22938 results for "ega"

in 44.33 milliseconds.

• Ampliseq library database

  This database contains 46 samples for early stage ovarian high grade serous carcinoma project. Amplicon sequencing on 37 tumour samples from early stage ovarian high grade serous carcinoma as well as 5 adjacent normal tissue samples and 4 whole blood samples.

  Dataset EGAD00001008587

• Variants from a subset of genes from WES of adult AML patient samples

  Dataset comprises one vcf file containing variants from a list of genes (DNA repair and metabolism associated genes) subset from WES of an adult AML cohort. The cohort contains 145 patient samples. WES was performed using Illumina platform.

  Dataset EGAD00001008700

• A95700A

  Whole genome sequencing for single cells for library A95700A 1172 cells; filetype=bam

  Dataset EGAD00001007611

• A96226B

  Whole genome sequencing for single cells for library A96226B 1274 cells; filetype=bam

  Dataset EGAD00001007621

• Transcriptome analysis of Treg cells from blood, fat, liver and skin

  Tcells were isolated fom Tissues and FACS sorted. In total 43 samples were processed in 5 replicates with the Takara SmartSeq Stranded kit. Single end fastq-files are supplied.

  Dataset EGAD00001007664

• 17 skin and oral epithelial bulk samples from 2 donors

  Aligned BAM files with removed duplicate reads of targeted sequencing data (exomes of a panel of 153 genes) from 12 skin and 5 oral epithelial bulk samples from 2 donors. Sequences generated by the BGI DNB-SEQ platform.

  Dataset EGAD00001008956

• Exome Sequencing of 44 subjects with very severe or fatal COVID-19

  In this study, the DNA of 44 subjects with severe COVID-19 have been sequenced in order to explore rare genetic variants.

  Dataset EGAD00001008993

• ExHiBITT – Exploring Host microBIome inTeractions in Twins – a colon multiomic cohort study

  The objective of the colonoscopy study is to carry out the 16s sequencing of colon biopsies and faecal samples provided in ExHiBITT study to compare potential fluctuations in the microbiota of different sites.

  Dataset EGAD00001010936

• Single Cell Genome Sequence for DLP+ library A96192A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1093C passage 1, patient SA1147 on DLP+ library A96192A

  Dataset EGAD00001009467

• CTCF ChIP-seq of human acute leukemias

  CTCF ChIP-seq of 39 primary samples derived from human acute leukemias, namely AML, T-ALL and mixed myeloid/lymphoid leukemias with CpG Island Methylator Phenotype (CIMP).

  Dataset EGAD00001011059

• Sequencing data for oesophageal / related samples - Foley, Shorthouse et al (RNA)

  Data supporting: "SMAD4 and KCNQ3 Alterations are Associated with Lymph Node Metastases in Oesophageal Adenocarcinoma" RNAseq (FASTQ files) 6 samples

  Dataset EGAD00001011065

• MESA colorectal cancer cfDNA EM-seq dataset

  This dataset contains the methylation sequencing data of 60 nonCancer and 70 colorectal cancer cfDNA samples. The methylation library is constructed by using NEBNext Enzymatic-seq Kit.

  Dataset EGAD00001009165

• Sequencing data for oesophageal and related samples - Abbas et al (RNA)

  Data supporting: "Mutational signature dynamics shaping the evolution of oesophageal adenocarcinoma" Abbas et al (RNA for 197 samples)

  Dataset EGAD00001011269

• Single-cell profiling of co-cultures of GSCCs and macrophages

  This dataset contains scRNA-seq data from 8 co-cultures of GSCCs and macrophages, and 1 monoculture of macrophages. Samples were individually labeled and pooled using MULTI-seq technology and processed with 10x Genomics Technology.

  Dataset EGAD00001011275

• Log2 normalized TPM matrix for POPLAR (GO28753)

  This dataset contains log2(TPM + 1) for 192 tumor samples profiled by RNA-seq for the entire transcriptome for samples originating from POPLAR (GO28753).

  Dataset EGAD00001008390

• Log2 normalized TPM matrix for OAK (GO28915)

  This dataset contains log2(TPM + 1) for 699 tumor samples profiled by RNA-seq for the entire transcriptome for samples originating from OAK (GO28915).

  Dataset EGAD00001008391

• 3_eCLIP_TDP-43

  eCLIP of TDP-43 from iPSC-derived motor neurons in 2 control lines. Per line input and IP samples and analysis including bigWig files and peak files.

  Dataset EGAD00001008426

• Whole transcriptome profiling of osteosarcoma

  This dataset contains 86 osteosarcoma samples and their matched normals that underwent RNA sequencing using size fractionation, NuGEN Ovation Ultralow Library System V2 preparation, and paired-end sequencing on Illumina HiSeq 2000.

  Dataset EGAD00001008435

• Single Cell Genome Sequence for DLP+ library A95632A

  Single Cell Genome Sequence for immortalized breast epithelium - BRCA1-/- Tp53-/- cell line 184-hTERT-22 L9 83.86 on DLP+ library A95632A

  Dataset EGAD00001009321

• Single Cell Genome Sequence for DLP+ library A95634A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1091A passage 1 on DLP+ library A95634A

  Dataset EGAD00001009323

• WGS and RNA-Seq data from a GBM patient PT-PV2594

  WGS and RNA-Seq data from a GBM patient PT-PV2594

  Dataset EGAD00001008526

• WGS and WES data for manuscript titled: ctDNA as a biomarker of progression in oesophageal adenocarcinoma

  WGS and WES data for manuscript titled: ctDNA as a biomarker of progression in oesophageal adenocarcinoma

  Dataset EGAD00001008554

• Single Cell Genome Sequence for DLP+ library A96173A

  Single Cell Genome Sequence for triple negative breast cancer patient-derived xenograft SA501 passage 15 on DLP+ library A96173A

  Dataset EGAD00001009459

• Single Cell Genome Sequence for DLP+ library A96177C

  Single Cell Genome Sequence for triple negative breast cancer patient-derived xenograft SA604 passage 6 on DLP+ library A96177C

  Dataset EGAD00001009462

• RNA-Seq data on multiple myeloma CD138positive bone marrow plasma cells

  RNA-Seq data on multiple myeloma CD138positive bone marrow plasma cells, 11 samples, sequenced on HiSeq 4000 and HiSeq X-Ten, using mostly the TruSeq stranded mRNA Kit.

  Dataset EGAD00001008619

• Single Cell Genome Sequence for DLP+ library A108765A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1181A passage 1 on DLP library A108765A

  Dataset EGAD00001009428

• PacBio HiFi sequencing of telobait-captured DNA from 48 patients

  PacBio HiFi sequencing was performed on 48 barcoded patients' genomic DNA after a telobait-capture protocol to enrich for telomeric regions. The sequencing reads of each patient were de-multiplexed and presented as patient-specific PacBio CCS BAM files.

  Dataset EGAD00001008626

• Single Cell Genome Sequence for DLP+ library A95621B

  Single Cell Genome Sequence for triple negative breast cancer patient-derived xenograft SA501 passage 2 on DLP+ library A95621B

  Dataset EGAD00001009487

• Whole genome sequencing and somatic mutation profiles and whole genome transcription files of pediatric medulloblastoma

  Fastq, Mutect (SNVs), Platypus (indels), and InfoGenomeR (SVs and CNAs) calls from whole genome sequencing data and fastq files of whole genome transcription data of five patients with pediatric medulloblastoma.

  Dataset EGAD00001009507

• Comparative transcriptome of CD34+ hematopoietic progenitors from myeloproliferative patients and control donors

  Comparative transcriptome of CD34+ hematopoietic progenitors from 4 myeloproliferative patients (MPN) and 4 control donors performed by RNA-Sequencing.

  Dataset EGAD00001007531

• Single Cell Genome Sequence for DLP+ library A95635A

  Single Cell Genome Sequence for immortalized breast epithelium - BRCA2-/-; Tp53-/- cell line 184-hTERT-22 L9 116.126 on DLP+ library A95635A

  Dataset EGAD00001009324

• Single Cell Genome Sequence for DLP+ library A95650A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1052J passage 1 on DLP+ library A95650A

  Dataset EGAD00001009325

• A96124B

  Whole genome sequencing for single cells for library A96124B 1241 cells; filetype=bam

  Dataset EGAD00001007616

• A96162A

  Whole genome sequencing for single cells for library A96162A 1505 cells; filetype=bam

  Dataset EGAD00001007618

• A108870A

  Whole genome sequencing for single cells for library A108870A 1795 cells; filetype=bam

  Dataset EGAD00001007598

• Whole Genome Sequencing of low-grade ovarian serous carcinoma

  Whole genome sequencing of 14 cases of low-grade ovarian serous carcinoma with matched normal DNA

  Dataset EGAD00001009626

• Data for noninvasive lung cancer subtyping study

  This dataset included cfMethyl-Seq data of 15 plasma cfDNA samples from 15 lung cancer patients and RRBS data of 58 lung tumor tissue samples from 58 lung cancer patients. The data were generated following the standard protocols.

  Dataset EGAD00001015344

• 15 Healthy controls, 25 conlonrectal cancer patients without liver metastasis and 24 conlonrectal cancer patients with liver metastasis (target capture)

  15 Healthy controls, 25 conlonrectal cancer patients without liver metastasis and 24 conlonrectal cancer patients with liver metastasis (target capture)

  Dataset EGAD00001009838

• The natural history of clonal haematopoiesis: phase 6 targeted

  Deep targeted sequencing of 56 genes associated with clonal haematopoiesis and haematological malignancy in peripheral blood-derived DNA from 11 older adults, each previously sampled 2-5 times over the preceding ~13 years.

  Dataset EGAD00001007683

• Fecal 16S HV sequencing data

  Fecal 16S-V4 rRNA gene sequence data from NCT02749630 healthy volunteers. Stool samples were collected at screening as well as on days 29, 43, 64, 85, and 134 processed for 16SV4 rRNA gene sequencing

  Dataset EGAD00001008840

• RNA-Seq data for manuscript titled: A sporadic Alzheimers blood-brain barrier model for developing ultrasound-mediated delivery of Aducanumab and anti-Tau antibodies

  RNA-Seq data for manuscript titled: A sporadic Alzheimers blood-brain barrier model for developing ultrasound-mediated delivery of Aducanumab and anti-Tau antibodies

  Dataset EGAD00001008670

• Single Cell Genome Sequence for DLP+ library A96142B

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient SA1162SA on DLP+ library A96142B

  Dataset EGAD00001009455

• Dataset for Ewing_sarcoma_PNET-WHOLE_GENOME

  Rare cancer sequencing data of 18 runs in tumor/control pairs, which were uploaded to umbrella studies. The sequencing was always paired

  Dataset EGAD00001008874

• Single Cell Genome Sequence for DLP+ library A95621A

  Single Cell Genome Sequence for Immortalized breast epithelium - BRCA2-/-; Tp53-/- cell line 184-hTERT-22 L9 112.109 cell line SA1055 on DLP+ library A95621A

  Dataset EGAD00001009488

• Ewings sarcoma sequencing data

  This dataset contains samples from 5 patients with ewings sarcoma. 5 samples have whole exome tumor data. 1 sample has tumor RNAseq data. 4 samples have matched normal dna sequence data

  Dataset EGAD00001008282

• Gene expression in LPS-stimulated human monocyte-derived macrophages

  This dataset consists of RNA-seq data from human monocyte-derived macrophages that were subjected to siRNA treatment targeting RAD21 and either left untreated, or stimulated with LPS. In total, it includes 24 samples.

  Dataset EGAD00001007952

• A96149A

  Whole genome sequencing for single cells for library A96149A 751 samples; filetype=bam

  Dataset EGAD00001008234

• A108842A

  Whole genome sequencing for single cells for library A108842A 1477 cells; filetype=bam

  Dataset EGAD00001007595

• Dataset for LCPlus_WES

  WES/WGS sequencing data of 86 chromothriptic tumor and control runs, which were uploaded to umbrella studies. The sequencing was always paired

  Dataset EGAD00001009273

• Single Cell Genome Sequence for DLP+ library A95668A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient SA1162SA on DLP+ library A95668A

  Dataset EGAD00001009447

• Single Cell Genome Sequence for DLP+ library A95717A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1096A passage 1 on DLP+ library A95717A

  Dataset EGAD00001009450

• Single Cell Genome Sequence for DLP+ library A96174A

  Single Cell Genome Sequence for triple negative breast cancer patient-derived xenograft SA501 passage 11 on DLP+ library A96174A

  Dataset EGAD00001009460

• Single Cell Genome Sequence for DLP+ library A96189A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1049C passage 1 on DLP+ library A96189A

  Dataset EGAD00001009465

• Single Cell Genome Sequence for DLP+ library A96213A

  Single Cell Genome Sequence for triple negative breast cancer patient-derived xenograft SA501 passage 6, cell line SA1090 on DLP+ library A96213A

  Dataset EGAD00001009477

• sc-RNA and sc-BCR sequencing of multiple myeloma and precursors

  bam files of sc-RNA and sc-BCR sequencing of multiple myeloma and precursors from 65 samples

  Dataset EGAD00001009648

• Variants from germline WES data of pediatric cancer patients

  This dataset contains germline variants (in .vcf format) from six pediatric cancer patients (sample IDs D1 - D6). WES data of the children and their parents was mapped to hg38. A consensus of four variant callers was used to obtain germline variants of the children.

  Dataset EGAD00001009678

• Atypical teratoid/rhabdoid tumoroids reveal subgroup-specific drug vulnerabilities - RNA-Seq

  We demonstrate that ATRT tumoroids retain subgroup-specific epigenetic and gene expression profiles

  Dataset EGAD00001009794

• CLL2 dataset used in FLTseq paper

  This dataset contains CLL2 data used in FLTseq paper. The dataset contains the data of CITEseq, FLTseq, RaCHseq, Exonseq and bulk RNAseq.

  Dataset EGAD00001008114

• Clinical data

  Clinical data from GO30140 group A and group F and IMBrave150 biomarker populations including gender, confirmed RECIST response by independent review forum (IRF), overall survival (OS), progression survival by IRF, treatment group and treatment

  Dataset EGAD00001008130

• PELICAN45 RNAseq Dataset

  RNAseq in cryostat-microdissected metastatic and primary prostate cancer tissues and matched noncancerous tissues from the same study subjects.

  Dataset EGAD00001009997

• Neuroblastoma deep-sequencing dataset part2

  Dataset including paired tumor-normal whole-genome deep-sequenced samples from 18 neuroblastoma patients (part 2 of a total of 36 patients).

  Dataset EGAD00001010063

• In Utero MPN Twin WGS Data

  The dataset contains sequencing data generated for the publication 'In utero origin of myelofibrosis presenting in adult monozygotic twins after a prolonged disease latency.

  Dataset EGAD00001008319

• 17 scRNAseq samples

  17 samples were processed for single cell RNA sequencing (SORT-seq)

  Dataset EGAD00001007523

• scRNA-seq dataset for AD and Pso patients

  This dataset contains scRNA-seq fastq files to the paper entitled "Single-cell profiles reveal distinctive immune response in atopic dermatitis in contrast to psoriasis". The details of experiment setup was described in the paper.

  Dataset EGAD00001010106

• SPECTA Lung - RP1335 14MG cram files

  SPECTA Lung - RP1335 14MG cram files

  Dataset EGAD00001007527

• A108851B

  Whole genome sequencing for single cells for library A108851B 1681 cells; filetype=bam

  Dataset EGAD00001007596

• Transcriptome Analysis of CLL patient samples

  This dataset includes Illumina RNA Sequencing Data for 59 chronic lymphocytic leukemia patient samples. 57 samples are single end, 2 samples are paired end sequencing.

  Dataset EGAD00001008320

• WGS data subfolder for normal tissue from multifocal ileal NETs study

  This dataset includes linked-read whole-genome sequencing data from the normal ileal of the patient. The normal sample was sequenced using the 10x Genomics linked-read whole-genome sequencing (WGS) approach.

  Dataset EGAD00001008491

• cell-free methylated DNA immunoprecipitation and high-throughput sequencing data for samples from liver transplant recpients with graft pathologies

  Bam and indexed bam files after removal of duplicates and trimming of the unique molecular identifiers. Sequencing was performed on NovaSeq 6000 platform.

  Dataset EGAD00001010305

• RNASeq read files of glioblastoma PDX samples

  This dataset contains 46 fastq files of paired-end RNA sequencing of an Illumina®️ TrueSeq stranded mRNA library of 23 glioblasoma PDX samples.

  Dataset EGAD00001010196

• Non-small cell lung cancer targeted sequencing

  Targeted sequencing of non-small cell lung cancer samples. BAM files of paired end reads aligned to hg19 using BWA MEM v0.7.1573. This targeted panel covers 370 genes of clinical relevance in non-small cell lung cancer.

  Dataset EGAD00001007918

• Dataset for NSCLC-EXON

  Rare cancer sequencing data of 42 runs in tumor/control pairs, which were uploaded to umbrella studies. The sequencing was always paired

  Dataset EGAD00001008892

• Long-read sequencing for cell-free DNA analysis (human)

  31 pregnant women at different trimesters, 6 hepatitis B carriers, and 8 patients with hepatocellular carcinoma

  Dataset EGAD00001008980

• CITE-Seq (Cellular Indexing of Transcriptomes and Epitopes by Sequencing) of CLL_24

  To explore intratumor-heterogeneity of CLL_24 using single-cell multi-omics approach, we generated single-cell CITE-seq data for CLL_24, coupling scRNA-seq and protein surface marker measurements with oligo-tagged antibodies.

  Dataset EGAD00001009174

• Single Cell Genome Sequence for DLP+ library A95652A

  Single Cell Genome Sequence for immortalized breast epithelium BRCA2+/- Tp53-/- cell line 184-hTert L9 116.66 on DLP+ library A95652A

  Dataset EGAD00001009326

• A96228B

  Whole genome sequencing for single cells for library A96228B 1125 samples; filetype=bam

  Dataset EGAD00001008218

• A96157C

  Whole genome sequencing for single cells for library A96157C 938 samples; filetype=bam

  Dataset EGAD00001008237

• scATAC-seq of first and second trimester human gonads - HUGODECA dataset

  Comprehensive map of first- and second-trimester gonadal development in humans using a combination of single-cell and spatial transcriptomics, chromatin accessibility assays, and imaging. ArrayExpress Accession: E-MTAB-10570

  Dataset EGAD00001009387

• Gene expression profile of mesothelial cells from peritoneal adhesion biopsies

  RNA-sequencing analysis was carried out on mesothelial cells isolated from peritoneal adhesion biopsies and compared to control human peritoneal mesothelial cells to identify a mesothelial-to-mesenchymal transition (MMT)-related gene signature in patients.

  Dataset EGAD00001008324

• Whole exome sequencing of 12 NSCLC samples from 4 patients at MDACC

  Multi-region WES from 4 NSCLC patients, totaling 12 tumor samples and 4 matched control samples. The files were submitted as bam files.

  Dataset EGAD00001008382

• Single Cell Genome Sequence for DLP+ library A98279A

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1050A passage 1, patient SA1234 on DLP+ library A98279A

  Dataset EGAD00001009486

• Dataset HCV positive lymphoma whole exome sequencing

  This dataset contains 68 BAM files from matched normal-tumor pairs of HCV positive lymphoma analyzed by exome sequencing on Ilumina platform.

  Dataset EGAD00001009786

• RNA-seq of BCR-ABL1 lymphoblastic leukemia

  This dataset is derived from whole-transcriptome sequencing (RNA-seq) of RNA from 57 BCR-ABL1 lymphoblastic leukemias (53 diagnostic, 4 relapse).

  Dataset EGAD00001010307

• Exploration of neuroblastoma xenograft models for tumor extracellular RNA profiling in murine blood plasma

  Total RNA sequencing (SMARTer Stranded Total RNA-Seq Kit v2) data of extracellular RNA (exRNA) from liquid biopsies of neuroblastoma xenograft models.

  Dataset EGAD00001010905

• Bone marrow single cell genomics from blood cancer samples

  Four different types of transcriptomic single-cell sequencing of blood from childhood B acute lymphoblastic leukemia.

  Dataset EGAD00001011055

• Bulk RNA from sorted CD8+ T cells after 48h co-culture with human Mito-DsRed MSCs.

  For human samples, total cellular RNA was isolated from post-sorted Mito+ and Mito CD8+ cells using the RNeasy Mini Kit (Qiagen). Stranded RNA libraries were created using SMARTSeq Stranded.

  Dataset EGAD00001011082

• multi-region sequencing of tumor samples from PDAC patients

  This study includes 542 of multi-region sampled whole exome sequencing data from 83 pancreatic cancer patients in 6 individual experiments : Kras wildtype, local recurrence, treatment-naive (MetomeV2), radiotherapy plus chemotherapy (Radome), chemotherapy-only group (Treatome) and Proj_B-100-478.

  Dataset EGAD00001011109

• Whole exome sequencing (WES) of 95 previously untreated AML samples

  MNC were isolated from bone of 95 AML patients at initial diagnosis via Ficoll gradient. WES has been performed on all 95 samples. Paired exome sequencing was done on a NovaSeq 6000 sequencer with Twist human core exome plus kit.

  Dataset EGAD00001011125

• Xenograft cfDNA dataset

  The dataset contains 16 xenograft plasma cfDNA samples from mice grafted with a human colorectal cell line. Shallow WGS was performed on an Illumina Novaseq S4 PE150bp. Samples are provided as raw reads without any prior processing.

  Dataset EGAD00001011128

• Dataset for EGAS00001007937

  WGS, RNAseq, Methylation, variant calling analysis for a Novel paediatric case of a spinal high-grade astrocytoma with piloid features in a patient with Noonan Syndrome

  Dataset EGAD00001015412

• RNA-seq data of patients with glioblastoma IDH-wt (CNS WHO grade 4) with matched primary and relapse samples.

  Between January 1st, 2016, and December 31th, 2021, patients with glioblastoma IDH-wt (CNS WHO grade 4) were included. RNA-seq was performed in a subset of patients.

  Dataset EGAD00001015683

• Gut microbiome of BA patients and normal controls

  Metagenomic sequencing data of human gut microbiome

  Dataset EGAD00001007735

• Whole genome sequencing

  Whole-genome sequencing data

  Dataset EGAD00001008954

• Single Cell Genome Sequence for DLP+ library A95629B

  Single Cell Genome Sequence for high grade serous ovarian carcinoma patient-derived xenograft SA1051D passage 1 on DLP+ library A95629B

  Dataset EGAD00001009320

• Dataset for RNA and Exome sequencing of Glioblastoma samples

  This dataset contains RNA Seq, 10x scRNA Seq and Exome sequencing of glioblastoma samples. Sequencing was performed on a Illumina NovaSeq 6000 and Illumina HiSeq 4000. The sequencing was always paired.

  Dataset EGAD00001012235

• Hyperpolarized carbon-13 MRI for very early response assessment of neoadjuvant chemotherapy in breast cancer patients

  Transcriptomic data for five patients with breast cancer undergoing neoadjuvant chemotherapy and hyperpolarised 13C-MRI for early response assessment

  Dataset EGAD00001008141

• Short- and long-read WGS of eHHV-6B-positive Japanese subjects

  Short-read WGS datasets of 15 eHHV-6B-positive Japanese subjects (Illumina WGS) and long-read WGS datasets of 3 eHHV-6B-positive Japanese subjects with SLE (PacBio 30x HiFi long-read sequencing).

  Dataset EGAD00001015393

• TCRab sequencing of T-LGLL patients

  TCRab sequencing was performed on viably frozen cells from 11 T-LGLL samples from 9 T-LGLL patients and 6 age-matched healthy samples. The raw data is available as fastq files.

  Dataset EGAD00001008691

• Sequencing data for oesophageal / related samples - Kazachenka et al (RNA)

  Data supporting: "The transcriptional landscape of endogenous retroelements delineates esophageal adenocarcinoma subtypes" RNAseq for 279 samples

  Dataset EGAD00001011076

• DNA WGS Short Read Sequence (Illumina NovaSeq) for manuscript titled: "Performance of Somatic Structural Variant Calling in Lung Cancer using Oxford Nanopore Sequencing Technology"

  DNA WGS Short Read Sequence (Illumina NovaSeq) for manuscript titled: "Performance of Somatic Structural Variant Calling in Lung Cancer using Oxford Nanopore Sequencing Technology"

  Dataset EGAD00001015399

• Balanced Brain Tumour Whole Genome Sequencing

  We propose to definitively characterise the somatic genetics of a number of pediatric malignant tumours including ependymoma, high grade glioma and central nervous system primitive neurectodermal tumours through generation of comprehensive catalogues of somatic mutations by high coverage genome sequencing.

  Dataset EGAD00001000369

• Breast cancer sequential sampling study

  This study aims to whole genome sequence DNA derived from breast cancer patients who received neo-adjuvany chemotherapy. All patients had multiple biopsies performed before chemotherapy. Patients who had residual disease after the course of treatment underwent a further biopsy. We aim to characterise the mutations involved.

  Dataset EGAD00001000387

• PMBCL sequencing - bam analysis

  Files associated with the dataset: HS1626.bam, HS1484.bam, HS1483.bam, HS1482.bam, HS1481.bam, HS1480.bam, HS1479.bam, HS1478.bam, A13805.bam, A13800.bam, A13799.bam, A05253.bam, A05252.bam, A13806.bam

  Dataset EGAD00001000692

• dataset for esophageal cancer, 17 pairs for whole-genome sequencing and 71 pairs for whole-exome sequencing

  dataset for esophageal cancer, 17 pairs for whole-genome sequencing and 71 pairs for whole-exome sequencing

  Dataset EGAD00001000760

• WGBS data for ependymomas and normal controls (fetal and adult)

  Whole genome bisulfite sequencing data for 6 ependymomas plus 3 fetal controls (f1, f2, f4) and 3 adult controls (a2, a3, a4). See Mack, Witt et al. Nature 506(7489):445-50, 2014 (PMID: 24553142).

  Dataset EGAD00001000966

• Cancer-Normal chronic myeloid leukaemia sequencing data for "A comparative analysis of algorithms for somatic SNV detection in cancer", Bioinformatics 29 (2013) 2223

  This dataset contains the fastq sequencing data collected from bone marrow DNA of a chronic myeloid leukaemia patient at time of diagnosis.

  Dataset EGAD00001000967

• Whole Genome Sequencing of 18 sequential samples from 3 CLL patients

  Whole Genome Sequencing to track subclonal heterogeneity in 18 samples from 3 Chronic Lymphocytic Leukemia patients subjected to repeated cycles of therapy. NOTE: There are only 12 BAM files available to download. The other 6 files are missing.

  Dataset EGAD00001000972

• Transposome Bisulfite Sequencing

  DNA belonging to 16 tumour/normal samples were treated with bisulfite, then up to 5 different bisulfite PCRs were performed in each one of the samples. Amplicons form the same sample were pooled and submitted to sequencing on a MiSeq platform.

  Dataset EGAD00001001028

• APCDR Uganda GWAS - UG2G dataset: Whole genome low depth sequence data for 2000 Ugandans (BAMs).

  Low depth (4x) Illumina HiSeq raw sequence data for 2000 Ugandans from various ethno-linguistic group from rural South-West Uganda (related individuals included).

  Dataset EGAD00001001639

• Genomic alteration in Korean Young Age Diffuse Gastric Cancers

  To identify recurrent somatic alterations in this unique subset of gastric cancers, whole exome and SNP6 analyses were performed using frozen cancer tissue. The somatic mutation analyses were also performed using blood of the same patients.

  Dataset EGAD00001001984

• Data files for PCGP SJACT RNASEQ

  This dataset contains RNA-Seq files for the SJACT cohort associated with the paper "Genetic landscape of pediatric Adrenocortical Tumor". In this paper, we analyse 37 adrenocortical tumours (ACTs) by whole-genome, whole-exome and/or transcriptome sequencing.

  Dataset EGAD00001002680

• BLUEPRINT DNA methylation profiles of human hematopoietic progenitors

  DNA methylation was analyzed for stem/progenitor cell types and terminally differentiated cell types of the human blood lineage (HSC, MPP, CMP, MEP, GMP, CLP, MLP0, MLP1, MLP2, MLP3, MK, CD4+ Tcell, CD8+ Tcell, Bcell, NK, Neut, Mono).

  Dataset EGAD00001002732

• Exome sequencing of 7-member healthy family (father, mother, their three biological daughters and monozygotic twin sons)

  The dataset contains exome sequencing data of seven healthy family members, all in FASTQ format. The samples were taken from peripheral blood mononuclear cells. Furthermore, corresponding proteomics data are available as well.

  Dataset EGAD00001004949

• Highly recurrent U1 snRNA mutations drive alternative splicing in SHH medulloblastoma

  Highly recurrent U1 snRNA mutations drive alternative splicing in HH medulloblastoma

  Dataset EGAD00001004958

• Skin Fibroblast Transcriptome of Type 2 Diabetic Patients

  Comparative analysis of transcriptomes of skin fibroblasts in 17 Type 2 Diabetic individuals by RNA sequencing.

  Dataset EGAD00001004980

• Expression data

  This dataset contains the RPKM and raw read counts of expression for all the individuals. This dataset was generated as part of the following study: Panousis et al (2019). Combined genetic and transcriptome analysis of patients with SLE: Distinct, targetable signatures for susceptibility and severity.

  Dataset EGAD00001005039

• Clinical phenotypes/covariates

  This dataset contains the clinical phenotypes/covariates information for all the individuals. This dataset was generated as part of the following study: Panousis et al (2019). Combined genetic and transcriptome analysis of patients with SLE: Distinct, targetable signatures for susceptibility and severity.

  Dataset EGAD00001005040

• Cancer and germline exomes, and cancer RNA-seq consisiting of FASTQ paired-end reads from melanoma and lung cancer samples

  Cancer and germline exomes, and cancer RNA-seq consisiting of FASTQ paired-end reads from melanoma and lung cancer samples

  Dataset EGAD00001005097

• EGAS00001003405 combined RNA, WES, WGS data of 16 gastrointestinal tumor patients

  50 samples of 16 individuals with Gastrointestinal Tumor. Patients were sequenced in various combinations of WGS, Exome and RNA sequencing.

  Dataset EGAD00001005113

• Targeted deep sequencing

  T200 caner panel sequencing on primary and metastatic sites from highly clinically annotated HGSC samples. Samples were obtained pre-treatment based on a laparoscopic triage algorithm from patients who underwent R0 tumor debulking, or received neoadjuvant chemotherapy (NACT) with excellent (ER) or poor response (PR).

  Dataset EGAD00001005239

• Benchmarking CRISPR Whole-genome Drop-out Screen - B&S (2019-08-07)

  This study is a benchmarking exercise to explore potential source of variation between different CRISPR drop out libraries. . This dataset contains all the data available for this study on 2019-08-07.

  Dataset EGAD00001005233