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SRP094909
Homo sapiens
34 Downloadable Samples
Illumina HiSeq 2500
Description
we performed immune repertoire sequencing on five biopsy sites of each tumor and on matched adjacent normal tissues and peripheral blood from five patients diagnosed with PLC, to investigated the spatial heterogeneity of TIL
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Homo sapiens
- 2 Downloadable Samples
- Illumina HiSeq 2500
Description
CBX7-RIP-Seq data for HEK293T cells
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Cell line
View Samples- Mus musculus
- 18 Downloadable Samples
Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Nonresolving inflammation is correlated to carcinogenesis. Ulcerative colitis-associated colorectal cancer (UC-CRC), one of the typical carcinoma generated by inflammation that cannot be resolved properly, has been widely believed to involve a multistep process contains inflammation-dysplasia-cancer sequence. The exact molecular mechanisms underlying the step-wise development of UC-CRC is still not fully understood. Detecting the changes in gene expression profiles may help to reveal why and how does the prolonged inflammatory response lead to carcinogenesis, and to characterize potential diagnostic/prognostic markers or additional therapeutic targets for UC-CRC. There for, we performed temporal genome expression profiling analysis using the Affymetrix genome wide microarray system to identify broad scale changes in gene expression associated with the development of colitis-associated cancer, based on an AOM/DSS induced mouse model of UC-CRC.
Publication Title
Dynamic activation of the key pathways: linking colitis to colorectal cancer in a mouse model.
Sample Metadata Fields
Disease, Disease stage
View Samples- Mus musculus
- 3 Downloadable Samples
- Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Damage-associated molecular pattern (DAMP) molecules S100A8 and S100A9 with well-known functions in inflammation, tumor growth and metastasis. It has been found to have promote tumor cell proliferation activity at low concentration . However, the mechanism underlying this remains unclear. In the current study, we performed genome expression profiling analysis using the Affymetrix genome wide microarray system to identify broad scale changes in gene expression associated with S100a8 or S100a9 recombinant protein stimulation in murine colon carcinoma cell line CT26.WT.
Publication Title
Inflammation-induced S100A8 activates Id3 and promotes colorectal tumorigenesis.
Sample Metadata Fields
Cell line
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- Homo sapiens
- 30 Downloadable Samples
- NextSeq 500
Description
Studies in human innate lymphoid cell (ILC) development are important in understanding the pathophysiology of immune deficiencies and providing insights into the design of immunotherapies for patients with cancer, infection, and autoimmune disease. Currently, it is unclear where and how ILCs develop in humans. The overall goal of our study is to gain a comprehensive understanding of the cellular and molecular components that regulate human ILC development and function in order to best understand how they work in physiological and pathological states.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 12 Downloadable Samples
- NextSeq 500
Description
Bilirubin is a potent antioxidant that reduces inflammation and the accumulation of fat. There have been reports of gene responses to bilirubin, which was mostly attributed to its antioxidant function. These RNA-sequencing studies investigated the impact biliverdin, which is rapidly reduced to bilirubin, has on transcriptome responses in human HepG2 hepatocytes in a PPARa-dependent fashion. This investigation reveals that transcriptome responses from the generation of bilirubin are mostly PPARa-dependent, and its antioxidant function regulates a smaller set of genes.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line, Treatment, Race
View Samples- Homo sapiens
- 10 Downloadable Samples
- Illumina HiSeq 2500
Description
Endometriosis is a common gynecological condition with an unclear pathogenesis. Changes in lncRNA expression profiles may influence this disease, while relevant investigation remains insufficient. To describe the different lncRNA and mRNA expression patterns between endometriosis and a control group, eutopic and normal endometrium in the proliferative phase were analyzed using RNA sequencing.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Pseudomonas aeruginosa
- 8 Downloadable Samples
- Illumina HiSeq 2500
Description
Comparison with antibiotic susceptible and multi-drug resistant Pseudomonas aeruginosa, and responses to antibiotic stresses in multi-drug resistant Pseudomonas aeruginosa
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Cell line
View Samples- Mus musculus
- 7 Downloadable Samples
- Illumina HiSeq 2500
Description
Malaria, caused by Plasmodium parasites is responsible for the illness of millions of individuals each year. Plasmodium sporozoites inoculated by mosquitoes migrate to the liver and infect hepatocytes prior to release of merozoites that initiate symptomatic blood-stage malaria. Parasites are thought to be restricted to hepatocytes throughout this obligate liver-stage of replication and differentiation. In contrast to this notion, we found that a subset of hepatic CD11c+ cells co-expressing F4/80, CD103, CD207 and CSF1R, acquired a substantial parasite burden during the liver-stage of malaria, but only after initial hepatocyte infection. These CD11c+ cells found in the infected liver and liver-draining lymph nodes exhibited transcriptionally and phenotypically enhanced antigen-presentation functions; and primed protective CD8 T cell responses against Plasmodium liver-stage restricted antigens. Our findings uncover a novel aspect of Plasmodium biology as well as the fundamental mechanism by which CD8 T cell responses are primed against liver-stage malaria.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples