5728 results for "canc*"

in 52.63 milliseconds.

• Illumina TSO500 DNA Dataset for Manuscript titled: Evaluation of Endobronchial Ultrasound-Guided Transbronchial Needle Aspiration (EBUS-TBNA) Samples from Advanced Non-Small Cell Lung Cancer for Whole Genome, Whole Exome and Comprehensive Panel Sequencing

  Illumina TSO500 DNA Dataset for Manuscript titled: Evaluation of Endobronchial Ultrasound-Guided Transbronchial Needle Aspiration (EBUS-TBNA) Samples from Advanced Non-Small Cell Lung Cancer for Whole Genome, Whole Exome and Comprehensive Panel Sequencing

  Dataset EGAD00001015396

• Cancer-independent, second somatic NF1 mutation of normal tissues in neurofibromatosis type 1

  Cancer predisposition syndromes mediated by recessive cancer genes generate tumours via somatic variants (second hits) in the unaffected allele. Second hits may or may not be sufficient for neoplastic transformation. Here, we performed whole genome and exome sequencing on 479 tissue biopsies from a child with neurofibromatosis type 1, a multi-system cancer-predisposing syndrome mediated by constitutive monoallelic NF1 inactivation. We identified multiple independent NF1 driver variants in histologically normal tissues, but not in 610 biopsies from two non-predisposed children. We corroborated this finding using targeted duplex sequencing, including a further nine adults with the same syndrome. Overall, truncating NF1 mutations were under positive selection in normal tissues from individuals with neurofibromatosis type 1. We demonstrate that normal tissues in neurofibromatosis type 1 commonly harbour second hits in NF1, the extent and pattern of which may underpin the syndrome's cancer phenotype.

  Dataset EGAD00001015398

• Triple negative breast cancer matched patient and pdx dataset

  PDX aCGH (txt), WES (fastq) and RNASeq (fastq) samples from mice treated with cisplatin. Primary samples and matched pdx samples from multiple passages. Models from the Marie Curie Instute (HBCx1, HBCx4B, HBCx8, HBCx10, HBCx12B, HBCx14, HBCx15, HBCx16, HBCx17, HBCx23, HBCx24, HBCx27, HBCx28, HBCx30, HBCx31, HBCx33, HBCx39, HBCx40, HBCx43, HBCx51, HBCx63, HBCx66, HBCx92, HBCx106) and the NKI (T127, T162, T241, T250, T283, T302, T336).

  Dataset EGAD00001009046

• WGS of high grade serous ovarian tumours and matched blood normals

  FASTQ reads for 81 matched tumour-normal WGS pairs for high grade serous ovarian cancer patients. Scottish HGSOC samples were collected via local Bioresource facilities at Edinburgh, Glasgow, Dundee and Aberdeen and stored in liquid Nitrogen until required. HGSOC patients were determined from pathology records and were included in the study where there was matched tumour and whole blood samples. Tumour samples were divided into two for DNA and RNA extraction and slivers of tissue were taken, fixed in formalin and embedded in paraffin wax (FFPE). Samples were only included if they were confirmed as HGSOC and there was greater than 40% tumour cellularity throughout the tumour, determined using H&E staining of the FFPE sections and pathology review. Somatic DNA was extracted from the tumour and germline DNA was extracted from whole blood. Somatic DNA was extracted using the Qiagen DNeasy Blood and tissue kit (cat no 69504). The tissue was initially homogenised using a Qiagen Bioruptor, followed by the manufacturers recommended protocol (including RNase digestion step). Germline DNA was extracted from 1-3ml whole blood using the Qiagen FlexiGene kit (cat no 51206) following the manufacturers recommended protocol. The resulting DNA underwent quality control as follows: firstly, A260 and A280nm were measured on a Denovix DS-11 Fx to qualitatively illustrate A260/280nm and A260/230nm ratios as surrogate measures of DNA purity. A260/280 had to be 1.8 or greater and A260/230 had to be 2.0 or greater. Then, DNA was quantified using LifeTechnologies Qubit dsDNA BR kit (cat no Q32850) and we required a minimum of 50ul at 25ng/ul for WGS. Thirdly, DNA was diluted to 25ng/ul and a representative sample was loaded onto a 0.8% TAE gel, ran at 100v for 60mins and then imaged using a BioRad ChemiDoc imaging system to visualise the DNA quality.

  Dataset EGAD00001009049

• Total RNA sequencing data from the Triple Negative Trial (TNT)

  BAM files from total RNA sequencing of samples from breast cancer patients in the TNT trial. Data includes 186 primary tumour samples and 13 matched recurrence samples.

  Dataset EGAD00001011141

• 10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0163_001

  10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0163_001 for Triple negative breast cancer patient-derived xenograft SA609X7XB03505

  Dataset EGAD00001011219

• 10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0172_002

  10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0172_002 for Triple negative breast cancer sample SA609X7XB03554

  Dataset EGAD00001011220

• 10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0148_001

  10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0148_001 for Triple negative breast cancer patient-derived xenograft SA535X4XB02498

  Dataset EGAD00001011221

• Sequence of breast cancer bone metastases PDX before and after palbociclib treatment resistance

  RNAseq sequencing of 10 breast cancer bone metastasis PDX. Samples were obtained from 5 PDX that acquired palbociclib resistance (palboR) and 5 from the parentale PDX (palboS).

  Dataset EGAD00001009068

• RNA-seq data from 164 advanced prostate tumors generated by the West Coast Dream Team including 42 paired samles

  164 pairs of FASTQ files from metastatic Castration-Resistant Prostate Cancer (mCRPC) sequenced on HiSeq 4000 instruments. Patients were enrolled in the West Coast Dream Team study. Biopsies include various tissue sites including bone, soft tissue, and lymph node. 42 pairs prior to enzalutamide treatment and at progression from 21 patients are included.

  Dataset EGAD00001009065

• Garvan/St Vincent’s Prostate Cancer Tissue and Data

  The cohort (n=53) consists of prostate cancer patients from Australia. For each patient, a pair of blood and tumour samples were collected. The sequencing data was mapped to hg38 reference. Blood BAMs are named with “-B” as suffix and tumour BAMs are named with “-T” as suffix.

  Dataset EGAD00001009066

• Southern African Prostate Cancer Study (SAPCS) Ethnic Disparity

  The cohort (n=130) consists of prostate cancer patients from South Africa (n=123) and Brazil (n=7). For each patient, a pair of blood and tumour samples were collected. The sequencing data was mapped to hg38 reference. Blood BAMs are named with “-B” as suffix and tumour BAMs are named with “-T” as suffix.

  Dataset EGAD00001009067

• RNAseq of breast cancer bone metastases PDX resistant of responder to IACS-010759 treatment

  Fastq files from RNAseq of breast cancer bone metastases PDX after treatment with IACS-010759. Five PDX are resistants to treatment and 6 are responders.

  Dataset EGAD00001009072

• WES of breast and larynx cancer cases

  The dataset is based on 37 FFPE samples obtained from 12 patients diagnosed with breast or larynx cancer, For each patient 3 sample types were obtained P - primary tumor, L - malignant lymph node and C - benign lymph node (control). For patient G46 two malignant lymph nodes were used. DNA isolated from all samples was subject to exome selection using Agilent SureSelect Human All Exon V7. The obtained material was sequenced using NovaSeq 6000 platform with 2x150 reads. The sequencing was conducted by Novogene company.

  Dataset EGAD00001009081

• ESR1 mutations in tamoxifen-associated endometrial cancer versus spontaneous arisen endometrial tumors

  An increased incidence of endometrial cancer has been described for patients that have received tamoxifen to treat breast cancer. Using samples from endometrial tumors, isolated from surgivcal specimens of patients who previously received tamoxifen treatment for breast cancer, we aimed to identify whether there are specific somatic mutations enriched in this population, relative to endometrial tumors from the general population. For this, WES was performed on matched endometrial tumors and healthy tissue (n=21).

  Dataset EGAD00001009088

• 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

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

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

  Dataset EGAD00001015400

• 10x Genomics Single Cell Gene Expression for SA604X7XB02089

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA604 passage 7

  Dataset EGAD00001009119

• 10x Genomics Single Cell Gene Expression for SA609X6XB01899

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA609 passage 6

  Dataset EGAD00001009120

• 10x Genomics Single Cell Gene Expression for SA535X6XB03099

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 6

  Dataset EGAD00001009116

• 10x Genomics Single Cell Gene Expression for SA535X4XB05462

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 4

  Dataset EGAD00001009115

• 10x Genomics Single Cell Gene Expression for SA604X8XB02164

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA604 passage 8

  Dataset EGAD00001009118

• 10x Genomics Single Cell Gene Expression for SA604X6XB01979

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA604 passage 6

  Dataset EGAD00001009117

• 10x Genomics Single Cell Gene Expression for SA1035X4XB02879

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 4

  Dataset EGAD00001009147

• Tumour sample for patient SA423

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA423

  Dataset EGAD00001009355

• 10x Genomics Single Cell Gene Expression for SA605X3XB01966

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA605 passage 3

  Dataset EGAD00001009142

• Normal sample for patient SA287

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA287

  Dataset EGAD00001009228

• 10x Genomics Single Cell Gene Expression for SA1035X8XB03425

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 8

  Dataset EGAD00001009148

• 10x Genomics Single Cell Gene Expression for SA535X6XB03101

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 6

  Dataset EGAD00001009149

• 10x Genomics Single Cell Gene Expression for SA1035X6XB03211

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 6

  Dataset EGAD00001009150

• 10x Genomics Single Cell Gene Expression for SA1035X7XB03502

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 7

  Dataset EGAD00001009151

• 10x Genomics Single Cell Gene Expression for SA535X4XB02498

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 4

  Dataset EGAD00001009152

• 10x Genomics Single Cell Gene Expression for SA1035X5XB03021

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 5

  Dataset EGAD00001009153

• 10x Genomics Single Cell Gene Expression for SA1035X6XB03216

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA1035 passage 6

  Dataset EGAD00001009154

• 10x Genomics Single Cell Gene Expression for SA535X5XB02891

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 5

  Dataset EGAD00001009155

• 10x Genomics Single Cell Gene Expression for SA535X5XB02895

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 5

  Dataset EGAD00001009156

• 10x Genomics Single Cell Gene Expression for SA535X9XB03617

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA535 passage 9

  Dataset EGAD00001009157

• 10x Genomics Single Cell Gene Expression for SA604X9XB02425

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA604 passage 9

  Dataset EGAD00001009159

• 10x Genomics Single Cell Gene Expression for SA610X3XB03802

  10x Genomics Single Cell Gene Expression for Triple negative breast cancer patient-derived xenograft SA610 passage 3

  Dataset EGAD00001009160

• Colorectal cancer samples WES

  The whole exome was sequenced in two cancer-affected members (II:1 and III:1) of the family. The family subject of this study showed an autosomal dominant mode of CRC inheritance, fulfilling the Amsterdam I clinical criteria with three CRCs in two consecutive generations. The exome capture was performed using SureSelectXT Human All Exon V3 (51Mb, Agilent Technologies), and the library was sequenced on an Illumina HiSeq 2000 platform with paired-end reads of 101bp and a 50x average coverage depth.

  Dataset EGAD00001009170

• RNAseq analysis on metastatic Colorectal Cancer xenografts samples

  Bank of metastatic colorectal cancer (mCRC) of Patient Derived Xenografts (PDXs)

  Dataset EGAD00001009171

• Bulk RNA-seq of stromal cells from multiple cancer types

  We sorted CD45-CD44+CD90+ stromal cells from multiple tumor types and performed bulk RNA-sequencing.

  Dataset EGAD00001009176

• Tumour sample for patient SA667

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA667

  Dataset EGAD00001009210

• Tumour sample for patient SA668

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA668

  Dataset EGAD00001009211

• Tumour sample for patient SA669

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA669

  Dataset EGAD00001009212

• Tumour sample for patient SA671

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA671

  Dataset EGAD00001009213

• Tumour sample for patient SA672

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA672

  Dataset EGAD00001009214

• Tumour sample for patient SA535

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA535

  Dataset EGAD00001009215

• Normal sample for patient SA1035

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA1035

  Dataset EGAD00001009216

• Normal sample for patient SA604

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA604

  Dataset EGAD00001009217

• Normal sample for patient SA605

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA605

  Dataset EGAD00001009218

• Normal sample for patient SA609

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA609

  Dataset EGAD00001009219

• Normal sample for patient SA218

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA218

  Dataset EGAD00001009220

• Normal sample for patient SA219

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA219

  Dataset EGAD00001009221

• Normal sample for patient SA272

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA272

  Dataset EGAD00001009222

• Normal sample for patient SA274

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA274

  Dataset EGAD00001009223

• Normal sample for patient SA275

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA275

  Dataset EGAD00001009224

• Normal sample for patient SA276

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA276

  Dataset EGAD00001009225

• Normal sample for patient SA279

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA279

  Dataset EGAD00001009226

• Normal sample for patient SA283

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA283

  Dataset EGAD00001009227

• Normal sample for patient SA394

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA394

  Dataset EGAD00001009229

• Normal sample for patient SA395

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA395

  Dataset EGAD00001009230

• Normal sample for patient SA398

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA398

  Dataset EGAD00001009231

• Normal sample for patient SA402

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA402

  Dataset EGAD00001009232

• Normal sample for patient SA404

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA404

  Dataset EGAD00001009233

• Normal sample for patient SA530

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA530

  Dataset EGAD00001009234

• Normal sample for patient SA535

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA535

  Dataset EGAD00001009235

• Normal sample for patient SA585

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA585

  Dataset EGAD00001009236

• Normal sample for patient SA586

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA586

  Dataset EGAD00001009237

• Normal sample for patient SA588

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA588

  Dataset EGAD00001009238

• Normal sample for patient SA589

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA589

  Dataset EGAD00001009239

• Normal sample for patient SA590

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA590

  Dataset EGAD00001009240

• Normal sample for patient SA591

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA591

  Dataset EGAD00001009241

• Normal sample for patient SA592

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA592

  Dataset EGAD00001009242

• Normal sample for patient SA593

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA593

  Dataset EGAD00001009243

• Normal sample for patient SA595

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA595

  Dataset EGAD00001009244

• Tumour sample for patient SA599

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA599

  Dataset EGAD00001009203

• Normal sample for patient SA598

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA598

  Dataset EGAD00001009246

• Normal sample for patient SA599

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA599

  Dataset EGAD00001009247

• Normal sample for patient SA600

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA600

  Dataset EGAD00001009248

• Normal sample for patient SA601

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA601

  Dataset EGAD00001009249

• Normal sample for patient SA654

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA654

  Dataset EGAD00001009250

• Normal sample for patient SA655

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA655

  Dataset EGAD00001009251

• Normal sample for patient SA665

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA665

  Dataset EGAD00001009252

• Normal sample for patient SA667

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA667

  Dataset EGAD00001009253

• Normal sample for patient SA668

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA668

  Dataset EGAD00001009254

• Normal sample for patient SA669

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA669

  Dataset EGAD00001009255

• Normal sample for patient SA671

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA671

  Dataset EGAD00001009256

• Normal sample for patient SA672

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA672

  Dataset EGAD00001009257

• Tumour sample for patient SA1035

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA1035

  Dataset EGAD00001009258

• Tumour sample for patient SA994

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA994

  Dataset EGAD00001009259

• Tumour sample for patient SA604

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA604

  Dataset EGAD00001009260

• Tumour sample for patient SA605

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA605

  Dataset EGAD00001009261

• Tumour sample for patient SA609

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA609

  Dataset EGAD00001009262

• Normal sample for patient SA596

  Whole genome sequencing of normal sample for triple negative breast cancer patient SA596

  Dataset EGAD00001009245

• Tumour sample for patient SA600

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA600

  Dataset EGAD00001009204

• Tumour sample for patient SA601

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA601

  Dataset EGAD00001009205

• Tumour sample for patient SA654

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA654

  Dataset EGAD00001009206

• Tumour sample for patient SA655

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA655

  Dataset EGAD00001009207

• Tumour sample for patient SA665

  Whole genome sequencing of tumour sample for triple negative breast cancer patient SA665

  Dataset EGAD00001009208