11762 results for "cancer rna-seq"

in 15.48 milliseconds.

• Reference epigenome IPS-ENeuron02 input ChIP-Seq data generated from KEP study

  IPS-ENeuron02 input ChIP-Seq paired end data

  Dataset EGAD00001007304

• Systematic immune cell dysregulation and molecular subtypes revealed by single cell RNA-seq of subjects with type 1 diabetes

  Type 1 diabetes mellitus (T1DM) is a prototypic endocrine autoimmune disease resulting from an immune-mediated destruction of pancreatic insulin-secreting beta-cells. A comprehensive immune cell phenotype evaluation in T1DM has not been performed thus far at the single. In this cross-sectional analysis, we generated a single-cell transcriptomic dataset of peripheral blood mononuclear cells (PBMCs) from 46 manifest T1DM (Stage 3) cases and 31 matched controls.Our study reveals a surprisingly strong systemic dimension at the level of immune cell network in T1DM, defines disease-relevant molecular subtypes and has the potential to guide non-invasive test development and patient stratification.

  Study EGAS50000000231

• Single-cell/single-nucleus RNA-seq of Embryonal Tumor with Multilayered Rosettes (ETMR)

  Embryonal tumor with multilayered rosettes (ETMR) is a pediatric brain tumor with dismal prognosis. We analyzed eleven ETMR patient samples using single-cell transcriptomics. We reveal a spatially distinct cellular hierarchy that spans highly proliferative neural stem-like cells and more differentiated neuron-like cells. C19MC is predominantly expressed in stem-like cells and controls a transcriptional network governing stemness and lineage commitment. Systematic analysis of receptor-ligand interactions between malignant cell types reveals FGFR and NOTCH signaling as oncogenic pathways. Our study provides fundamental insights into ETMR pathobiology and a powerful rationale for more effective targeted therapies.

  Study EGAS50000000937

• Functional Multiomics of Cellular Therapy and Immune Checkpoint Blockade Therapy for Solid Tumors

  Tumor samples were collected from a patient with synovial sarcoma, which acquired resistance to ACT targeting NY-ESO-1. Biopsies (n=3; primary, metastasis, and recurrence) were subjected to bulk tumor DNA and RNA sequencing, as well as high-dimensional spatial profiling of RNA and protein targets. Bulk tumor whole exome and RNA sequencing corresponding to all three tumor specimens and whole exome sequencing from patient-matched normal blood are made available through this accession.

  Study phs002762

• Extracellular microRNA Biomarkers for Diagnostic and Prognostic Assessment of Preeclampsia at Triage

  This study is comprised of samples from 123 donors (71 cases and 52 controls) undergoing evaluation for preeclampsia. All samples were collected between 20 and 40 weeks of gestation. Small RNA sequencing was done on serum RNA obtained from donors. We were able to identify 3 bivariate extracellular miRNA biomarkers that can enable early diagnosis of preeclampsia. The raw fastq small-RNA sequencing fastq files will be submitted to dbGaP.

  Study phs003169

• RNA-sequencing on thyroid samples from fetuses with Down syndrome and fetuses with no genetic/developmental abnormality

  The current data pertains RNA-sequencing reads obtained from thyroid samples acquired from fetuses with Down syndrome and fetuses with no genetic/developmental abnormality. Total RNA was isolated from left lobe from thyroid samples using a hand-held homogenizer and the Promega ReliaPrep RNA Miniprep System (Thermo Fisher Scientific). RNA yield was determined with the NanoDrop Microvolume Spectrophotometer (Thermo Fisher Scientific). Fragmentation and mRNA library preparation was performed using the Kapa mRNA Hyperprep Kit (Roche, Basel, Switzerland). Libraries were equimolar pooled and quality was checked on a TapeStation system using the DNA1000 ScreenTape (Agilent Technologies, Santa Clara, CA, USA). Libraries were sequenced with poly(A) selection to sequence all messenger RNA for gene expression analysis on the NovaSeq6000 PE150 (Illumina, San Diego, CA, USA), producing at least 40M 150-bp paired-end reads per library.

  Dataset EGAD50000000387

• RNA sequencing from patient-derived intestinal organoids

  uman duodenal tissues for establishing organoid cultures used in this study were sourced from de-identified surgical specimens (n = 3) of the duodenum obtained from patients who had undergone biopsy procedures unrelated to CeD at Tampere University Hospital. The protocol was approved by the Ethics Committee of Tampere University Hospital, Tampere, Finland (ETL code R18082). RNA from the duodenal organoids was isolated using an RNeasy Kit (Qiagen, Hilden, Germany) following the manufacturer’s instructions. RNA purity and concentration were measured using a NanoDrop One spectrophotometer (NanoDrop Technologies, Wilmington, Delaware, USA). Preparation of the RNA library and transcriptome sequencing was conducted by Novogene Co., LTD (Cambridge, UK). Messenger RNA was purified from total RNA using polyA selection and subjected to library construction. Sequencing was performed on an Illumina platform, and 150 bp paired-end reads were generated.

  Dataset EGAD50000000492

• Dataset for RNA sequencing glioblastoma data

  This dataset contains RNA sequencing data of 36 glioblastoma samples. Sequencing was performed on Illumina NovaSeq 6000 using TruSeq Stranded RNA Kit. The sequencing was always paired.

  Dataset EGAD50000000688

• CATNON: IDH-mutant astroctyoma RNA FASTQ

  Raw fastq files obtained by RNA sequencing 138 IDH-mutant astrocytomas included in the CATNON trial. RNA was extracted from formalin-fixed paraffin-embedded (FFPE) tissue blocks using the RNeasy FFPE kit. RNA sequencing was performed on an Illumina NovaSeq 6000 (GenomeScan BV, Leiden, The Netherlands) with 150bp paired-end reads including UMI tags.

  Dataset EGAD50000000558

• single nuclei multiomics (ATAC-RNA) of KOLF2.1J human induced pluripotent stem cells-derived differentiated dopaminergic neurons

  We processed nuclei from hIPSCs differentiated optimized protocols for generating dopaminergic neurons. Cells differentiated with a first iteration were RNA and ATAC-sequenced, to understand our protocol caveats to address for optimization. Cells differentiated with a second protocol and in vivo were RNA-sequenced to validate the identities of our cells.

  Study EGAS50000001418

• Total RNA sequencing of RNA from testicular tissue

  Study EGAS00001006119

• Reference epigenome Islet-derived-MSC04 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007434

• ATAC-seq

  ATAC-seq data for 26 CLL samples (7 controls, 19 tumor) of the CancerEpiSys-PRECiSe project.

  Dataset EGAD00001005967

• ALI culture bronchial cells and alveolar lung surgical resection scRNA-Seq

  ALI culture bronchial cells and alveolar lung surgical resection scRNA-Seq

  Dataset EGAD00001006185

• Reference epigenome Islet-derived-MSC04 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007430

• Reference epigenome Islet-derived-MSC04 h3k36me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k36me3 ChIP-Seq paired end data

  Dataset EGAD00001007431

• Reference epigenome Islet-derived-iPSC02 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC02 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007444

• Reference epigenome Islet-derived-MSC01 h3k4me1 ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k4me1 ChIP-Seq paired end data

  Dataset EGAD00001007405

• Reference epigenome Islet-derived-MSC01 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007402

• Reference epigenome Islet-derived-MSC01 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007403

• Reference epigenome Islet-derived-MSC01 h3k4me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k4me3 ChIP-Seq paired end data

  Dataset EGAD00001007406

• Reference epigenome Islet-derived-MSC01 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007407

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

  Islet-derived-MSC01 input ChIP-Seq paired end data

  Dataset EGAD00001007408

• Reference epigenome Islet-derived-MSC02 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007409

• Reference epigenome Islet-derived-MSC02 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007410

• Reference epigenome Islet-derived-MSC02 h3k36me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k36me3 ChIP-Seq paired end data

  Dataset EGAD00001007411

• Reference epigenome Islet-derived-MSC02 h3k4me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k4me3 ChIP-Seq paired end data

  Dataset EGAD00001007413

• Reference epigenome Islet-derived-MSC02 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007414

• Reference epigenome Islet-derived-MSC03 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC03 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007417

• Reference epigenome Islet-derived-MSC03 h3k4me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC03 h3k4me3 ChIP-Seq paired end data

  Dataset EGAD00001007426

• Reference epigenome Islet-derived-MSC03 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC03 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007427

• Reference epigenome Islet-derived-MSC03 h3k4me1 ChIP-Seq data generated from KEP study

  Islet-derived-MSC03 h3k4me1 ChIP-Seq paired end data

  Dataset EGAD00001007425

• Reference epigenome Islet-derived-MSC04 h3k4me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k4me3 ChIP-Seq paired end data

  Dataset EGAD00001007433

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

  Islet-derived-MSC04 input ChIP-Seq paired end data

  Dataset EGAD00001007435

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

  Islet-derived-MSC03 input ChIP-Seq paired end data

  Dataset EGAD00001007428

• Reference epigenome Islet-derived-MSC04 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007429

• Reference epigenome Islet-derived-MSC04 h3k4me1 ChIP-Seq data generated from KEP study

  Islet-derived-MSC04 h3k4me1 ChIP-Seq paired end data

  Dataset EGAD00001007432

• Reference epigenome Islet-derived-iPSC01 h3k36me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC01 h3k36me3 ChIP-Seq paired end data

  Dataset EGAD00001007438

• Reference epigenome Islet-derived-iPSC01 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-iPSC01 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007436

• Reference epigenome Islet-derived-iPSC01 h3k27me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC01 h3k27me3 ChIP-Seq paired end data

  Dataset EGAD00001007437

• Reference epigenome Islet-derived-iPSC01 h3k4me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC01 h3k4me3 ChIP-Seq paired end data

  Dataset EGAD00001007440

• Reference epigenome Islet-derived-iPSC01 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC01 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007441

• Reference epigenome Islet-derived-iPSC02 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-iPSC02 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007443

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

  Islet-derived-iPSC01 input ChIP-Seq paired end data

  Dataset EGAD00001007442

• Reference epigenome Islet-derived-iPSC02 h3k9me3 ChIP-Seq data generated from KEP study

  Islet-derived-iPSC02 h3k9me3 ChIP-Seq paired end data

  Dataset EGAD00001007448

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

  Islet-derived-iPSC02 input ChIP-Seq paired end data

  Dataset EGAD00001007449

• Reference epigenome Islet-derived-MSC01 h3k36me3 ChIP-Seq data generated from KEP study

  Islet-derived-MSC01 h3k36me3 ChIP-Seq paired end data

  Dataset EGAD00001007404

• Reference epigenome Islet-derived-MSC02 h3k4me1 ChIP-Seq data generated from KEP study

  Islet-derived-MSC02 h3k4me1 ChIP-Seq paired end data

  Dataset EGAD00001007412

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

  Islet-derived-MSC02 input ChIP-Seq paired end data

  Dataset EGAD00001007415

• Reference epigenome Islet-derived-MSC03 h3k27ac ChIP-Seq data generated from KEP study

  Islet-derived-MSC03 h3k27ac ChIP-Seq paired end data

  Dataset EGAD00001007416