7188 results for "({!join from=dataset_studies to=id v=$q1}) OR ("transcriptome" OR "RNA-seq" OR "rna sequencing" OR "rna-sequencing")"

in 19.31 milliseconds.

• RNAseq analysis on metastasis-derived organoids (LMO)

  Bank of metastasis-derived organoids (LMO)

  Dataset EGAD00001010067

• Reference epigenome Islet-derived-MSC03 miRNA-Seq data generated from KEP study

  Islet-derived-MSC03 miRNA-Seq single end data

  Dataset EGAD00001007183

• Reference epigenome Islet-derived-iPSC01 miRNA-Seq data generated from KEP study

  Islet-derived-iPSC01 miRNA-Seq single end data

  Dataset EGAD00001007185

• Reference epigenome Islet-derived-iPSC02 miRNA-Seq data generated from KEP study

  Islet-derived-iPSC02 miRNA-Seq single end data

  Dataset EGAD00001007186

• Reference epigenome Islet-derived-MSC02 miRNA-Seq data generated from KEP study

  Islet-derived-MSC02 miRNA-Seq single end data

  Dataset EGAD00001007182

• Reference epigenome Islet-derived-MSC01 miRNA-Seq data generated from KEP study

  Islet-derived-MSC01 miRNA-Seq single end data

  Dataset EGAD00001007181

• Reference epigenome KNIH009 miRNA-seq data generated from KEP study

  A KNIH009 miRNA-seq single end data for preadipocytes

  Dataset EGAD00001002768

• Reference epigenome KNIH008 mRNA-seq data generated from KEP study

  A KNIH008 mRNA-seq paired end data for adipocytes

  Dataset EGAD00001002174

• Reference epigenome KNIH007 miRNA-seq data generated from KEP study

  A KNIH007 miRNA-seq single end data for adipocytes

  Dataset EGAD00001002766

• Reference epigenome KNIH008 miRNA-seq data generated from KEP study

  A KNIH008 miRNA-seq single end data for adipocytes

  Dataset EGAD00001002767

• Dataset for the study of ulcerative colitis

  Whole exome sequencing and RNAseq data.

  Dataset EGAD00001005237

• Reference epigenome Islet-derived-MSC04 miRNA-Seq data generated from KEP study

  Islet-derived-MSC04 miRNA-Seq single end data

  Dataset EGAD00001007184

• Reference epigenome SMC07_smRNA-Seq data generated from KEP study

  A SMC07_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003864

• Reference epigenome SMC03_smRNA-Seq data generated from KEP study

  A SMC03_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003860

• Reference epigenome SMC08_smRNA-Seq data generated from KEP study

  A SMC08_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003865

• Reference epigenome SMC09_smRNA-Seq data generated from KEP study

  A SMC09_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003866

• Reference epigenome SMC01_smRNA-Seq data generated from KEP study

  A SMC01_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003858

• Reference epigenome SMC05_smRNA-Seq data generated from KEP study

  A SMC05_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003862

• Reference epigenome SMC06_smRNA-Seq data generated from KEP study

  A SMC06_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003863

• Reference epigenome SMC04_smRNA-Seq data generated from KEP study

  A SMC04_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003861

• Reference epigenome SMC02_smRNA-Seq data generated from KEP study

  A SMC02_smRNA-Seq single end data for skeletal muscle cells

  Dataset EGAD00001003859

• Characterization of Sex Differences in Human Placentas

  Whole exome and whole transcriptome sequencing data from human (Homo sapiens) placenta and maternal decidua tissues. This study characterizes sex differences in gene expression in the placenta. Differences in gene expression in maternal decidua from pregnancy with a male or female placenta. Patterns of X chromosome inactivation in the placenta. Genome-wide allele-specific expression in human placentas. 

  Study phs002240

• Feasibility and Clinical Utility of Whole Genome Profiling in Pediatric and Young Adult Cancers

  Comprehensive Whole Genome Sequencing and Whole Transcriptome (RNASeq) analyses from 114 pediatric patients at Memorial Sloan Kettering. This dataset was used as a prospective clinical utility and feasibility study. By using our Isabl infrastructure for precision medicine, we developed a 2-week end-to-end pipeline to analyze cfDNA, WGS and WTS, which we refer to as cWGTS.

  Study phs002620

• Childhood Cancer Data Initiative (CCDI): Clonal Evolution During Metastatic Spread in High-Risk Neuroblastoma

  The goal of this study is to deliver a detailed characterization of the patterns of disease dissemination at diagnosis, during progression and in response to therapy in high-risk neuroblastoma. Longitudinal and spatially distinct tumors were collected from patients. Clinical data includes diagnosis and treatment information. Biospecimen data includes whole genome sequencing (WGS) and whole transcriptome sequencing (WTS).

  Study phs003111

• Raw scRNA-seq data from B-lineage cells in the blood of celiac disease patients

  Raw scRNA-seq data from 355 IgA+ peripheral blood B-lineage cells of two untreated celiac disease patients. The data was generated with the Smart-seq2 protocol and sequenced on a NextSeq500 instrument (Illumina) with 75 bp paired-end reads in high-output mode. The dataset contains R1 and R2 reads for each single cell (fastq.gz files) for cells passing quality control based on number of detected genes, reads, mitochondrial genes, reads mapping to the reference transcriptome and a productively rearranged immunoglobulin heavy chain IgA isotype reconstructed by the computational tool BraCeR. Metadata for the cells is provided in a csv file.

  Dataset EGAD50000000340

• SARS-CoV-2 induced alterations of the upper airway DNA methylome exert long-term impacts on ciliary genes involved in ciliary function

  Enzymatic DNA methylome (n=33) and single-cell RNA (n=24) sequencing were performed in nasal cells of COVID-19 patients and controls. In addition, we re-sampled a subset of patients for transcriptome analyses at 3 and 12 months post-infection and followed the expression of differentially regulated genes over time.

  Study EGAS50000000273

• 10X CD4 auto-antigens

  Ex vivo CD4 T-cells from 4 donors were stimulated with antigen-coupled beads to aCD3, ABD, EBNA1, ANO2 or CRYAB and the LiveCD3+CD4+CFSEdim cells were sorted by flow cytometry. Cells were labelled with barcoded antibodies to identify the original stimulus. All stimulations from each donor were pooled into four reactions, i.e. one reaction per donor. Libraries were assembled with the 10X Chromium Next GEM Single Cell 5’ Kit for TCR and transcriptome with feature barcodes. Dataset contains raw fastq reads as well as supplementary information needed to link fastq files to modality, i.e. gene-expression, protein or VDJ, and includes supplementary information to de-multiplex the reactions by stimulation condition.

  Dataset EGAD50000002201

• Melanoma_multi_site_metastases

  Despite multiple large-scale sequencing studies offering substantial insight into the genomic landscape of cutaneous melanoma, the molecular events surrounding disease progression and the resulting molecular heterogeneity between metastases have not been fully elucidated. We have been applying whole genome and transcriptome sequencing across metastases collected during post mortem as well as to multi-site metastases during treatment

  Study EGAS00001001348

• Genetic landscape of pediatric Adrenocortical Tumor

  Paediatric adrenocortical carcinoma is a rare malignancy with poor prognosis. Here we analyse 37 adrenocortical tumours (ACTs) by whole-genome, whole-exome and/or transcriptome sequencing. Collectively, these findings demonstrate the nature, timing and potential prognostic significance of key genetic alterations in paediatric ACT and outline a hypothetical model of paediatric adrenocortical tumorigenesis.

  Study EGAS00001000257

• Characterizing the immune and genome landscapes for osteosarcoma

  Osteosarcoma have heavily rearranged genomes and moderate tumor mutation burden, which suggests that the patients may express neoantigens that could be targeted by immune cells. To characterize the immunogenomic landscape of this disease, we performed genome, transcriptome, immune and proteomic profiling of 48 patients comprised largely of relapsed and metastatic cases from both pediatric and adult patients.

  Study EGAS00001003247

• Single cell sequencing of human normal luminal cells

  The dataset includes 12 paired FASTQ files (6 samples) with single cell transcriptome sequencing data of normal breast luminal cells from ducts and TDLUs derived from reduction mammoplasties from three patients. Chromium Single Cell 3’ Reagent Kit v2 or v3 (10x Genomics) were used for processing of cells, whereafter sequencing was performed using the Illumina® NextSeq500/550 High Output Kit v2. Cell Ranger was used for generating FASTQ files and files from different lanes were concatenated prior to uploading the data to EGA. "R1" files include the feature barcodes and UMIs, while "R2" files include the reads.

  Dataset EGAD00001008499

• LLDeep DAG2+: scRNA-seq in PBMCs

  Single cell transcriptomics of PBMCs of 47 donors from the Lifelines Deep cohort (general population, Northern part of the Netherlands). Cells of five or six different donors were pooled together in one sample pool, resulting in eight different sample pools. In total, 28.855 cells were captured and their transcriptomes were sequenced to an average depth of 74k. Genotype data was available for each donor, which allowed us to use the Demuxlet method that uses variable SNPs between the pooled individuals to determine which cell belongs to which individual. Since genotype information is lacking of 2 individuals, the transcriptome of only 45 individuals could be retrieved.

  Dataset EGAD00001003459

• Knoll et al Identification of drug candidates targeting monocyte reprogramming in people living with HIV PBMC drug in vitro

  PBMC RNAseq drug in vitro

  Dataset EGAD50000000070

• Long read microbiome whole metagenome sequencing

  Long read microbiome whole metagenome sequencing of pediatric GI samples.

  Dataset EGAD50000000486

• ADARIO / Targeting ADAR1 in Immuno-Oncology

  RNA editing analyses of BRCA-isogenic cell lines and patient-derived xenografts (PDX)

  Study EGAS50000000518

• HCA_Immune_UAI_Paediatric_Spatial_Managed_Access

  Comparison of immune populations in adenoid tissue in patients with and without history of otitis media

  Study EGAS00001006471

• Reconstructed BCRs

  Computationally reconstructed B-cell receptor sequences (using BraCeR) from scRNA-seq data for all cells passing quality control.

  Dataset EGAD00001008456

• Single Cell RNAseq of blood and tumor from renal cancer patients

  Single Cell RNAseq of blood and tumor from renal cancer patients

  Dataset EGAD00001005977

• Reference epigenome KNIH005 mRNA-seq data generated from KEP study

  A KNIH005 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002171

• Reference epigenome KNIH001 miRNA-seq data generated from KEP study

  A KNIH001 miRNA-seq single end data for islet cells

  Dataset EGAD00001002760

• Reference epigenome Islet-derived-iPSC02 mRNA-Seq data generated from KEP study

  Islet-derived-iPSC02 mRNA-Seq paired end data

  Dataset EGAD00001007165

• NanoString gene expression of PBMC from bladder cancer and RCC patients

  This dataset contains NanoString gene expression of PBMC from patients from IMvigor210, IMvigor211 and IMmotion150 cohorts

  Dataset EGAD00001005976

• SF11940

  SF11940 snATAC Sequencing.Anaplastic Astrocytoma, IDH-mutant. Tumor location: Left Frontal. Age: 29. Sex: Male .

  Dataset EGAD00001006311

• Melanoma post mortem analysis

  We have been applying whole genome and transcriptome sequencing across metastases collected during post mortem. Herein we show the findings for the first such patient.

  Dataset EGAD00001005072

• Reference epigenome KNIH003 mRNA-seq data generated from KEP study

  A KNIH003 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002169

• Reference epigenome KNIH002 miRNA-seq data generated from KEP study

  A KNIH002 miRNA-seq single end data for islet cells

  Dataset EGAD00001002761

• Reference epigenome KNIH003 miRNA-seq data generated from KEP study

  A KNIH003 miRNA-seq single end data for islet cells

  Dataset EGAD00001002762

• Reference epigenome KNIH004 miRNA-seq data generated from KEP study

  A KNIH004 miRNA-seq single end data for islet cells

  Dataset EGAD00001002763

• Reference epigenome KNIH005 miRNA-seq data generated from KEP study

  A KNIH005 miRNA-seq single end data for islet cells

  Dataset EGAD00001002764

• Reference epigenome Islet-derived-iPSC01 mRNA-Seq data generated from KEP study

  Islet-derived-iPSC01 mRNA-Seq paired end data

  Dataset EGAD00001007164