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• Enhanced Detection of Landmark Minimal Residual Disease in Lung Cancer using Cell-Free DNA Fragmentomics

  The circulating tumor DNA (ctDNA) mutation-based approach shows limited performance in minimal residual disease (MRD) detection, especially for landmark MRD detection at an early-stage cancer after surgery. Here, A total of 87 NSCLC patients, who received curative surgical resections (23 patients relapsed during follow-up), enrolled in this study. A total of 163 plasma samples, collected at 7 days and 6 months postsurgical, were used for high-throughput sequencing.

  Dataset EGAD00001010300

• Processed bam files for the whole exome sequencing of primary lung adenocarcinoma samples

  We performed single cell RNA sequencing (scRNA-seq) for 208,506 cells derived from 58 lung adenocarcinomas from 44 patients, which covers primary tumour, lymph node and brain metastases, and pleural effusion in addition to normal lung tissues and lymph nodes. The extensive single cell profiles depicted a complex cellular atlas and dynamics during lung adenocarcinoma progression which includes cancer, stromal, and immune cells in the surrounding tumor microenvironments.

  Dataset EGAD00001010320

• Mtb infected and uninfected neutrophils after 1 and 6 hrs

  Fastq.gz files for mRNA sequenced from Mtb infected and uninfected neutrophils after 1 and 6 hrs. Samples were sequenced in 2 batched as indicated per experiment. Batch 1 was SE unstranded, 100bp on an Illumina HiSeq4000 sequencer and batch 2 unstranded, 150bp paired-end on an Illumina NovaSeq6000 sequencer. Phenotypic data for the samples is also included.

  Dataset EGAD00001010893

• WGS patient 130

  Whole genome sequencing on DNA from snap frozen tumour sample and matched whole blood of patient #130. Analysis used the QIAamp DNA Mini Kit. Libraries were prepared using the Illumina TruSeq Nano library method using 200ng of DNA. Extracted DNA was sheared using the Covaris M220 Focused-ultrasonicator with a target fragment length of 550bp through bead size selection. The libraries were sequenced at depth of 40x for germline DNA and 80-100x for tumour DNA using paired 150bp reads.

  Dataset EGAD00001011271

• DAC for Whole Genome Sequencing Expands Diagnostic Utility and Improves Clinical Management in Pediatric Medicine

  Dac EGAC00001000419

• The data access committee for High Grade Serous Ovarian Carcinomas Originate in the Fallopian Tube

  Dac EGAC00001000755

• Data Access Committee for the UCSF Chordoid Glioma of the Third Ventricle Genome Project Dataset

  Dac EGAC00001000776

• Data access committee handling data access requests for biomarker data from the clinical trial IMmotion150.

  Dac EGAC00001000946

• The data access committee for genome-wide cell-free DNA fragmentation in patients with cancer

  Dac EGAC00001001180

• Data access policy for PDTX Breast Cancer RNA-seq data from Ros et al (2020)

  Dac EGAC00001001620