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18
datasets available to search
ShareScore release 0.9.0
Dataset results
18 results for “immunogenomics”
Immunogenomic analyses of high-grade serous ovarian cancer (HGSOC)
<p>High-grade serous ovarian cancer (HGSOC) remains the most lethal gynecologic malignancy despite new therapeutic concepts, including poly-ADP-ribose polymerase inhibitors (PARPis) and antiangiogenic therapy. In this study, we have analyzed homologous recombination repair deficiency (HRD) or BRCAness and the composition of the tumor microenvironment, which appear to play a critical role in determining the therapeutic response of combination immunotherapy with PARPis. The used datasets include RNA sequencing data and clinical information from patients of a new HGSOC cohort of the Medical University of Innsbruck (MUI) (n=60) and analyzed data from The Cancer Genome Atlas (TCGA) (n=226).</p>
Data from: Next-generation approaches to advancing eco-immunogenomic research in critically endangered primates
High-throughput sequencing platforms are generating massive amounts of genomic data from nonmodel species, and these data sets are valuable resources that can be mined to advance a number of research areas. An example is the growing amount of transcriptome data that allow for examination of gene expression in nonmodel species. Here, we show how publicly available transcriptome data from nonmodel primates can be used to design novel research focused on immunogenomics. We mined transcriptome data from the world's most endangered group of primates, the lemurs of Madagascar, for sequences corresponding to immunoglobulins. Our results confirmed homology between strepsirrhine and haplorrhine primate immunoglobulins and allowed for high-throughput sequencing of expressed antibodies (Ig-seq) in Coquerel's sifaka (Propithecus coquereli). Using both Pacific Biosciences RS and Ion Torrent PGM sequencing, we performed Ig-seq on two individuals of Coquerel's sifaka. We generated over 150 000 sequences of expressed antibodies, allowing for molecular characterization of the antigen-binding region. Our analyses suggest that similar VDJ expression patterns exist across all primates, with sequences closely related to the human VH3 immunoglobulin family being heavily represented in sifaka antibodies. Moreover, the antigen-binding region of sifaka antibodies exhibited similar amino acid variation with respect to haplorrhine primates. Our study represents the first attempt to characterize sequence diversity of the expressed antibody repertoire in a species of lemur. We anticipate that methods similar to ours will provide the framework for investigating the adaptive immune response in wild populations of other nonmodel organisms and can be used to advance the burgeoning field of eco-immunology.
Data from: Next-generation approaches to advancing eco-immunogenomic research in critically endangered primates
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Association of self-identified race and genetic ancestry with the immunogenomic landscape of primary prostate cancer
GEO Series GSE221219. Homo sapiens. 320 samples. Type: Methylation profiling by genome tiling array.
Tumor immunogenomic features determine outcomes in metastatic colorectal cancer patients treated with standard-of-care combinations of bevacizumab and cetuximab
GEO Series GSE196576. Homo sapiens. 579 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomic identification and characterization of granulocytic myeloid derived suppressor cells in multiple myeloma (RNA-Seq Neutrophils)
GEO Series GSE150021. Homo sapiens. 46 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomic profile at baseline predicts host susceptibility to clinical malaria
GEO Series GSE234970. Homo sapiens. 54 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomic Diversity of Triple-Negative Breast Cancers in Obese and Non-obese Black and White Women
GEO Series GSE268851. Homo sapiens. 253 samples. Type: Expression profiling by high throughput sequencing.
Long-Term TIL Engraftment and Clonal Expansion After Multiple TIL and Anti-PD-1 Therapy: A Five-Year Immunogenomic Case Study
GEO Series GSE295713. Homo sapiens. 25 samples. Type: Other.
Immunogenomic Dynamics and Biomarkers in Patients With Hepatocellular Carcinoma Receiving Immunotherapy
ClinicalTrials.gov study NCT07186010. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Immunogenomic identification and characterization of granulocytic myeloid derived suppressor cells in multiple myeloma (ATAC-Seq Neutrophils)
GEO Series GSE150018. Homo sapiens. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Immunogenomic identification and characterization of granulocytic myeloid derived suppressor cells in multiple myeloma
GEO Series GSE150023. Homo sapiens. 67 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Immunogenomic identification and characterization of granulocytic myeloid derived suppressor cells in multiple myeloma (RNA-Seq Epigenetic treatments)
GEO Series GSE150020. Homo sapiens. 9 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomic identification and characterization of granulocytic myeloid derived suppressor cells in multiple myeloma (RNA-Seq Neutrophils TGFbeta)
GEO Series GSE150019. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomic Analyses of Pediatric Catatonia
ClinicalTrials.gov study NCT06656572. IPD Sharing: Not stated. Countries: 0. Publications: 0.
Immunogenomics and spatial proteomic mapping highlight distinct neuro-immune architectures in melanoma vs. non-melanoma-derived brain metastasis
GEO Series GSE245467. Homo sapiens. 54 samples. Type: Expression profiling by high throughput sequencing.
Immunogenomics of colorectal cancer response to immune checkpoint blockade: TCRseq
<p><strong>Immunogenomics of colorectal cancer response to immune checkpoint blockade</strong></p> <p>TCR-seq data supporting the paper: "Immunogenomics of colorectal cancer response to immune checkpoint blockade"</p> <p>Both files were downloaded from the Adaptive Biotechnologies immunoSeq Analyzer portal on 17/12/2019.</p> <ul> <li><strong>RearrangementDetails_12-17-2019_9-06-47_AM.tsv</strong>: contains the detailed productive rearrangement data for all 28 regions sequenced. For each region, data includes the nucleotide sequence, the amino acid sequence, the V, D, and J gene and allele identifications and the frequency of all the productive rearrangements in that region.</li> <li><strong>SampleOverview_12-17-2019_9-03-56_AM.tsv</strong>: contains the region-level data that includes absolute number of rearrangements and productive rearrangements and productive clonality for all 28 regions sequenced.</li> </ul>
Immunogenomics of colorectal cancer response to immune checkpoint blockade: Imaging Mass Cytometry
<p><strong>Immunogenomics of colorectal cancer response to immune checkpoint blockade</strong></p> <p>Imaging Mass Cytometry data supporting the paper: "Immunogenomics of colorectal cancer response to immune checkpoint blockade"</p> <p>The provided data includes:</p> <ul> <li>Sample metadata: Raw_txt_mcd_files.tar.gz/Metadata.csv</li> <li>Raw ablation data in .mcd or .txt format: Raw_txt_mcd_files.tar.gz</li> <li>Thresholded and cleaned tiff images:Cleaned_Tiff_Images.tar.gz</li> <li>Tissue/tumor/stroma masks: Masks.tar.gz</li> <li>Single-cell marker expression values and centroid coordinates: Single_Cell_Data.csv</li> </ul>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.