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• 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

• fibroblast RNAseq from a GINS3 patient and two parents

  RNA-seq was performed from 3 separate GINS3 patient fibroblast cultures and 1 replicate of fibroblasts derived from each of the two parents. RNA-seq libraries were generated with NEBNext Ultra II Directional RNA library prep for Illumina with NEBNext Poly(A) mRNA Magnetic Isolation Module (New England Biolabs) and sequenced on Illumina NextSeq500 with paired-end 150 bp read length. SIRV Set 3 (Lexogen) spike-ins were added. Two fastq files are provided for each RNAseq sample.

  Dataset EGAD00001008571

• 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

• Neuroblastoma WGS samples used for analysis of telomeric sequences

  Paired-end WGS data of 10 neuroblastoma patient samples (5 obtained at diagnosis and 5 matched blood samples as controls) used for analysis of telomeric content and sequence composition. Mean coverage is 11-65x per sample. The remaining patient samples of the dataset can be found under accession numbers EGAS00001001308 and EGAS00001005424 and mappings of the patients IDs in the supplementary material of the publication.

  Dataset EGAD00001009289

• Tapestri snDNA-seq data along with matched bulk data for validation

  Files from Tapestri snDNA-seq of archival tissue samples from 16 pancreatic ductal adenocarcinoma (PDAC) patients. Matched bulk sequencing (whole-exome, whole-genome, MSK-IMPACT) data are attached for a subset of the patients.

  Dataset EGAD00001009735

• RNAseq of primary mesothelioma cell lines

  Mesothelioma is an aggressive cancer associated with previous exposure to asbestos and dismal prognosis. Since a pemetrexed/cisplatin combination was introduced for treatment of mesothelioma, no new first- or second-line therapies have been discovered. Thus, to better understand what drives mesothelioma carcinogenesis and to identify potential targets for therapy, in this project we aim at performing RNAseq analysis of a panel of mesothelioma cells lines.

  Dataset EGAD00001009642

• Single Cell Genome Sequence for DLP+ library A96228A

  Single Cell Genome Sequence for Immortalized lymphoblastoid cell line GM18507 cell line SA928,Triple negative breast cancer patient-derived xenograft SA609 passage 2 patient-derived xenograft SA609 passage 2 on DLP+ library A96228A

  Dataset EGAD00001009645

• Dynamics of sequence and structural cell-free DNA landscapes in small-cell lung cancer

  The dataset for the study “Dynamics of sequence and structural cell-free DNA landscapes in small-cell lung cancer” includes 171 bam files from targeted next-generation sequencing (TEC-Seq) from plasma cell-free DNA and matched white blood cell DNA from 33 individuals with small cell lung cancer, alongside 10 bam files from whole exome sequencing of tumor and matched normal DNA for 5 individuals with small cell lung cancer.

  Dataset EGAD00001009860