.

Transcriptome changes following castration of Korean cattle bulls in longissimus dorsi muscle

(Submitter supplied) Transcripome of longissimus dorsi muscle was compared between Korean cattle bulls and steers by using a customized bovine Combimatrix microarray containing 10,199 genes.
Organism:
Bos taurus
Type:
Expression profiling by array
Platform:
GPL15126
9 Samples
Download data: TXT
Series
Accession:
GSE35085
ID:
200035085
5.

Transcriptome analysis of mRNA and microRNAs of the intramuscular fat tissues from castrated and intact male Chinese Qinchuan cattle

(Submitter supplied) We report the application of the second-generation sequencing technology for microRNA and mRNA gene expression profiling of intramuscular fat (IMF) in castrated male (CM) and intact male 24 months old Qinchuan cattle (IM) to explore the regulation of intramuscular fat deposition. By comparing the mRNA expression profiles of IMF between CM and IM, 580 upregulated and 1120 downregulated genes were identified as differentially expressed genes correlated with castration. more...
Organism:
Bos taurus
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL21144 GPL19172
6 Samples
Download data: TXT
Series
Accession:
GSE75063
ID:
200075063
6.

Identification of candidate genes and regulatory factors underlying intramuscular fat content through longissimus dorsi transcriptome analyses in heavy Iberian pigs

(Submitter supplied) One of the most important determinants of meat quality is the intramuscular fat content (IMF). The development of high-throughput techniques as RNA-seq allows identifying gene pathways and networks with a differential expression (DE) between groups of animals divergent for a particular trait. The Iberian pig is characterized by having an excellent meat quality and a high content of intramuscular fat. more...
Organism:
Sus scrofa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11429
12 Samples
Download data: GTF
Series
Accession:
GSE116951
ID:
200116951
7.

Comparative transcriptome analysis in adipose and muscle between Chinese buffalo and cattle.

(Submitter supplied) Background: Intramuscular fat (IMF) content is highly valued as it improves meat product quality by enhancing taste, juiciness, and tenderness. IMF content can be significantly different between breeds. Thought many lipid metabolism-related genes are stated to be associated with IMF deposition, the molecular mechanism of IMF deposition is still poorly understood. To date, no gene or mutation loci responsible for the difference of IMF content among cattle breeds has been identified. more...
Organism:
Bos taurus; Bubalus bubalis
Type:
Expression profiling by high throughput sequencing; Third-party reanalysis
Platforms:
GPL21659 GPL24849
9 Samples
Download data: FA, XLS
Series
Accession:
GSE139102
ID:
200139102
8.

Transcriptome Analysis of Fat Deposition in Buffalo at Different Stages

(Submitter supplied) Background: Background: In bovines, the development and growth of adipose involves many physiological processes and plays an extremely important role in the quality of beef, however, the regulatory mechanisms underlying the differences in meat quality are largely unknown. Therefore, a buffalo adipose transcriptome analysis was performed to compare gene expression profiles between different growth stages. more...
Organism:
Bubalus bubalis
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL24849
6 Samples
Download data: FA, XLS, XLSX
Series
Accession:
GSE112744
ID:
200112744
9.

Different expression of lipid metabolism-related genes in Black cattle and Luxi cattle based on transcriptome analysis

(Submitter supplied) Black cattle is a new breed of beef cattle developed by combining modern biotechnologies such as somatic cell cloning and conventional breeding methods. To provide new ideas for improving meat quality and generating new breeds of cattle, the important candidate genes affecting fat deposition in two kinds of cattle were identified. Eighteen months Black cattles and Luxi cattles were randomly assigned into two environmental. more...
Organism:
Bos taurus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL15749
6 Samples
Download data: TXT
Series
Accession:
GSE161272
ID:
200161272
10.

Bovine liver gene expression database of Polish-HF, Polish-Red and Hereford cattle breeds.

(Submitter supplied) We reported the bovine liver gene expression database of Polish-HF, Polish-Red and Hereford cattle breeds.
Organism:
Bos taurus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24980
18 Samples
Download data: ZIP
Series
Accession:
GSE114233
ID:
200114233
11.

RNA-seq of longissimus dorsi muscles in Japanese black (Wagyu) and Chinese Red Steppes cattle

(Submitter supplied) Comparative transcriptome profile of genes differentially expressed in longissimus dorsi muscles between Japanese black (Wagyu) and Chinese Red Steppes cattle by RNA-seq
Organism:
Bos taurus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL15749
6 Samples
Download data: XLSX
Series
Accession:
GSE161967
ID:
200161967
12.

RNA sequencing data from pigs with high and low intramuscular fat content.

(Submitter supplied) Intramuscular fat (IMF) content in pork is an important element of consumer preference, and is positively correlated with meat quality, including tenderness and juiciness. With advances in RNA sequencing technologies, transcriptome-related differences can be associated with specific traits in animals. The objective of this study was to investigate the differentially expressed genes (DEG) closely related with IMF content in porcine longissimus muscle using RNA sequencing. more...
Organism:
Sus scrofa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11429
6 Samples
Download data: TXT
Series
Accession:
GSE86086
ID:
200086086
13.

Maternal Plane Of Nutrition During Late Gestation And Weaning Age Alter Offspring Transcriptome Profiles Of Longissimus Muscle In Angus × Simmental

(Submitter supplied) We evaluated if a higher plane of maternal nutrition during late gestation and weaning age alters the offspring’s Longissimus muscle (LM) transcriptome. A microarray analysis was performed in LM samples of early (EW) and normal weaned (NW) Angus × Simmental calves born from cows that were grazing endophyte-infected tall fescue/red clover pastures with no supplement (low plane of nutrition (LPN)), or supplemented with 2.3 kg of dried distiller’s grains with solubles and soyhulls (70% DDGS/30% soyhulls) (medium plane of nutrition (MPN)) during the last 90 days of gestation. more...
Organism:
Bos taurus
Type:
Expression profiling by array
Platform:
GPL11649
30 Samples
Download data: GPR
Series
Accession:
GSE65560
ID:
200065560
14.

Muscle transcriptome analysis identifies genes involved in ciliogenesis and in the molecular cascade associated with intramuscular fat content in Large White heavy pigs.

(Submitter supplied) Intramuscular fat content (IMF) is a complex trait influencing the technological and sensorial features of meat products and determining pork quality. Thus, we aimed at analysing through RNA-sequencing the Semimembranosus muscle transcriptome of Italian Large White pigs in order to study the gene networks associated with IMF deposition. Two groups of samples were used; each one was composed of six unrelated pigs with extreme and divergent IMF content (0.67 ± 0.09% in low IMF vs. more...
Organism:
Sus scrofa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19176
12 Samples
Download data: TXT
Series
Accession:
GSE144780
ID:
200144780
15.

Functional analysis of transcriptome dynamics during growth in Angus cattle longissimus muscle

(Submitter supplied) The bovine transcriptome dynamics in logissimus muscle (LM) during the post-natal growth remain unknown. Biopsies of LM from Angus steers were harvested at 0, 60, 120, and 220 d from early-weaning. A 13,153 bovine oligonucleotide array was used for transcript profiling. Functional analysis of microarray data was performed using the Dynamic Impact Approach (DIA) by means of KEGG and DAVID databases. During the growing phase, most of the highly-impacted pathways (e.g. Ascorbate and aldarate metabolism, Drug metabolism - cytochrome P450 and Retinol metabolism) were inhibited. The finishing phase, was characterized with the most striking differences with 3,784 differentially expressed genes (DEG; FDR <0.01). The functional analysis of those DEG revealed that the most-impacted KEGG canonical pathway was “Glycosylphosphatidylinositol (GPI) - anchor biosynthesis”. The inhibition of this pathway suggested a unique role of GPI-anchor proteins in intracellular trafficking during the finishing phase. A mechanism regulating muscle growth during the finishing phase was uncovered in which inhibition of calpastatin and activation of tyrosine aminotransferase ubiquitination promote proteasomal degradation, while the concurrent activation of ribosomal proteins promotes protein synthesis, thus, the balance of these processes likely results in a steady state of protein turnover during the finishing phase. Overall, results underscored the importance of transcriptome dynamics in LM to support key biological functions during rapid growth.
Organism:
Bos taurus
Type:
Expression profiling by array
Platform:
GPL9689
55 Samples
Download data: GPR, TXT
Series
Accession:
GSE48136
ID:
200048136
16.

Expression data in HeLa cells treated with CENP-E siRNA or Eg5 siRNA in the presence of BubR1 siRNA

(Submitter supplied) The molecular mechanism responsible for cell fate after mitotic slippage is unclear. We investigate the postmitotic effects of different mitotic aberrations, misaligned chromosomes produced by CENP-E siRNA (siCENP-E), and monopolar spindles resulting from Eg5 siRNA (siEg5). To determine which signaling pathways contribute to the postmitotic effect of siCENP-E in the presence of siBubR1 (siCENP-E+siBubR1) compared with siEg5+siBubR1, we performed a comprehensive gene expression analysis by microarray comparisons. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
8 Samples
Download data: CEL
Series
Accession:
GSE67905
ID:
200067905
17.

Comparison of Escherichia coli K-12 tynA- with wild type Escherichia coli K-12

(Submitter supplied) Escherichia coli (E. coli) amine oxidase (ECAO) encoded by tynA gene has been one of the model enzymes to study the mechanism of oxidative deamination of amines to the corresponding aldehydes by amine oxidases. The biological roles of ECAO have been less addressed. Therefore we have constructed a gene deletion Escherichia coli K-12 strain, E. coli tynA-, and used the microarray technique to address its function by comparing the total RNA gene expression to the one of the wt. more...
Organism:
Escherichia coli
Type:
Expression profiling by array
Platform:
GPL3154
6 Samples
Download data: CEL
Series
Accession:
GSE65385
ID:
200065385
18.

Comparison of the Transcriptional Profiles of Melanocytes from Dark and Light Skinned Individuals under Basal Conditions and Following Ultraviolet-B Irradiation

(Submitter supplied) We analysed the whole-genome transcriptional profile of 6 cell lines of dark melanocytes (DM) and 6 of light melanocytes (LM) at basal conditions and after UVB at different time points (6, 12 and 24h) to investigate the mechanisms by which melanocytes protect human skin from the damaging effects of ultraviolet-B radiation (UVB). Further, we assessed the effect of different keratinocyte-conditioned media (KCM+ and KCM-) on melanocytes.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL14550
82 Samples
Download data: TXT
Series
Accession:
GSE70280
ID:
200070280
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