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GSE24041
Homo sapiens
13 Downloadable Samples
Affymetrix Human Gene 1.0 ST Array (hugene10st)
Description
Little is known about the mechanisms underlying the localization of human melanocytes during embryogenesis, and how the characteristics of melanocytes differ in various body sites. Immunohistochemical studies of biopsy tissue obtained from four different anatomic sites (scalp, back, abdomen, and sole) of 31 aborted fetuses following the approval of the ethics committee for the study of human gene analysis revealed that the melanocyte-associated marker gp100 was expressed earlier in embryogenesis than other melanocyte markers. Human fetal melanocytes are initially localized in the epidermis, and then migrate to the hair buds from the epidermis but not the dermis. In the sole, melanocytes localize in eccrine sweat gland ducts. Cultured fetal melanocytes did not stain positively for any melanocyte markers other than MITF and nestin. When co-cultured with normal human keratinocytes and fibroblasts, fetal melanocytes stained positively for gp100. Gene expression studies indicated that fetal melanocytes were topographically diverse, especially sole-derived melanocytes compared with other melanocytes. Expression of several genes, including CHI3L1 and FGF7, was higher in sole-derived melanocytes. These findings suggest that human fetal melanocytes derived from the sole have different profiles both in vivo and in vitro compared with melanocytes from other sites.
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Age, Specimen part
View Samples- Arabidopsis thaliana
- 6 Downloadable Samples
Illumina HiSeq 2500
Description
RNA-Seq data for identifying genes regulated by BBX30 and BBX31
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples- Glycine max
- 2 Downloadable Samples
- Illumina HiSeq 2000
Description
No description.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples- Zea mays
- 6 Downloadable Samples
- Affymetrix Maize Genome Array (maize)
Description
Intercropping is a vital technology in resource-limited agricultural systems with low inputs. Peanut/maize intercropping enhances iron (Fe) nutrition in calcareous soil. Proteomic studies of the differences in peanut leaves, maize leaves and maize roots between intercropping and monocropping systems indicated that peanut/maize intercropping not only improves Fe availability in the rhizosphere but also influences the levels of proteins related to carbon and nitrogen metabolism. Moreover, intercropping may enhance stress resistance in the peanut plant (Xiong et al. 2013b). Although the mechanism and molecular ecological significance of peanut/maize intercropping have been investigated, little is known about the genes and/or gene products in peanut and maize roots that mediate the benefits of intercropping. In the present study, we investigated the transcriptomes of maize roots grown in intercropping and monocropping systems by microarray analysis. The results enabled exploration differentially expressed genes in intercropped maize.
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Specimen part, Treatment
View Samples- Glycine max
- 4 Downloadable Samples
- Illumina HiSeq 4000
Description
the leaves of the downy mildew pre-inoculation and after 72 h of inoculation were sequenced for the high resistance varieties of soybean downy mildew - Jilin Xiaoji 1 and the high susceptible cultivar - Kefeng 1.The following results were obtained by transcriptome data analysis
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples- Mus musculus
- 54 Downloadable Samples
- Illumina HiSeq 2000
Description
The study aimed to investigate genome-wide transcriptome changes in response to L-lactate in primary neuron cultures.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples- Saccharomyces cerevisiae
- 36 Downloadable Samples
- Affymetrix Yeast Genome 2.0 Array (yeast2)
Description
Gene regulatory significance of the JmjC domain H235A point mutation in the yeast transcription factor Rph1, in log and post-diauxic shift (pds) phase
Publication Title
The histone demethylase activity of Rph1 affects telomeric silencing but is not required for nutrient signaling
Alternate Accession IDs
None
Sample Metadata Fields
No sample metadata fields
View Samples- Rattus norvegicus
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
We investigated hepatic mRNA expression profile of adult male Wistar rats treated with 4-hydroxy-2,3,3'',4'',5-pentachlorobiphenyl (4-OH-CB107) to explore the genes responsive to the OH-PCB.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Rattus norvegicus
- 134 Downloadable Samples
- UNKNOWN
Description
BACKGROUND: The use of gene expression profiling in both clinical and laboratory settings would be enhanced by better characterization of variance due to individual, environmental, and technical factors. Meta-analysis of microarray data from untreated or vehicle-treated animals within the control arm of toxicogenomics studies could yield useful information on baseline fluctuations in gene expression, although control animal data has not been available on a scale and in a form best served for data-mining. RESULTS: A dataset of control animal microarray expression data was assembled by a working group of the Health and Environmental Sciences Institute's Technical Committee on the Application of Genomics in Mechanism Based Risk Assessment in order to provide a public resource for assessments of variability in baseline gene expression. Data from over 500 Affymetrix microarrays from control rat liver and kidney were collected from 16 different institutions. Thirty-five biological and technical factors were obtained for each animal, describing a wide range of study characteristics, and a subset were evaluated in detail for their contribution to total variability using multivariate statistical and graphical techniques. CONCLUSIONS: The study factors that emerged as key sources of variability included gender, organ section, strain, and fasting state. These and other study factors were identified as key descriptors that should be included in the minimal information about a toxicogenomics study needed for interpretation of results by an independent source. Genes that are the most and least variable, gender-selective, or altered by fasting were also identified and functionally categorized. Better characterization of gene expression variability in control animals will aid in the design of toxicogenomics studies and in the interpretation of their results. [based on information contained in Final_HESI_Decoder_483_05_015_07.txt provided by CEBS database]
Publication Title
Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part
View Samples- Homo sapiens
- 37 Downloadable Samples
- Illumina HiSeq 4000
Description
For quantification of RNA transcript using RT-qPCR data, normalization of the data by the internal control reference genes is often required. However, it has been demonstrated that a proper choice of reference genes is highly dependent on the tissues or cells being investigated. It has also been known that reference genes are highly specific for a particular experimental model, and validation for each situation, on an individual basis, is essential. Currently, there is a lack of data on reference genes that are suitable for normalization of RT-qPCR data in the blood circulation of pregnant women. The objective of this study is to identify reference genes in maternal blood based on the whole-transcriptome data of 19 maternal whole blood samples, sequenced on the HiSeq-4000 platform in two libraries (technical replicates) per sample.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line
View Samples