Neutrophils and emergency granulopoiesis drive immune suppression and an extreme response endotype during sepsis
This dataset contains raw sequencing files associated with the paper "Neutrophils and emergency granulopoiesis drive immune suppression and an extreme response endotype during sepsis" (https://doi.org/10.1038/s41590-023-01490-5). It is composed of two experiments, which are as follows: 1. Single-cell profiling of whole blood leukocytes: This experiment comprises sequencing files generated using the BD Rhapsody single-cell multi-omics profiling (RNA + protein) platform. This platform was used to profile the whole blood leukocyte population in a cohort of sepsis patients, cardiac surgery controls and healthy controls. There are 48 samples and four files per sample: two paired-end FASTQ files (R1 and R2) corresponding to the RNA-seq library, and two paired-end FASTQ files (R1 and R2) corresponding to the protein profiling (ADT-based AbSeq) library. 2. Single-cell profiling of circulating HSPCs: This experiment comprises sequencing files generated using the 10X single-cell multi-omics (RNA-seq + ATAC-seq) profiling platform. This platform was used to profile circulating HSPCs in a cohort of sepsis patients and healthy controls. There are 5 samples (or plexes), each of which consists of a pool of individuals for whom cells were multiplexed and sequenced as a single sample. There are four files per sample: two paired-end FASTQ files (R1 and R2) corresponding to the RNA-seq library, and two paired-end FASTQ files (R1 and R2) corresponding to the ATAC-seq library. Because these samples consists of multiplexed pools, index files are also provided. These can be used for sample deconvolution using the Cell Ranger pipeline. NOTE: Due to EGA's constrains in the number of files permitted per sample, index files (I1 and I2) for the HSPC data set are provided as a separate experiment named "FASTQ index files (I1 and I2) for deconvolution of 10X single-cell multiomics libraries".
- 106 samples
- DAC: EGAC00001003275
- Technology: Illumina NovaSeq 6000
Data access policy associated with the publication "Neutrophils and emergency granulopoiesis drive immune suppression and an extreme response endotype during sepsis" (https://doi.org/10.1038/s41590-023-01490-5).
Same as for https://ega-archive.org/dacs/EGAC01000000009
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 |
|---|---|---|
| EGAS00001006283 | Transcriptome Analysis |
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 | |
|---|---|---|---|---|
| EGAF00008090673 | fastq.gz | 26.1 GB | ||
| EGAF00008090674 | fastq.gz | 27.5 GB | ||
| EGAF00008090675 | fastq.gz | 21.4 GB | ||
| EGAF00008090676 | fastq.gz | 22.5 GB | ||
| EGAF00008090677 | fastq.gz | 24.2 GB | ||
| EGAF00008090678 | fastq.gz | 25.5 GB | ||
| EGAF00008090679 | fastq.gz | 25.4 GB | ||
| EGAF00008090680 | fastq.gz | 26.3 GB | ||
| EGAF00008090681 | fastq.gz | 23.4 GB | ||
| EGAF00008090682 | fastq.gz | 24.2 GB | ||
| EGAF00008090683 | fastq.gz | 25.2 GB | ||
| EGAF00008090684 | fastq.gz | 26.1 GB | ||
| EGAF00008090685 | fastq.gz | 25.7 GB | ||
| EGAF00008090686 | fastq.gz | 27.0 GB | ||
| EGAF00008090687 | fastq.gz | 21.1 GB | ||
| EGAF00008090688 | fastq.gz | 22.0 GB | ||
| EGAF00008090689 | fastq.gz | 2.6 GB | ||
| EGAF00008090690 | fastq.gz | 2.6 GB | ||
| EGAF00008090691 | fastq.gz | 2.7 GB | ||
| EGAF00008090692 | fastq.gz | 2.8 GB | ||
| EGAF00008090693 | fastq.gz | 2.8 GB | ||
| EGAF00008090694 | fastq.gz | 2.8 GB | ||
| EGAF00008090695 | fastq.gz | 2.3 GB | ||
| EGAF00008090696 | fastq.gz | 2.3 GB | ||
| EGAF00008090697 | fastq.gz | 2.5 GB | ||
| EGAF00008090698 | fastq.gz | 2.5 GB | ||
| EGAF00008090699 | fastq.gz | 2.6 GB | ||
| EGAF00008090700 | fastq.gz | 2.7 GB | ||
| EGAF00008090701 | fastq.gz | 2.5 GB | ||
| EGAF00008090702 | fastq.gz | 2.5 GB | ||
| EGAF00008090703 | fastq.gz | 2.8 GB | ||
| EGAF00008090704 | fastq.gz | 2.8 GB | ||
| EGAF00008090705 | fastq.gz | 25.5 GB | ||
| EGAF00008090706 | fastq.gz | 27.0 GB | ||
| EGAF00008090707 | fastq.gz | 21.1 GB | ||
| EGAF00008090708 | fastq.gz | 22.2 GB | ||
| EGAF00008090709 | fastq.gz | 21.9 GB | ||
| EGAF00008090710 | fastq.gz | 22.6 GB | ||
| EGAF00008090711 | fastq.gz | 22.4 GB | ||
| EGAF00008090712 | fastq.gz | 23.5 GB | ||
| EGAF00008090713 | fastq.gz | 19.0 GB | ||
| EGAF00008090714 | fastq.gz | 20.2 GB | ||
| EGAF00008090715 | fastq.gz | 22.3 GB | ||
| EGAF00008090716 | fastq.gz | 23.6 GB | ||
| EGAF00008090717 | fastq.gz | 25.3 GB | ||
| EGAF00008090718 | fastq.gz | 26.5 GB | ||
| EGAF00008090719 | fastq.gz | 20.6 GB | ||
| EGAF00008090720 | fastq.gz | 21.5 GB | ||
| EGAF00008090721 | fastq.gz | 2.3 GB | ||
| EGAF00008090722 | fastq.gz | 2.3 GB | ||
| EGAF00008090723 | fastq.gz | 2.2 GB | ||
| EGAF00008090724 | fastq.gz | 2.2 GB | ||
| EGAF00008090725 | fastq.gz | 2.4 GB | ||
| EGAF00008090726 | fastq.gz | 2.4 GB | ||
| EGAF00008090727 | fastq.gz | 1.9 GB | ||
| EGAF00008090728 | fastq.gz | 1.9 GB | ||
| EGAF00008090729 | fastq.gz | 1.8 GB | ||
| EGAF00008090730 | fastq.gz | 1.8 GB | ||
| EGAF00008090731 | fastq.gz | 2.3 GB | ||
| EGAF00008090732 | fastq.gz | 2.3 GB | ||
| EGAF00008090733 | fastq.gz | 2.2 GB | ||
| EGAF00008090734 | fastq.gz | 2.2 GB | ||
| EGAF00008090735 | fastq.gz | 2.5 GB | ||
| EGAF00008090736 | fastq.gz | 2.5 GB | ||
| EGAF00008090737 | fastq.gz | 22.9 GB | ||
| EGAF00008090738 | fastq.gz | 24.2 GB | ||
| EGAF00008090739 | fastq.gz | 22.3 GB | ||
| EGAF00008090740 | fastq.gz | 23.6 GB | ||
| EGAF00008090741 | fastq.gz | 20.4 GB | ||
| EGAF00008090742 | fastq.gz | 21.7 GB | ||
| EGAF00008090743 | fastq.gz | 28.3 GB | ||
| EGAF00008090744 | fastq.gz | 29.5 GB | ||
| EGAF00008090745 | fastq.gz | 17.2 GB | ||
| EGAF00008090746 | fastq.gz | 18.4 GB | ||
| EGAF00008090747 | fastq.gz | 22.4 GB | ||
| EGAF00008090748 | fastq.gz | 23.8 GB | ||
| EGAF00008090749 | fastq.gz | 19.1 GB | ||
| EGAF00008090750 | fastq.gz | 20.6 GB | ||
| EGAF00008090751 | fastq.gz | 17.4 GB | ||
| EGAF00008090752 | fastq.gz | 18.5 GB | ||
| EGAF00008090753 | fastq.gz | 1.9 GB | ||
| EGAF00008090754 | fastq.gz | 1.9 GB | ||
| EGAF00008090755 | fastq.gz | 2.1 GB | ||
| EGAF00008090756 | fastq.gz | 2.2 GB | ||
| EGAF00008090757 | fastq.gz | 2.3 GB | ||
| EGAF00008090758 | fastq.gz | 2.3 GB | ||
| EGAF00008090759 | fastq.gz | 2.0 GB | ||
| EGAF00008090760 | fastq.gz | 2.0 GB | ||
| EGAF00008090761 | fastq.gz | 2.0 GB | ||
| EGAF00008090762 | fastq.gz | 2.1 GB | ||
| EGAF00008090763 | fastq.gz | 2.1 GB | ||
| EGAF00008090764 | fastq.gz | 2.1 GB | ||
| EGAF00008090765 | fastq.gz | 2.2 GB | ||
| EGAF00008090766 | fastq.gz | 2.2 GB | ||
| EGAF00008090767 | fastq.gz | 1.9 GB | ||
| EGAF00008090768 | fastq.gz | 1.9 GB | ||
| EGAF00008090769 | fastq.gz | 22.4 GB | ||
| EGAF00008090770 | fastq.gz | 23.6 GB | ||
| EGAF00008090771 | fastq.gz | 18.7 GB | ||
| EGAF00008090772 | fastq.gz | 19.9 GB | ||
| EGAF00008090773 | fastq.gz | 20.0 GB | ||
| EGAF00008090774 | fastq.gz | 21.1 GB | ||
| EGAF00008090775 | fastq.gz | 20.7 GB | ||
| EGAF00008090776 | fastq.gz | 21.8 GB | ||
| EGAF00008090777 | fastq.gz | 16.1 GB | ||
| EGAF00008090778 | fastq.gz | 17.5 GB | ||
| EGAF00008090779 | fastq.gz | 22.3 GB | ||
| EGAF00008090780 | fastq.gz | 23.9 GB | ||
| EGAF00008090781 | fastq.gz | 23.6 GB | ||
| EGAF00008090782 | fastq.gz | 24.8 GB | ||
| EGAF00008090783 | fastq.gz | 22.5 GB | ||
| EGAF00008090784 | fastq.gz | 23.2 GB | ||
| EGAF00008090785 | fastq.gz | 2.6 GB | ||
| EGAF00008090786 | fastq.gz | 2.7 GB | ||
| EGAF00008090787 | fastq.gz | 2.5 GB | ||
| EGAF00008090788 | fastq.gz | 2.5 GB | ||
| EGAF00008090789 | fastq.gz | 2.4 GB | ||
| EGAF00008090790 | fastq.gz | 2.4 GB | ||
| EGAF00008090791 | fastq.gz | 2.1 GB | ||
| EGAF00008090792 | fastq.gz | 2.1 GB | ||
| EGAF00008090793 | fastq.gz | 1.9 GB | ||
| EGAF00008090794 | fastq.gz | 1.9 GB | ||
| EGAF00008090795 | fastq.gz | 2.4 GB | ||
| EGAF00008090796 | fastq.gz | 2.5 GB | ||
| EGAF00008090797 | fastq.gz | 2.4 GB | ||
| EGAF00008090798 | fastq.gz | 2.4 GB | ||
| EGAF00008090799 | fastq.gz | 2.6 GB | ||
| EGAF00008090800 | fastq.gz | 2.6 GB | ||
| EGAF00008090801 | fastq.gz | 20.5 GB | ||
| EGAF00008090802 | fastq.gz | 21.7 GB | ||
| EGAF00008090803 | fastq.gz | 18.4 GB | ||
| EGAF00008090804 | fastq.gz | 19.9 GB | ||
| EGAF00008090805 | fastq.gz | 18.6 GB | ||
| EGAF00008090806 | fastq.gz | 19.8 GB | ||
| EGAF00008090807 | fastq.gz | 19.5 GB | ||
| EGAF00008090808 | fastq.gz | 20.4 GB | ||
| EGAF00008090809 | fastq.gz | 19.2 GB | ||
| EGAF00008090810 | fastq.gz | 20.6 GB | ||
| EGAF00008090811 | fastq.gz | 18.4 GB | ||
| EGAF00008090812 | fastq.gz | 19.8 GB | ||
| EGAF00008090813 | fastq.gz | 20.9 GB | ||
| EGAF00008090814 | fastq.gz | 22.6 GB | ||
| EGAF00008090815 | fastq.gz | 19.3 GB | ||
| EGAF00008090816 | fastq.gz | 20.4 GB | ||
| EGAF00008090817 | fastq.gz | 2.2 GB | ||
| EGAF00008090818 | fastq.gz | 2.2 GB | ||
| EGAF00008090819 | fastq.gz | 2.1 GB | ||
| EGAF00008090820 | fastq.gz | 2.1 GB | ||
| EGAF00008090821 | fastq.gz | 2.1 GB | ||
| EGAF00008090822 | fastq.gz | 2.1 GB | ||
| EGAF00008090823 | fastq.gz | 1.7 GB | ||
| EGAF00008090824 | fastq.gz | 1.7 GB | ||
| EGAF00008090825 | fastq.gz | 1.7 GB | ||
| EGAF00008090826 | fastq.gz | 1.7 GB | ||
| EGAF00008090827 | fastq.gz | 1.9 GB | ||
| EGAF00008090828 | fastq.gz | 1.9 GB | ||
| EGAF00008090829 | fastq.gz | 1.7 GB | ||
| EGAF00008090830 | fastq.gz | 1.7 GB | ||
| EGAF00008090831 | fastq.gz | 2.0 GB | ||
| EGAF00008090832 | fastq.gz | 2.0 GB | ||
| EGAF00008090833 | fastq.gz | 22.4 GB | ||
| EGAF00008090834 | fastq.gz | 24.0 GB | ||
| EGAF00008090835 | fastq.gz | 17.9 GB | ||
| EGAF00008090836 | fastq.gz | 19.4 GB | ||
| EGAF00008090837 | fastq.gz | 19.3 GB | ||
| EGAF00008090838 | fastq.gz | 20.7 GB | ||
| EGAF00008090839 | fastq.gz | 21.8 GB | ||
| EGAF00008090840 | fastq.gz | 23.4 GB | ||
| EGAF00008090841 | fastq.gz | 19.4 GB | ||
| EGAF00008090842 | fastq.gz | 20.9 GB | ||
| EGAF00008090843 | fastq.gz | 21.2 GB | ||
| EGAF00008090844 | fastq.gz | 22.9 GB | ||
| EGAF00008090845 | fastq.gz | 21.8 GB | ||
| EGAF00008090846 | fastq.gz | 23.5 GB | ||
| EGAF00008090847 | fastq.gz | 21.4 GB | ||
| EGAF00008090848 | fastq.gz | 22.5 GB | ||
| EGAF00008090849 | fastq.gz | 2.1 GB | ||
| EGAF00008090850 | fastq.gz | 2.1 GB | ||
| EGAF00008090851 | fastq.gz | 2.1 GB | ||
| EGAF00008090852 | fastq.gz | 2.1 GB | ||
| EGAF00008090853 | fastq.gz | 2.1 GB | ||
| EGAF00008090854 | fastq.gz | 2.1 GB | ||
| EGAF00008090855 | fastq.gz | 1.8 GB | ||
| EGAF00008090856 | fastq.gz | 1.8 GB | ||
| EGAF00008090857 | fastq.gz | 1.9 GB | ||
| EGAF00008090858 | fastq.gz | 1.9 GB | ||
| EGAF00008090859 | fastq.gz | 2.1 GB | ||
| EGAF00008090860 | fastq.gz | 2.1 GB | ||
| EGAF00008090861 | fastq.gz | 2.0 GB | ||
| EGAF00008090862 | fastq.gz | 2.1 GB | ||
| EGAF00008090863 | fastq.gz | 2.1 GB | ||
| EGAF00008090864 | fastq.gz | 2.1 GB | ||
| EGAF00008090865 | fastq.gz | 1.6 GB | ||
| EGAF00008090866 | fastq.gz | 3.6 GB | ||
| EGAF00008090867 | fastq.gz | 7.3 GB | ||
| EGAF00008090868 | fastq.gz | 7.3 GB | ||
| EGAF00008090869 | fastq.gz | 3.1 GB | ||
| EGAF00008090870 | fastq.gz | 3.3 GB | ||
| EGAF00008090871 | fastq.gz | 54.3 GB | ||
| EGAF00008090872 | fastq.gz | 45.1 GB | ||
| EGAF00008090873 | fastq.gz | 1.7 GB | ||
| EGAF00008090874 | fastq.gz | 4.0 GB | ||
| EGAF00008090875 | fastq.gz | 8.0 GB | ||
| EGAF00008090876 | fastq.gz | 8.2 GB | ||
| EGAF00008090877 | fastq.gz | 3.4 GB | ||
| EGAF00008090878 | fastq.gz | 3.6 GB | ||
| EGAF00008090879 | fastq.gz | 62.0 GB | ||
| EGAF00008090880 | fastq.gz | 49.6 GB | ||
| EGAF00008090881 | fastq.gz | 1.8 GB | ||
| EGAF00008090882 | fastq.gz | 4.1 GB | ||
| EGAF00008090883 | fastq.gz | 8.2 GB | ||
| EGAF00008090884 | fastq.gz | 8.3 GB | ||
| EGAF00008090885 | fastq.gz | 3.6 GB | ||
| EGAF00008090886 | fastq.gz | 3.7 GB | ||
| EGAF00008090887 | fastq.gz | 64.7 GB | ||
| EGAF00008090888 | fastq.gz | 52.4 GB | ||
| EGAF00008090889 | fastq.gz | 1.9 GB | ||
| EGAF00008090890 | fastq.gz | 4.4 GB | ||
| EGAF00008090891 | fastq.gz | 8.7 GB | ||
| EGAF00008090892 | fastq.gz | 8.7 GB | ||
| EGAF00008090893 | fastq.gz | 3.5 GB | ||
| EGAF00008090894 | fastq.gz | 3.7 GB | ||
| EGAF00008090895 | fastq.gz | 60.4 GB | ||
| EGAF00008090896 | fastq.gz | 49.2 GB | ||
| EGAF00008090897 | fastq.gz | 1.6 GB | ||
| EGAF00008090898 | fastq.gz | 3.7 GB | ||
| EGAF00008090899 | fastq.gz | 7.5 GB | ||
| EGAF00008090900 | fastq.gz | 7.6 GB | ||
| EGAF00008090901 | fastq.gz | 3.5 GB | ||
| EGAF00008090902 | fastq.gz | 3.4 GB | ||
| EGAF00008090903 | fastq.gz | 57.5 GB | ||
| EGAF00008090904 | fastq.gz | 46.8 GB | ||
| 232 Files (3.0 TB) | ||||