22950 results for "ega"

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• Whole genome sequencing data of high-grade serous ovarian cancer samples (set 12)

  The dataset contains whole genome sequencing data of 17 high-grade serous carcinoma (HGSC) patients sequenced with Novoseq 6000. The 46 samples are either fresh frozen tumour samples or blood samples. The files provided are paired fastq files.

  Dataset EGAD50000000441

• Whole genome sequencing data of high-grade serous ovarian cancer samples (set 13)

  The dataset contains whole genome sequencing data of 32 high-grade serous carcinoma (HGSC) patients sequenced with Novoseq 6000. The 82 samples are either fresh frozen tumour samples or blood samples. The files provided are paired fastq files.

  Dataset EGAD50000000442

• IBMsnRNAseq

  snRNA-seq and spatial transcriptomic data and analysis of healthy (CTRL) and inflamed (immune-mediated necrotizing myopathy (IMNM) and inclusion body myositis (IBM)) human quadriceps muscle. This data set includes 19 snRNA-seq (7 CTRL, 4 IMNM, 8 IBM) and 8 ST samples (3 CTRL, 2 IMNM, 3 IBM).

  Dataset EGAD50000000449

• A comprehensive genetic map of cytokine responses in Lyme borreliosis

  A study on the genetic determinants of immune response in patients diagnosed with Lyme borreliosis. Examining the link between genetic variants and cytokine response in more than 1,000 patients.

  Study EGAS50000000024

• Whole-genome sequencing of primary mediastinal large B-cell lymphoma

  To understand the molecular pathogenesis of Primary mediastinal large B-cell lymphoma (PMBCL), we performed whole-genome sequencing of 10 PMBCLs from 8 patients including 2 relapsed tumors.

  Study EGAS50000000340

• BipEx-Landen: Bipolar Exome Sequencing

  This research project was a collaboration between the Karolinska Institute and the Stanley Center at the Broad Institute. In this project we sequenced and analyzed the whole exomes of 5,876 Bipolar case/control samples from collaborators in Sweden. Genomic DNA from each samples was sequenced to a mean depth of 20x.

  Dataset EGAD50000000307

• Whole genome sequencing data of high-grade serous ovarian cancer samples (set 14)

  The dataset contains whole genome sequencing data of 42 high-grade serous carcinoma (HGSC) patients sequenced with Novoseq 6000. The 100 samples are either fresh frozen tumour samples or blood samples. The files provided are paired fastq files.

  Dataset EGAD50000000507

• Orthogonal proteogenomic analysis identifies the druggable PA2G4-MYC axis in 3q26 AML

  Our aim was to identify regulators of the EVI1/MECOM gene, which is the most lethal oncogenic TF and is highly expressed in AML with chromosome 3q26 abnormalities.

  Study EGAS50000000347

• Transcriptome atlas of brain organoid developent

  Single-cell Cut&Tag of three histone modifications and chromatin accessibility over a timecourse of brain organoid development from pluripotency. We profiled 5 time points of brain organoid development and 2 time points of retinal organoid development. We used scRNA-seq to profile transcriptome. Library preparation was carried out with the 10x genomics platform.

  Dataset EGAD50000000223

• Epigenomic dataset of Human Hepatocellular Carcinoma for EpiHK

  This dataset is generated for EpiHK. It contains Histone PTM ChIP-seq, WGBS, RNA-seq of 7 Human Hepatocellular Carcinoma and 7 tumor adjacent normal tissue sample.

  Dataset EGAD50000000058

• Single nuclei RNAseq data from HGSOC primary tumour samples

  As described in Burdett et al, snRNAseq was performed on primary HGSOC tumour samples that had previously undergone bulk WGS and RNAseq as described in Patch et al 2015 Nature.

  Study EGAS50000000249

• RNA Sequencing of AD OM cells exposed to traffic-related air pollutants

  Total RNA sequencing of olfactory mucosa (OM) cells derived from individuals diagnosed with Alzheimer's disease exposed to traffic-related ultrafine particles (UFPs) for 24-h and 72-h in submerged cultures. The UFPs used for exposures were: A0, A20 and Euro6. Exposures were compared to the corresponding blank samples.

  Dataset EGAD50000000648

• Dac for "Combined single-cell transcriptomics and T-cell receptor sequencing reveal heterogeneity of mycosis fungoides between and within patients and identify a CD4+ cytotoxic subtype"

  Dac for "Combined single-cell transcriptomics and T-cell receptor sequencing reveal heterogeneity of mycosis fungoides between and within patients and identify a CD4+ cytotoxic subtype" with Name: Menghong Yin Email address: menghong.yin@dkfz-heidelberg.de Associated affiliation: Translational Skin Cancer Research Lab (DKFZ)

  Dac EGAC50000000168

• Whole genome sequencing data of high-grade serous ovarian cancer samples (set 15)

  The dataset contains whole genome sequencing data of 8 high-grade serous carcinoma (HGSC) patients sequenced with Novoseq 6000. The 16 samples are either fresh frozen tumour samples or blood samples. The files provided are paired fastq files.

  Dataset EGAD50000000526

• Hi-C in breast healthy, primary cancer and metastatic tissues

  Hi-C libraries have been prepared by enzymatic digestion with MboI restriction enzyme and sonication (Covaris). Illumina single-indexig primers have been use to amplify ligated fragments. Hi-C experiments have been performed on 10 slices (50um thick) of fresh-frozen tissues or 10x10e6 Pleural Effusion cells. Raw paired-end fastq.gz files are provided.

  Dataset EGAD50000000643

• TallFlow - multi-omics

  Single-cell Immune profiling 10X genomics protocol. This data includes 5' mRNA sequencing, TCR sequencing, and 204 AB sequencing. In total 15 pediatric T-ALL samples and 4 pediatric Thymus samples.

  Study EGAS50000000358

• GIST Comprehensive Cancer Panel

  DNA Sequencing of 864 genes from KiCS cancer panel. Multiple family members affected with multifocal GIST who underwent whole genome sequencing of the germline and tumor. Affected individuals with GIST harbored a germline variant found within exon 13 of the KIT gene, (c.1965T>G; p.Asn655Lys, p.N655K) and a variant in the MSR1 gene (c.877C>T; p.Arg293*, pR293X).

  Dataset EGAD50000000548

• scRNA seq Data set

  This data set contains the raw FASTq files and processed files of scRNA seq experiment which were conducted on 3 EMD samples. The libraries were generated using 10x genomics Dual index Single Cell 3' v3.1. The processed files are TSV files of features, barcodes, and gene expression matrix

  Dataset EGAD50000000334

• Exome sequencing data, phenotypic information, and somatic mutation analysis results for 44 diagnosis-relapse DLBCL pairs

  This dataset contains exome sequencing data, phenotypic information, and somatic mutation analysis results for 44 diagnosis-relapse DLBCL pairs. Exon sequencing data were captured using the Agilent HaloPlex exon kit. bam files were obtained from illumina sequencing followed by BWA alignment.

  Dataset EGAD50000000049

• BAM files from capture-based targeted sequencing of 4 agressive B-cell lymphoma tumour samples (DLBCL-panel)

  This dataset contains BAM files from capture-based targeted sequencing of 4 agressive B-cell lymphoma tumour samples for cases 2, 3, 4 and 13. The sequencing panel used is a DLBCL-oriented panel containing 136 genes, described in Mozas P. et al., Hematol Oncol 2023.

  Dataset EGAD50000000802

• Moroccan Genome Project: Sequencing Data from 109 Whole Genomes of Moroccan Individuals

  This study is the first phase of the Moroccan Genome Project, which included the complete sequencing of 109 genomes from the Kingdom of Morocco. The sequencing was performing using the Illumina NovaSeq6000 platform, with a mean coverage of 30X.

  Dataset EGAD50000000750

• Cas9-targeted-based long-read sequencing for genetic screening of RPE65 locus

  The dataset includes sequencing data from five inherited retinal dystrophies (IRD) patients using three diferent platforms: Clinical Exome (CES), Long-read sequencing of RPE65 locus, and 3) whole genome sequencing.

  Dataset EGAD50000000847

• BIOMIROX

  This dataset regroups RNAseq of paired primary colorectal cancers and liver metastases extracted from 113 patients In Paris and Besançon University Hospitals. 216 FASTQ files from single-end 3' PolyA (QuantSeq 3′mRNA-Seq Kit FWD for Illumina (Lexogen)) RNAseq samples were generated On NOVASEQ 6000 (ILLUMINA).

  Dataset EGAD50000000443

• Early and Late Onset Colorectal Cancer Genomic Data

  A clinically and genomically annotated Early onset colorectal cancer and late onset colorectal cancer. This study aimed to identify genomic characteristics of early-onset colorectal cancer (EOCRC) compared to late-onset cases. Whole-genome sequencing (WGS) was performed on EOCRC and late-onset colorectal cancer (LOCRC) tissues and blood samples to analyze their genomic profiles.

  Dataset EGAD50000000774

• Breast cancer risk SNPs converge on estrogen receptor binding sites commonly shared between breast tumors to locally alter estrogen signalling output

  Evaluate the biology underlying inter-tumor cistromic heterogeneity of ER-alpha, in relation to genomic locations and germline variations between breast cancer tumors

  Study EGAS50000000008

• WTCCC2 case-control study for Ulcerative Colitis

  WTCCC2 project genome-wide case-control association study for Ulcerative Colitis (UC) using the 1958 British Birth Cohort and the UK National Blood Service collections as controls.

  Study EGAS00000000084

• Expression quantitative trait loci influence DNA damage-induced apoptosis in cancer

  Dataset with eQTL and e2QTL metadata. The analyses were performed using CD8+ T cells from 461 healthy European participants stimulated with high doses of 5 different carcinogens to induce early apoptosis. These include Methyl-methanesulfonate (MMS), tert-butyl-hydroperoxide (TBOOH), benzo(a)pyrene-7,8-diol-9,10-epoxide (BPDE), 4-hydroxycyclophosphamide (HC) and UVC radiation.

  Dataset EGAD50000000941

• bulk mRNA-seq of iGRAN (CD14neg) cells from CMML patients and healthy donors

  bulk mRNA-seq of iGRAN (CD14neg) cells from CMML patients and healthy donors [Publication title] CXCL8 secreted by immature granulocytes inhibits wildtype hematopoiesis in chronic myelomonocytic leukemia

  Study EGAS50000000555

• Asan Medical Center Data Access Committee

  This DAC is responsible for reviewing and approving data access requests to protect the sensitive information of patients. The dataset includes RNA-seq data from CRLM patients treated with FOLFOX, bevacizumab, and atezolizumab, and supports research in gene expression analysis and therapeutic response. Data access requests require an approved ethical research plan, limited to projects related to cancer biology and therapy development.

  Dac EGAC50000000439

• NanoSeq of buccal swab samples

  16 buccal swab samples were analyzed by Nanoseq. S3 in the file names indicates 28 mm^2 swab size, and S5 indicates 254 mm^2 swab size. We analyzed 28 mm^2 swab samples using paired 254 mm^2 swab samples as controls. The files were generated by the Nanoseq pipeline using GRCh37 as the reference genome.

  Dataset EGAD50000000999

• WES for CNV-verified CTCs from 2 patients with metastatic prostate cancer

  This dataset contains 4 paired fastq files sequenced by illumina Novoseq 6000. WES analysis (illumina platform, PE150, 100x coverage) was performed on a pool of CNV-verified CTCs that were enriched using high-throughout microfluidic device from entire leukopak from patients with metastatic prostate cancer (GU-1 and GU-2).

  Dataset EGAD50000001005

• SALTO: chromosomal copy number alterations to predict response to bevacizumab

  Study of the correlation between vessel formation and or CMS subtypes in relation to a predictive copy number marker for bevacizumab. Shallow Whole Genome Sequencing of 92 mCRC samples.

  Study EGAS50000000711

• CRITICS trial Whole Exome Sequencing (WES)

  Chemotherapy versus chemoradiotherapy after surgery and preoperative chemotherapy for resectable gastric cancer (CRITICS): an international, open-label, randomised phase 3 trial. Molecular characterisation of N=36 resectable gastric adenocarcinomas from CRITICS trial, describing mutations obtained by matched (Tumor-Normal) whole exome sequencing (WES). Samples are annotated for TCGA’s molecular classification (MSI, GS and CIN).

  Dataset EGAD50000001145

• WES of der(1;7)(q10;p10)

  This dataset contains the BAM files of WES of 26 myeloid neoplasm patients with der(1;7)(q10;p10)(+) cases. The dataset was used to identify key driver genes in patients with der(1;7)(q10;p10). Already known drivers along with novel driver genes were identified through the use of this WES.

  Dataset EGAD50000000986