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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
Sample Metadata Fields
Age, Specimen part
View Samples- Homo sapiens
- 12 Downloadable Samples
Illumina HiSeq 4000
Description
Angelica polysaccharide (APS) is one of the major active components isolated from Angelica sinensis. Evidences suggested APS may have therapeutic potential for psoriasis. HaCaT cell line was commonly used as an in vitro model to study psoriasis. In the present study, RNA-sequencing (RNA-seq) was performed to investigate the underlying mechanism of APS. Different concentrations of APS (0mg/mL, 50 mg/L, 100 mg/L and 200mg/L) were incubated with HaCaT cells for 36 h and transcriptome sequenced. Comparison of the gene expression profiles between the CK group (i.e., Control group) and ASP groups revealed dramatic differences. All the differentially expressed genes (DEGs) were then classified into 20 expression profiles by trend analysis. Significant enriched trend clusters were then analyzed. Interestingly, cell proliferation related gene ontology (GO) terms were mostly dispersed in the profile 2 and 17. Based on our functional annotation results and reported literature, authors suspected that SERPINE1, SMAD6 and CTGF, together with TGF-ß, may closely relevant to the anti-proliferation effect of APS.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples- Homo sapiens
- 2 Downloadable Samples
- IlluminaHiSeq2000
Description
Transcriptome of CALML5-depleted human organotypic epidermis
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 2 Downloadable Samples
- IlluminaHiSeq2500
Description
The goal of the study is to identify genes whose expression are enriched in the progenitor or differentiated layers of human skin, with an ultimate aim to find new molecular regulators of skin development and differentiation.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 2 Downloadable Samples
- IonTorrentProton
Description
The goal of this study is to determine the epidermal genes whose expression is significantly altered by depletion of the gene stratifin (SFN).
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples
SRP065758- Homo sapiens
- 119 Downloadable Samples
- IlluminaHiSeq2500
Description
Aim to identify the potential relationship between DNA methylation and gene expression.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
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
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
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
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
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
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line
View Samples