Search Results - EGA European Genome-Phenome Archive

Sequencing files for "The Evolutionary Origins of Recurrent Pancreatic Cancer."

Files from DNA sequencing from primary tumors and metastases from pancreatic cancer patients along with matched normal tissues. Sequencing files include those derived from whole exome sequencing as well as MSK-IMPACT sequencing.

Dataset EGAD00001005779

The identification of genetic vulnerabilities in head and neck cancers for the development of novel therapies (2020-01-15)

CRISPR/Cas9 lethality screens in a set of Asian head and neck cancer cell lines to identify novel targets. . This dataset contains all the data available for this study on 2020-01-15.

Dataset EGAD00001005784

Somatic mutation and clonal evolution in premalignant lung disease - WGS (2020-01-15)

Cancer is a genetic disease caused by an accumulations of mutations, however many of these mutations have been identified in pathologically normal tissue. We aim to use laser-capture microscopy (LCM) to sample individual clones from the lung tissue of individuals with a variety of lung diseases (COPD, UIP, IPF, Emphysema, pulmonary hypertension). This will allow us to identify whether cancer-associated mutations appear in this normal tissue, assess the mutational burden present, and identify the mutational processes causing these mutations. Smoking is a large risk factor for developing many of these lung diseases so we are particularly keen to determining whether there is evidence of a smoking signature in these patients. . This dataset contains all the data available for this study on 2020-01-15.

Dataset EGAD00001005786

Somatic mutation and clonal evolution normal breast tissue TGS (2020-01-15)

Cancer is a genetic disease caused by an accumulation of mutations, however many of these mutations have been identified in pathologically normal tissue. We aim to use laser-capture microscopy (LCM) to sample individual clones from breast tissue to identify whether cancer-associated mutations appear in this normal tissue, assess the mutational burden present, and identify the mutational processes causing these mutations. We will sample from a wide age range of individuals (<20 to >70 years old) to determine whether these processes differ in pre- and post-menopausal women. We will also be comparing the tissue from healthy individuals (samples from breast reduction surgery) to those at elevated risk of breast cancer (mastectomy from BRCA1/2 patients) and those who have breast cancer (adjacent normal, distal normal, and tumour tissue from mastectomy). This will allow us to determine how these processes are different between these groups of individuals, and gain insight into the earliest stages of tumour development. . This dataset contains all the data available for this study on 2020-01-15.

Dataset EGAD00001005787

MutWP1: CRUK Grand Challenge Mutographs of Cancer: pancreas_LCM (2020-01-15)

Samples prepared by LCM - 5 cases for pilot study. Bulk DNA not available. . This dataset contains all the data available for this study on 2020-01-15.

Dataset EGAD00001005789

Anaplastic Thyroid Cancer aligned whole exome sequence data

Whole exome sequence data in fastq format was aligned to the GRCH38 reference genome. Aligned sequence was preprocessed with GATK for Indel Realignment and Base Quality Score Recalibration. Duplicates were marked with Picard Mark Duplicates. Aligned sequence is in bam format. Details of the alignment can be found in he bam header. Tumour samples were classified as Anaplastic Thyroid, Poorly-differentiated or well-differentiated cancers.

Dataset EGAD00001005791

Multimodal Genomic Features Predict Outcome of Immune Checkpoint Blockade in Non-small Cell Lung Cancer

The dataset for Multimodal Genomic Features Predict Outcome of Immune Checkpoint Blockade in Non-small Cell Lung Cancer includes 106 bam files from whole exome next-generation sequencing on the Illumina HiSeq2500. The samples analyzed include matched tumor/normal samples from non-small cell lung cancer patients treated with immunotherapy.

Dataset EGAD00001005796

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Sequencing files for "The Evolutionary Origins of Recurrent Pancreatic Cancer."

The identification of genetic vulnerabilities in head and neck cancers for the development of novel therapies (2020-01-15)

Somatic mutation and clonal evolution in premalignant lung disease - WGS (2020-01-15)

Somatic mutation and clonal evolution normal breast tissue TGS (2020-01-15)

MutWP1: CRUK Grand Challenge Mutographs of Cancer: pancreas_LCM (2020-01-15)

Anaplastic Thyroid Cancer aligned whole exome sequence data

Multimodal Genomic Features Predict Outcome of Immune Checkpoint Blockade in Non-small Cell Lung Cancer

RNA-seq from PDAC samples

RNA-seq of SMARCA2/4 knock-down prostate cancer cell lines

Genome and transcriptome sequence data from a lung carcinoma patient

Genome and transcriptome sequence data from a pancreatic ductal adenocarcinoma patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a cervical adenocarcinoma patient

Genome and transcriptome sequence data from a sex-cord stromal tumor patient

Genome and transcriptome sequence data from a pancreatic adenocarcinoma patient

Genome and transcriptome sequence data from an endometrioid ovary carcinoma patient

Genome and transcriptome sequence data from a metastatic breast cancer patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a tongue squamous cell carcinoma (head and neck) patient

Genome and transcriptome sequence data from a neuroendocrine tumor (GIC) patient

Genome and transcriptome sequence data from a pancreatic cancer patient

Genome and transcriptome sequence data from a pancreatic cancer patient