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Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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scRNA-seq of human bone marrow samples across ERCC6L2 disease and Shwachman-Diamond syndrome

This dataset contains .FASTQ and .BAM files of scRNA-seq data of human bone marrow samples across ERCC6L2 disease (16 samples from 10 patients) and Shwachman-Diamond syndrome (6 samples from 5 patients). We applied single-cell RNA sequencing (scRNA-seq, 3’ 10X Genomics, Chromium Next GEM Single Cell 3' Gene Expression version 3.1 Dual Index chemistry) following manufacturer’s instructions. Libraries were sequenced on Illumina NovaSeq 6000 platform using read lengths: 28bp (Read 1), 10bp (i7 Index), 10bp (i5 Index) and 90bp (Read 2). The resulting files were processed using CellRanger 6.0.2 pipelines with default parameters to generate FASTQ files and count matrices, and the Illumina bcl2fastq v2.2.0 was used to run the mkfastq pipeline and alignment was done using GRCh38.

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Access application page in SD Apply for datasets EGAD50000002724 and EGAD50000002725

To obtain access to data stored in FEGA Finland, we would like to inform you that access will be granted through the local access management system SD Apply. It is important to note that applications submitted via the EGA DAC portal will not be processed. For comprehensive details regarding reuse policies and other essential documentation, please visit the access application page in SD Apply. We kindly invite you to follow the provided link (next to the policy title) and submit your access application through SD Apply. Your cooperation in this matter is greatly appreciated.

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
EGAS50000001880 RNASeq

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
EGAF50000810804 fastq.gz 1.4 GB
EGAF50000810805 fastq.gz 1.6 GB
EGAF50000810806 fastq.gz 4.5 GB
EGAF50000810807 fastq.gz 10.2 GB
EGAF50000810810 fastq.gz 1.6 GB
EGAF50000810811 fastq.gz 1.5 GB
EGAF50000810906 fastq.gz 4.9 GB
EGAF50000810907 fastq.gz 10.9 GB
EGAF50000810908 fastq.gz 256.5 MB
EGAF50000810909 fastq.gz 257.9 MB
EGAF50000810910 fastq.gz 784.4 MB
EGAF50000810911 fastq.gz 1.7 GB
EGAF50000810912 fastq.gz 356.6 MB
EGAF50000810913 fastq.gz 360.9 MB
EGAF50000810914 fastq.gz 1.1 GB
EGAF50000810915 fastq.gz 2.4 GB
EGAF50000810916 fastq.gz 356.6 MB
EGAF50000810917 fastq.gz 360.0 MB
EGAF50000810918 fastq.gz 1.1 GB
EGAF50000810919 fastq.gz 2.4 GB
EGAF50000810920 fastq.gz 367.9 MB
EGAF50000810921 fastq.gz 374.2 MB
EGAF50000810922 fastq.gz 1.1 GB
EGAF50000810923 fastq.gz 2.5 GB
EGAF50000810940 fastq.gz 1.1 GB
EGAF50000810941 fastq.gz 1.4 GB
EGAF50000810942 fastq.gz 4.1 GB
EGAF50000810943 fastq.gz 9.2 GB
EGAF50000810946 fastq.gz 1.4 GB
EGAF50000810947 fastq.gz 1.6 GB
EGAF50000810948 fastq.gz 4.8 GB
EGAF50000810949 fastq.gz 10.4 GB
EGAF50000810954 fastq.gz 1.5 GB
EGAF50000810955 fastq.gz 1.7 GB
EGAF50000810956 fastq.gz 5.1 GB
EGAF50000810957 fastq.gz 11.8 GB
EGAF50000811083 fastq.gz 1.5 GB
EGAF50000811084 fastq.gz 1.6 GB
EGAF50000811121 fastq.gz 4.7 GB
EGAF50000811188 fastq.gz 10.7 GB
EGAF50000811281 fastq.gz 316.0 MB
EGAF50000811282 fastq.gz 332.7 MB
EGAF50000811283 fastq.gz 1.0 GB
EGAF50000811284 fastq.gz 2.3 GB
EGAF50000811285 fastq.gz 442.5 MB
EGAF50000811286 fastq.gz 473.0 MB
EGAF50000811311 fastq.gz 1.4 GB
EGAF50000811312 fastq.gz 3.2 GB
EGAF50000811313 fastq.gz 458.6 MB
EGAF50000811314 fastq.gz 486.8 MB
EGAF50000811315 fastq.gz 1.5 GB
EGAF50000811482 fastq.gz 3.3 GB
EGAF50000811483 fastq.gz 439.3 MB
EGAF50000811484 fastq.gz 462.3 MB
EGAF50000811485 fastq.gz 1.4 GB
EGAF50000811486 fastq.gz 3.2 GB
EGAF50000811563 fastq.gz 1.3 GB
EGAF50000811564 fastq.gz 1.5 GB
EGAF50000811565 fastq.gz 4.7 GB
EGAF50000811566 fastq.gz 10.2 GB
EGAF50000811583 fastq.gz 1.6 GB
EGAF50000811584 fastq.gz 1.8 GB
EGAF50000811585 fastq.gz 5.4 GB
EGAF50000811586 fastq.gz 12.2 GB
EGAF50000811595 fastq.gz 257.4 MB
EGAF50000811596 fastq.gz 329.3 MB
EGAF50000811597 fastq.gz 933.1 MB
EGAF50000811598 fastq.gz 2.1 GB
EGAF50000811599 fastq.gz 366.5 MB
EGAF50000811600 fastq.gz 466.9 MB
EGAF50000811601 fastq.gz 1.3 GB
EGAF50000811602 fastq.gz 2.8 GB
EGAF50000811603 fastq.gz 358.1 MB
EGAF50000811604 fastq.gz 454.0 MB
EGAF50000811605 fastq.gz 1.3 GB
EGAF50000811606 fastq.gz 2.9 GB
EGAF50000811607 fastq.gz 378.8 MB
EGAF50000811608 fastq.gz 479.7 MB
EGAF50000811609 fastq.gz 1.3 GB
EGAF50000811610 fastq.gz 3.0 GB
EGAF50000811615 fastq.gz 1.5 GB
EGAF50000811616 fastq.gz 1.6 GB
EGAF50000811617 fastq.gz 4.8 GB
EGAF50000811618 fastq.gz 10.4 GB
EGAF50000811623 fastq.gz 304.5 MB
EGAF50000811624 fastq.gz 352.9 MB
EGAF50000811625 fastq.gz 1.1 GB
EGAF50000811626 fastq.gz 2.4 GB
EGAF50000811627 fastq.gz 421.0 MB
EGAF50000811628 fastq.gz 492.8 MB
EGAF50000811629 fastq.gz 1.5 GB
EGAF50000811630 fastq.gz 3.2 GB
EGAF50000811631 fastq.gz 424.5 MB
EGAF50000811632 fastq.gz 486.0 MB
EGAF50000811633 fastq.gz 1.5 GB
EGAF50000811634 fastq.gz 3.3 GB
EGAF50000811635 fastq.gz 436.8 MB
EGAF50000811636 fastq.gz 508.0 MB
EGAF50000811637 fastq.gz 1.5 GB
EGAF50000811638 fastq.gz 3.4 GB
EGAF50000811651 fastq.gz 278.2 MB
EGAF50000811652 fastq.gz 311.7 MB
EGAF50000811653 fastq.gz 964.8 MB
EGAF50000811654 fastq.gz 2.1 GB
EGAF50000811655 fastq.gz 392.9 MB
EGAF50000811656 fastq.gz 444.2 MB
EGAF50000811657 fastq.gz 1.3 GB
EGAF50000811658 fastq.gz 2.9 GB
EGAF50000811659 fastq.gz 408.5 MB
EGAF50000811660 fastq.gz 457.3 MB
EGAF50000811661 fastq.gz 1.4 GB
EGAF50000811662 fastq.gz 3.1 GB
EGAF50000811663 fastq.gz 386.7 MB
EGAF50000811664 fastq.gz 429.9 MB
EGAF50000811665 fastq.gz 1.3 GB
EGAF50000811666 fastq.gz 2.9 GB
EGAF50000811679 fastq.gz 372.0 MB
EGAF50000811680 fastq.gz 343.9 MB
EGAF50000811681 fastq.gz 1.1 GB
EGAF50000811682 fastq.gz 2.3 GB
EGAF50000811683 fastq.gz 515.8 MB
EGAF50000811684 fastq.gz 483.8 MB
EGAF50000811685 fastq.gz 1.4 GB
EGAF50000811686 fastq.gz 3.1 GB
EGAF50000811687 fastq.gz 521.2 MB
EGAF50000811688 fastq.gz 481.6 MB
EGAF50000811689 fastq.gz 1.5 GB
EGAF50000811690 fastq.gz 3.2 GB
EGAF50000811691 fastq.gz 535.4 MB
EGAF50000811692 fastq.gz 501.0 MB
EGAF50000811693 fastq.gz 1.5 GB
EGAF50000811694 fastq.gz 3.2 GB
EGAF50000811699 fastq.gz 1.5 GB
EGAF50000811700 fastq.gz 1.5 GB
EGAF50000811701 fastq.gz 4.7 GB
EGAF50000811702 fastq.gz 10.7 GB
EGAF50000811711 fastq.gz 240.0 MB
EGAF50000811712 fastq.gz 261.0 MB
EGAF50000811713 fastq.gz 850.8 MB
EGAF50000811714 fastq.gz 1.9 GB
EGAF50000811715 fastq.gz 338.8 MB
EGAF50000811716 fastq.gz 371.7 MB
EGAF50000811717 fastq.gz 1.2 GB
EGAF50000811718 fastq.gz 2.6 GB
EGAF50000811719 fastq.gz 331.3 MB
EGAF50000811720 fastq.gz 357.8 MB
EGAF50000811721 fastq.gz 1.2 GB
EGAF50000811722 fastq.gz 2.6 GB
EGAF50000811723 fastq.gz 351.2 MB
EGAF50000811724 fastq.gz 380.4 MB
EGAF50000811725 fastq.gz 1.2 GB
EGAF50000811726 fastq.gz 2.7 GB
EGAF50000811727 fastq.gz 2.0 GB
EGAF50000811728 fastq.gz 277.8 MB
EGAF50000811729 fastq.gz 290.9 MB
EGAF50000811730 fastq.gz 902.3 MB
EGAF50000811731 fastq.gz 380.6 MB
EGAF50000811732 fastq.gz 408.0 MB
EGAF50000811733 fastq.gz 1.2 GB
EGAF50000811734 fastq.gz 2.8 GB
EGAF50000811735 fastq.gz 385.4 MB
EGAF50000811736 fastq.gz 400.5 MB
EGAF50000811737 fastq.gz 1.3 GB
EGAF50000811738 fastq.gz 2.8 GB
EGAF50000811739 fastq.gz 394.5 MB
EGAF50000811740 fastq.gz 418.6 MB
EGAF50000811741 fastq.gz 1.3 GB
EGAF50000811742 fastq.gz 2.9 GB
EGAF50000811743 fastq.gz 231.6 MB
EGAF50000811744 fastq.gz 222.4 MB
EGAF50000811745 fastq.gz 771.7 MB
EGAF50000811746 fastq.gz 1.7 GB
EGAF50000811747 fastq.gz 322.4 MB
EGAF50000811748 fastq.gz 312.6 MB
EGAF50000811749 fastq.gz 1.1 GB
EGAF50000811750 fastq.gz 2.3 GB
EGAF50000811751 fastq.gz 320.5 MB
EGAF50000811752 fastq.gz 309.7 MB
EGAF50000811753 fastq.gz 1.1 GB
EGAF50000811754 fastq.gz 2.4 GB
EGAF50000811755 fastq.gz 332.7 MB
EGAF50000811756 fastq.gz 322.6 MB
EGAF50000811757 fastq.gz 1.1 GB
EGAF50000811758 fastq.gz 2.4 GB
EGAF50000811763 fastq.gz 242.5 MB
EGAF50000811764 fastq.gz 284.7 MB
EGAF50000811765 fastq.gz 860.0 MB
EGAF50000811766 fastq.gz 1.9 GB
EGAF50000811767 fastq.gz 338.1 MB
EGAF50000811768 fastq.gz 402.9 MB
EGAF50000811769 fastq.gz 1.2 GB
EGAF50000811770 fastq.gz 2.7 GB
EGAF50000811771 fastq.gz 335.8 MB
EGAF50000811772 fastq.gz 395.6 MB
EGAF50000811773 fastq.gz 1.2 GB
EGAF50000811774 fastq.gz 2.7 GB
EGAF50000811775 fastq.gz 349.6 MB
EGAF50000811776 fastq.gz 415.7 MB
EGAF50000811777 fastq.gz 1.2 GB
EGAF50000811778 fastq.gz 2.8 GB
EGAF50000811791 fastq.gz 1.4 GB
EGAF50000811792 fastq.gz 1.6 GB
EGAF50000811793 fastq.gz 4.8 GB
EGAF50000811794 fastq.gz 10.3 GB
EGAF50000811799 fastq.gz 1.4 GB
EGAF50000811800 fastq.gz 1.8 GB
EGAF50000811801 fastq.gz 5.4 GB
EGAF50000811802 fastq.gz 12.0 GB
EGAF50000853303 bam 12.4 GB
EGAF50000853304 bam 11.9 GB
EGAF50000853305 bam 13.1 GB
EGAF50000853306 bam 11.5 GB
EGAF50000853307 bam 13.4 GB
EGAF50000853308 bam 11.6 GB
EGAF50000853310 bam 11.3 GB
EGAF50000853312 bam 12.4 GB
EGAF50000854164 bam 14.4 GB
EGAF50000854175 bam 11.2 GB
EGAF50000854520 bam 12.1 GB
EGAF50000854521 bam 10.4 GB
EGAF50000854522 bai 5.6 MB
EGAF50000854523 bai 6.1 MB
EGAF50000854804 bai 6.1 MB
EGAF50000856959 bai 6.3 MB
EGAF50000856960 bai 6.7 MB
EGAF50000856961 bai 6.4 MB
EGAF50000856962 bam 11.9 GB
EGAF50000860938 bam 12.2 GB
EGAF50000860940 bai 5.7 MB
EGAF50000860941 bai 6.6 MB
EGAF50000860942 bam 13.5 GB
EGAF50000860944 bai 6.4 MB
EGAF50000861428 bai 6.9 MB
EGAF50000861429 bai 6.5 MB
EGAF50000861430 bam 13.8 GB
EGAF50000861433 bai 7.1 MB
EGAF50000861435 bam 10.4 GB
EGAF50000861436 bai 6.4 MB
EGAF50000861437 bai 5.9 MB
EGAF50000861438 bai 6.3 MB
EGAF50000861503 bai 6.2 MB
EGAF50000861505 bai 5.7 MB
EGAF50000861506 bam 12.5 GB
EGAF50000861507 bai 6.1 MB
EGAF50000861508 bam 12.0 GB
EGAF50000861509 bai 6.4 MB
EGAF50000861510 bam 10.0 GB
EGAF50000861511 bai 6.0 MB
EGAF50000861512 bam 11.9 GB
EGAF50000861513 bai 6.3 MB
EGAF50000864935 bam 14.0 GB
EGAF50000864936 bai 6.8 MB
252 Files (676.0 GB)