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cfDNA sWGS BAM — Breast cancer stage II-III (HR+/HER2−)

Plasma cfDNA sWGS for breast cancer patients (HR+/HER2−, stage II–III), blood drawn pre-operatively (no neoadjuvant), Centre Léon Bérard/MyProbe (France). Libraries: DSP and/or SSP as recorded. Sequencing by IntegraGen (2022–2024); alignment to GRCh38 with BWA-MEM; BAMs sorted/indexed; primary mapped reads only (see analysis metadata for exact filters/MAPQ). Controlled access.

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User requesting access will be asked to justify how they fulfil the conditions. This dataset may further be used for research purposes only. Commercial use is not permitted.

We grant access to this dataset to make the results presented in the corresponding research paper verifiable and replicable ("Neutrophil extracellular traps have auto-catabolic activity and produce mononucleosome-associated circulating DNA" published in Genome Medicine). This dataset may further be used for research purposes only. Commercial use is not permitted. As part of your access to the dataset, you represent and warrant that you shall not attempt to: (i) identify, re-identify, or otherwise depseudonymize the data set; and (ii) you shall not further share, distribute, publish, or otherwise disseminate the data set without the author's prior written approval. When applying to download the data, you must provide the following: Your name Name and location of your university or research institute Your position (e.g. graduate student, research assistant, professor, etc...) Brief but specific description of the research project If you do not provide all of the required information, or if your proposed use is not specified, your request will be rejected.

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS50000001319 Whole Genome Sequencing

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Quality Report
Located in
EGAF50000451465 bai 2.0 MB
EGAF50000451467 bam 1.1 GB
EGAF50000451468 bai 2.1 MB
EGAF50000451469 bai 2.1 MB
EGAF50000451470 bam 920.1 MB
EGAF50000451471 bai 2.0 MB
EGAF50000451472 bam 935.9 MB
EGAF50000451473 bam 979.7 MB
EGAF50000451474 bai 1.9 MB
EGAF50000451475 bam 1.1 GB
EGAF50000451476 bai 2.0 MB
EGAF50000451477 bam 924.6 MB
EGAF50000451478 bai 2.0 MB
EGAF50000451479 bam 977.8 MB
EGAF50000451480 bai 2.1 MB
EGAF50000451481 bai 2.1 MB
EGAF50000451482 bam 949.7 MB
EGAF50000451483 bam 939.4 MB
EGAF50000451484 bai 2.1 MB
EGAF50000451485 bai 2.1 MB
EGAF50000451486 bam 857.6 MB
EGAF50000451487 bam 1.3 GB
EGAF50000451488 bai 2.0 MB
EGAF50000451489 bam 1.2 GB
EGAF50000451490 bai 2.0 MB
EGAF50000451491 bai 2.2 MB
EGAF50000451492 bam 1.2 GB
EGAF50000451493 bam 796.6 MB
EGAF50000451494 bai 1.9 MB
EGAF50000451495 bam 1.2 GB
EGAF50000451496 bai 2.0 MB
EGAF50000451497 bai 2.1 MB
EGAF50000451498 bam 946.6 MB
EGAF50000451499 bam 847.4 MB
EGAF50000451500 bai 2.1 MB
EGAF50000451501 bai 2.0 MB
EGAF50000451502 bam 1.3 GB
EGAF50000451503 bam 993.9 MB
EGAF50000451504 bai 2.1 MB
EGAF50000451505 bai 2.0 MB
EGAF50000451506 bam 935.4 MB
EGAF50000451507 bam 951.4 MB
EGAF50000451508 bai 2.1 MB
EGAF50000451509 bam 960.5 MB
EGAF50000451510 bai 2.0 MB
EGAF50000451511 bam 1.0 GB
EGAF50000451512 bai 2.0 MB
EGAF50000451513 bam 999.0 MB
EGAF50000451514 bai 2.0 MB
EGAF50000451515 bai 2.0 MB
EGAF50000451516 bam 1.1 GB
EGAF50000451517 bam 1.1 GB
EGAF50000451518 bai 2.1 MB
EGAF50000451519 bam 935.9 MB
EGAF50000451520 bai 2.1 MB
EGAF50000451521 bam 944.2 MB
EGAF50000451522 bai 2.0 MB
EGAF50000451523 bam 802.9 MB
EGAF50000451524 bai 2.2 MB
EGAF50000451525 bam 1.0 GB
EGAF50000451526 bai 2.4 MB
EGAF50000451527 bam 843.0 MB
EGAF50000451528 bai 2.1 MB
EGAF50000451529 bam 963.0 MB
EGAF50000451530 bai 2.0 MB
EGAF50000451531 bam 2.4 GB
EGAF50000451532 bai 2.0 MB
EGAF50000451533 bam 1.1 GB
EGAF50000451534 bai 2.1 MB
EGAF50000451535 bam 982.4 MB
EGAF50000451536 bai 2.1 MB
EGAF50000451537 bam 921.5 MB
EGAF50000451538 bai 2.0 MB
EGAF50000451539 bam 1.2 GB
EGAF50000451540 bai 2.0 MB
EGAF50000451541 bam 1.1 GB
EGAF50000451542 bai 2.1 MB
EGAF50000451543 bam 920.0 MB
EGAF50000451544 bai 2.0 MB
EGAF50000451545 bai 2.0 MB
EGAF50000451546 bam 941.0 MB
EGAF50000451547 bai 1.9 MB
EGAF50000451548 bam 995.0 MB
EGAF50000451549 bam 1.1 GB
EGAF50000451550 bai 2.0 MB
EGAF50000451551 bam 1.1 GB
EGAF50000451552 bai 2.0 MB
EGAF50000451553 bai 2.1 MB
EGAF50000451554 bam 873.9 MB
EGAF50000451555 bam 1.1 GB
EGAF50000451556 bai 2.2 MB
EGAF50000451557 bam 871.3 MB
EGAF50000451558 bai 2.0 MB
EGAF50000451559 bam 987.5 MB
EGAF50000451560 bai 2.0 MB
EGAF50000451561 bam 963.7 MB
EGAF50000451562 bai 2.0 MB
EGAF50000451563 bam 969.0 MB
EGAF50000451564 bai 2.0 MB
EGAF50000451566 bam 1.0 GB
100 Files (51.6 GB)