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1M-scBloodNL

Here we present the 1M-scBloodNL study, in which we performed single-cell RNA-seq on 120 individuals of the Northern Netherlands population cohort Lifelines. For each individual peripheral blood mononuclear cells (PBMCs) were sequenced in an unstimulated condition, and after 3 and 24 hour in vitro stimulation with C. albicans (CA), M. tuberculosis (MTB) and P. aeruginosa (PA), totalling approximately 1.3 million cells. scRNA-seq was conducted with the 10X Genomics 3'-end v2 (72 libraries) and v3 (33 libraries) technology. In general, each library contains PBMCs from 8 donors and 2 different stimulation-timepoint combinations. Donors were demultiplexed using a combination of SoupOrCell (https://www.nature.com/articles/s41592-020-0820-1) and genotype information to assign the correct donor to a donor-specific cell cluster.

Request Access

Genotype and gene expression data are freely available. Single-cell RNA-seq data (fastq files), including a tsv file that links each cell barcode to its respective donor and stimulation-timepoint combination, has been deposited at the European Genome-phenome Archive (EGA). Genotype data is hosted from the HPC cluster of the UMCG.

The 1M-scBloodNL Data Access Committee (DAC) determines access permission. In order to request data access, please click on request data and fill in the data request form with a signed data access agreement that can be found on https://eqtlgen.org/sc/datasets/1m-scbloodnl.html We aim to provide data access within 5 working days. However, during the holiday season there might be a slight delay. For more information, contact Monique van der Wijst (m.g.p.van.der.wijst@umcg.nl).

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
EGAS00001005376 Other

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 Located in
EGAF00005316416 fastq.gz 6.1 GB
EGAF00005316417 fastq.gz 22.7 GB
EGAF00005316418 fastq.gz 8.8 GB
EGAF00005316419 fastq.gz 34.1 GB
EGAF00005316420 fastq.gz 11.0 GB
EGAF00005316421 fastq.gz 41.3 GB
EGAF00005316422 fastq.gz 2.0 GB
EGAF00005316423 fastq.gz 7.4 GB
EGAF00005316424 fastq.gz 7.3 GB
EGAF00005316425 fastq.gz 28.0 GB
EGAF00005316426 fastq.gz 5.3 GB
EGAF00005316427 fastq.gz 23.9 GB
EGAF00005316428 fastq.gz 6.2 GB
EGAF00005316429 fastq.gz 28.8 GB
EGAF00005316430 fastq.gz 5.6 GB
EGAF00005316431 fastq.gz 25.1 GB
EGAF00005316432 fastq.gz 5.6 GB
EGAF00005316433 fastq.gz 21.0 GB
EGAF00005316434 fastq.gz 5.8 GB
EGAF00005316435 fastq.gz 26.7 GB
EGAF00005316436 fastq.gz 8.2 GB
EGAF00005316437 fastq.gz 31.4 GB
EGAF00005316438 fastq.gz 2.7 GB
EGAF00005316439 fastq.gz 10.0 GB
EGAF00005316440 fastq.gz 8.7 GB
EGAF00005316441 fastq.gz 32.2 GB
EGAF00005316442 fastq.gz 4.8 GB
EGAF00005316443 fastq.gz 21.9 GB
EGAF00005316444 fastq.gz 2.1 GB
EGAF00005316445 fastq.gz 7.8 GB
EGAF00005316446 fastq.gz 5.1 GB
EGAF00005316447 fastq.gz 21.8 GB
EGAF00005316448 fastq.gz 9.0 GB
EGAF00005316449 fastq.gz 34.8 GB
EGAF00005316450 fastq.gz 5.8 GB
EGAF00005316451 fastq.gz 25.5 GB
EGAF00005316452 fastq.gz 1.8 GB
EGAF00005316453 fastq.gz 6.7 GB
EGAF00005316454 fastq.gz 8.1 GB
EGAF00005316455 fastq.gz 31.1 GB
EGAF00005316456 fastq.gz 5.7 GB
EGAF00005316457 fastq.gz 25.9 GB
EGAF00005316458 fastq.gz 8.0 GB
EGAF00005316459 fastq.gz 29.7 GB
EGAF00005316460 fastq.gz 5.8 GB
EGAF00005316461 fastq.gz 21.6 GB
EGAF00005316462 fastq.gz 5.9 GB
EGAF00005316463 fastq.gz 26.8 GB
EGAF00005316464 fastq.gz 5.7 GB
EGAF00005316465 fastq.gz 26.1 GB
EGAF00005316466 fastq.gz 3.8 GB
EGAF00005316467 fastq.gz 14.0 GB
EGAF00005316468 fastq.gz 10.4 GB
EGAF00005316469 fastq.gz 39.4 GB
EGAF00005316470 fastq.gz 2.5 GB
EGAF00005316471 fastq.gz 9.2 GB
EGAF00005316472 fastq.gz 11.3 GB
EGAF00005316473 fastq.gz 42.4 GB
EGAF00005316474 fastq.gz 8.7 GB
EGAF00005316475 fastq.gz 33.3 GB
EGAF00005316476 fastq.gz 10.3 GB
EGAF00005316477 fastq.gz 39.3 GB
EGAF00005316478 fastq.gz 2.3 GB
EGAF00005316479 fastq.gz 8.7 GB
EGAF00005316480 fastq.gz 2.5 GB
EGAF00005316481 fastq.gz 9.6 GB
EGAF00005316482 fastq.gz 6.3 GB
EGAF00005316483 fastq.gz 29.1 GB
EGAF00005316484 fastq.gz 5.5 GB
EGAF00005316485 fastq.gz 25.1 GB
EGAF00005316486 fastq.gz 5.9 GB
EGAF00005316487 fastq.gz 21.9 GB
EGAF00005316488 fastq.gz 8.1 GB
EGAF00005316489 fastq.gz 31.3 GB
EGAF00005316490 fastq.gz 9.2 GB
EGAF00005316491 fastq.gz 34.5 GB
EGAF00005316492 fastq.gz 10.4 GB
EGAF00005316493 fastq.gz 39.0 GB
EGAF00005316494 fastq.gz 5.9 GB
EGAF00005316495 fastq.gz 21.8 GB
EGAF00005316496 fastq.gz 6.1 GB
EGAF00005316497 fastq.gz 27.8 GB
EGAF00005316498 fastq.gz 5.5 GB
EGAF00005316499 fastq.gz 24.6 GB
EGAF00005316500 fastq.gz 6.1 GB
EGAF00005316501 fastq.gz 28.6 GB
EGAF00005316502 fastq.gz 5.4 GB
EGAF00005316503 fastq.gz 25.2 GB
EGAF00005316504 fastq.gz 5.5 GB
EGAF00005316505 fastq.gz 24.9 GB
EGAF00005316506 fastq.gz 5.6 GB
EGAF00005316507 fastq.gz 26.2 GB
EGAF00005316508 fastq.gz 5.0 GB
EGAF00005316509 fastq.gz 23.0 GB
EGAF00005316510 fastq.gz 9.7 GB
EGAF00005316511 fastq.gz 36.5 GB
EGAF00005316512 fastq.gz 2.4 GB
EGAF00005316513 fastq.gz 9.0 GB
EGAF00005316514 fastq.gz 6.2 GB
EGAF00005316515 fastq.gz 28.4 GB
EGAF00005316516 fastq.gz 11.2 GB
EGAF00005316517 fastq.gz 42.7 GB
EGAF00005316518 fastq.gz 3.7 GB
EGAF00005316519 fastq.gz 13.4 GB
EGAF00005316520 fastq.gz 2.9 GB
EGAF00005316521 fastq.gz 10.7 GB
EGAF00005316522 fastq.gz 5.4 GB
EGAF00005316523 fastq.gz 19.7 GB
EGAF00005316524 fastq.gz 5.1 GB
EGAF00005316525 fastq.gz 24.0 GB
EGAF00005316526 fastq.gz 8.3 GB
EGAF00005316527 fastq.gz 31.2 GB
EGAF00005316528 fastq.gz 10.9 GB
EGAF00005316529 fastq.gz 40.0 GB
EGAF00005316530 fastq.gz 5.9 GB
EGAF00005316531 fastq.gz 27.7 GB
EGAF00005316532 fastq.gz 5.6 GB
EGAF00005316533 fastq.gz 26.6 GB
EGAF00005316534 fastq.gz 5.9 GB
EGAF00005316535 fastq.gz 26.7 GB
EGAF00005316536 fastq.gz 5.7 GB
EGAF00005316537 fastq.gz 26.3 GB
EGAF00005316538 fastq.gz 5.3 GB
EGAF00005316539 fastq.gz 24.2 GB
EGAF00005316540 fastq.gz 5.4 GB
EGAF00005316541 fastq.gz 24.3 GB
EGAF00005316542 fastq.gz 5.1 GB
EGAF00005316543 fastq.gz 23.4 GB
EGAF00005316544 fastq.gz 11.0 GB
EGAF00005316545 fastq.gz 41.0 GB
EGAF00005316546 fastq.gz 6.6 GB
EGAF00005316547 fastq.gz 30.2 GB
EGAF00005316548 fastq.gz 5.9 GB
EGAF00005316549 fastq.gz 27.3 GB
EGAF00005316550 fastq.gz 9.6 GB
EGAF00005316551 fastq.gz 36.7 GB
EGAF00005316552 fastq.gz 11.0 GB
EGAF00005316553 fastq.gz 42.2 GB
EGAF00005316554 fastq.gz 5.4 GB
EGAF00005316555 fastq.gz 23.6 GB
EGAF00005316556 fastq.gz 2.7 GB
EGAF00005316557 fastq.gz 9.7 GB
EGAF00005316558 fastq.gz 6.1 GB
EGAF00005316559 fastq.gz 27.7 GB
EGAF00005316560 fastq.gz 6.0 GB
EGAF00005316561 fastq.gz 26.3 GB
EGAF00005316562 fastq.gz 4.9 GB
EGAF00005316563 fastq.gz 22.7 GB
EGAF00005316564 fastq.gz 5.8 GB
EGAF00005316565 fastq.gz 22.1 GB
EGAF00005316566 fastq.gz 10.1 GB
EGAF00005316567 fastq.gz 38.4 GB
EGAF00005316568 fastq.gz 5.9 GB
EGAF00005316569 fastq.gz 27.3 GB
EGAF00005316570 fastq.gz 6.1 GB
EGAF00005316571 fastq.gz 27.5 GB
EGAF00005316572 fastq.gz 5.7 GB
EGAF00005316573 fastq.gz 26.3 GB
EGAF00005316574 fastq.gz 1.9 GB
EGAF00005316575 fastq.gz 6.9 GB
EGAF00005316576 fastq.gz 4.8 GB
EGAF00005316577 fastq.gz 22.2 GB
EGAF00005316578 fastq.gz 2.2 GB
EGAF00005316579 fastq.gz 8.0 GB
EGAF00005316580 fastq.gz 8.5 GB
EGAF00005316581 fastq.gz 32.9 GB
EGAF00005316582 fastq.gz 6.9 GB
EGAF00005316583 fastq.gz 31.9 GB
EGAF00005316584 fastq.gz 5.6 GB
EGAF00005316585 fastq.gz 25.0 GB
EGAF00005316586 fastq.gz 5.3 GB
EGAF00005316587 fastq.gz 23.7 GB
EGAF00005316588 fastq.gz 7.6 GB
EGAF00005316589 fastq.gz 27.7 GB
EGAF00005316590 fastq.gz 8.2 GB
EGAF00005316591 fastq.gz 31.0 GB
EGAF00005316592 fastq.gz 6.1 GB
EGAF00005316593 fastq.gz 28.2 GB
EGAF00005316594 fastq.gz 5.5 GB
EGAF00005316595 fastq.gz 20.1 GB
EGAF00005316596 fastq.gz 6.0 GB
EGAF00005316597 fastq.gz 27.3 GB
EGAF00005316598 fastq.gz 6.0 GB
EGAF00005316599 fastq.gz 22.3 GB
EGAF00005316600 fastq.gz 8.3 GB
EGAF00005316601 fastq.gz 31.6 GB
EGAF00005316602 fastq.gz 10.5 GB
EGAF00005316603 fastq.gz 39.6 GB
EGAF00005316604 fastq.gz 8.1 GB
EGAF00005316605 fastq.gz 29.5 GB
EGAF00005316606 fastq.gz 5.3 GB
EGAF00005316607 fastq.gz 24.0 GB
EGAF00005316608 fastq.gz 5.6 GB
EGAF00005316609 fastq.gz 25.4 GB
EGAF00005316610 fastq.gz 6.4 GB
EGAF00005316611 fastq.gz 30.4 GB
EGAF00005316612 fastq.gz 5.8 GB
EGAF00005316613 fastq.gz 21.7 GB
EGAF00005316614 fastq.gz 8.0 GB
EGAF00005316615 fastq.gz 31.0 GB
EGAF00005316616 fastq.gz 6.1 GB
EGAF00005316617 fastq.gz 22.5 GB
EGAF00005316618 fastq.gz 7.6 GB
EGAF00005316619 fastq.gz 28.2 GB
EGAF00005316620 fastq.gz 5.8 GB
EGAF00005316621 fastq.gz 21.6 GB
EGAF00005316622 fastq.gz 10.7 GB
EGAF00005316623 fastq.gz 40.3 GB
EGAF00005316624 fastq.gz 8.4 GB
EGAF00005316625 fastq.gz 32.5 GB
EGAF00005316626 fastq.gz 7.5 GB
EGAF00005316627 fastq.gz 28.7 GB
EGAF00005316628 fastq.gz 9.4 GB
EGAF00005316629 fastq.gz 35.6 GB
EGAF00005316630 fastq.gz 10.6 GB
EGAF00005316631 fastq.gz 40.8 GB
EGAF00005316632 fastq.gz 9.4 GB
EGAF00005316633 fastq.gz 35.7 GB
EGAF00005316634 fastq.gz 5.7 GB
EGAF00005316635 fastq.gz 26.0 GB
EGAF00005316636 fastq.gz 7.7 GB
EGAF00005316637 fastq.gz 29.5 GB
EGAF00005316638 fastq.gz 4.8 GB
EGAF00005316639 fastq.gz 22.0 GB
EGAF00005316640 fastq.gz 6.9 GB
EGAF00005316641 fastq.gz 32.6 GB
EGAF00005316642 fastq.gz 11.6 GB
EGAF00005316643 fastq.gz 43.6 GB
EGAF00005316644 fastq.gz 6.0 GB
EGAF00005316645 fastq.gz 27.4 GB
EGAF00005316646 fastq.gz 5.5 GB
EGAF00005316647 fastq.gz 25.2 GB
EGAF00005316648 fastq.gz 10.3 GB
EGAF00005316649 fastq.gz 39.1 GB
EGAF00005316650 fastq.gz 5.7 GB
EGAF00005316651 fastq.gz 26.5 GB
EGAF00005316652 fastq.gz 5.9 GB
EGAF00005316653 fastq.gz 27.7 GB
EGAF00005316654 fastq.gz 10.7 GB
EGAF00005316655 fastq.gz 40.8 GB
EGAF00005316656 fastq.gz 5.4 GB
EGAF00005316657 fastq.gz 19.8 GB
EGAF00005316658 fastq.gz 2.8 GB
EGAF00005316659 fastq.gz 10.3 GB
EGAF00005316660 fastq.gz 5.5 GB
EGAF00005316661 fastq.gz 25.3 GB
EGAF00005316662 fastq.gz 5.5 GB
EGAF00005316663 fastq.gz 25.0 GB
EGAF00005316664 fastq.gz 6.1 GB
EGAF00005316665 fastq.gz 27.7 GB
EGAF00005316666 fastq.gz 6.2 GB
EGAF00005316667 fastq.gz 28.3 GB
EGAF00005316668 fastq.gz 5.9 GB
EGAF00005316669 fastq.gz 27.1 GB
EGAF00005316670 fastq.gz 6.0 GB
EGAF00005316671 fastq.gz 27.5 GB
EGAF00005316672 fastq.gz 5.8 GB
EGAF00005316673 fastq.gz 26.0 GB
EGAF00005316674 fastq.gz 5.4 GB
EGAF00005316675 fastq.gz 24.7 GB
EGAF00005316676 fastq.gz 8.3 GB
EGAF00005316677 fastq.gz 31.9 GB
EGAF00005316678 fastq.gz 5.4 GB
EGAF00005316679 fastq.gz 24.5 GB
EGAF00005316680 fastq.gz 5.8 GB
EGAF00005316681 fastq.gz 27.7 GB
EGAF00005316682 fastq.gz 5.5 GB
EGAF00005316683 fastq.gz 25.4 GB
EGAF00005316684 fastq.gz 5.5 GB
EGAF00005316685 fastq.gz 20.2 GB
EGAF00005316686 fastq.gz 2.7 GB
EGAF00005316687 fastq.gz 10.2 GB
EGAF00005316688 fastq.gz 6.0 GB
EGAF00005316689 fastq.gz 27.1 GB
EGAF00005316690 fastq.gz 5.8 GB
EGAF00005316691 fastq.gz 26.4 GB
EGAF00005316692 fastq.gz 5.4 GB
EGAF00005316693 fastq.gz 25.2 GB
EGAF00005316694 fastq.gz 5.5 GB
EGAF00005316695 fastq.gz 25.7 GB
EGAF00005316696 fastq.gz 8.2 GB
EGAF00005316697 fastq.gz 31.7 GB
EGAF00005316698 fastq.gz 5.0 GB
EGAF00005316699 fastq.gz 18.3 GB
EGAF00005316700 fastq.gz 5.5 GB
EGAF00005316701 fastq.gz 25.4 GB
EGAF00005316702 fastq.gz 5.5 GB
EGAF00005316703 fastq.gz 26.0 GB
EGAF00005316704 fastq.gz 6.2 GB
EGAF00005316705 fastq.gz 28.2 GB
EGAF00005316706 fastq.gz 5.7 GB
EGAF00005316707 fastq.gz 25.5 GB
EGAF00005316708 fastq.gz 8.6 GB
EGAF00005316709 fastq.gz 33.1 GB
EGAF00005316710 fastq.gz 9.7 GB
EGAF00005316711 fastq.gz 35.6 GB
EGAF00005316712 csv 8.6 kB
297 Files (4.9 TB)