| A | B | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | AA | AB | AC | AD | AE | AF | AG | AH | AI | AJ | AK | AL | AM | AN | AO | AP | |
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1 | curation_date | cohort | age_min | age_max | age_units | number_subjects | tissue_type | tissue_type_term_id | method | response_component | is_model | response_behavior_type | response_behavior | comparison | baseline_time_event | time_point | time_point_units | exposure_material | exposure_material_id | exposure_process | disease_name | disease_stage | publication_reference_id | publication_date | publication_reference_url | signature_source | signature_source_url | comments | curator_comments | ||||||||||
7 | descriptive text on Dashboard | curation date (YYYY-MM-DD) | cohort - any characteristics of the population(s) studied, plus whether the result was taken from a subgroup of the broader cohort tested. | age_min - age of youngest subject including both cases and controls | age_max - age of oldest subject including both case and controls | age units | number of subjects - count of case plus control subjects used in the measurement. | tissue type | Cell Ontology ID of tissue | method - primary experimental method used to measure the response | response component | signature was derived from a computational model | response behavior type | response behavior (direction, correlation type etc.) | comparison (affected vs control, correlated variable, time vs baseline event) | baseline time event | time point relative to baseline event at which response was measured | time point units | exposure material (pathogen name) | exposure material | exposure process - method by which immune exposure occurred | disease name | disease stage - reported disease stage(s) of affected subjects | publication reference (PMID, bioRxiv etc) | print publication date or posted date (YYYY-MM-DD) | publication URL | signature source - figure, table or text section | signature source url | comments and additional details | curator comments | |||||||||
8 | vocabulary, separator | YYYY-MM-DD | free text | number | number | choose from list | number | As reported. Only one entry allowed. | Choose from list or lookup Cell Ontology code | Choose from list. Only one entry expected. You can add new methods. | Gene or protein symbols can be separted with commas, spaces, or semicolons. Cell types or other names must be separated using semicolons. | Y/N | Choose from list. Only one entry allowed. | Choose from list. Only one entry allowed. Add new behaviors if required. | Free text. Use "vs" rather than a dash to separate comparison terms (A vs B). Separate multiple comparison entries with semicolons (A vs B; C vs D). | Free text. Use "none" if no time was reported. | Number. Use "none" if no time was reported. | Choose from list. Lowercase only | free text | Choose from list or use format ncbi_taxid:2697049 | Choose from list. Enter new process if needed. | free text | free text | type:id | YYYY-MM-DD | The URL only, not any associated display text. | Free text. Up to two entries, separated by semicolons | The URL only, not any associated display text. Up to two entries, separated by semicolons | Free text, limit of 255 characters | Free text, no limit | |||||||||
9 | Additional information for curators | Any characteristics of the population(s) studied, besides age. Example: Hong Kong, Atlanta Also report if the result was limited to a subgroup of the tested cohort, e.g. - subjects suffering adverse events - particular threshold levels of antibody titer level - based on a receiving a particular treatment | Include both case/affected and control subjects | Include both case/affected and control subjects | hours, days, months, years | Often differs by signature within a publication. If number of subjects for a particular signature is not clear in text, use total for cohort. | The parent tissue of the response components. Report multiple tissues in different rows. For cell-type results, the tissue is often PBMCs. For gene expression, the tissue might be a particular cell-type. | If there is no matching cell type in the pulldown list, the curator can try to look up a matching term in the Cell Ontology. | The primary experimental method used to measure the response, e.g. RNA-seq, CyTOF, CITE-seq. | The entities whose response is being measured. Please copy symbols and names exactly as reported in the publication - except spell out greek letters. For cell types, this includes all markers. Examples for a signature with three cell types: T cells CD3+/CD4+/Ki67+; T cells CD3+/CD8+/Ki67+ CD86+ myeloid dendritic cell (DC); CD86+ monocyte | Were the response components chosen using a classification or other model-building strategy? | The type of change being measured, e.g. gene expression, cell-type frequency. | Common values in the pulldown list: - up, down - positively correlated, negatively correlated, correlated - positively predictive, negatively predictive, predictive | Comparisons are typically between two groups, or may reflect a correlation of the response component with some other measured variable. Only report significant results. Examples: - severe COVID-19 cases vs healthy - moderate COVID-19 cases vs healthy; severe COVID-19 cases vs healthy - interferon-stimulated genes in COVID-19 vs healthy - bacterial DNA levels across COVID-19 and healthy subjects Include time comparison if relevant, e.g. 7d vs 0d, where the times are relative to the baseline reference event time (0d). Times before baseline event can be entered as negative numbers, e.g. days before vaccination (7d vs -1d). **Please be concise.** | The reference event from which the time of the experimental response is measured, e.g. hospital admission, onset of symptoms | Time point when response was measured, if available. | days, months etc. | Enter the pathogen or vaccine underlying the immune exposure as reported in the publication or use the NCBI Taxonomy term name | Exposure material NCBI taxonomy ID. NCBI Taxonomy ID of pathogen causing disease. Use format id_type:id, e.g. ncbi_taxid:2697049 | Method by which exposure to pathogen occurred | Reported disease stage(s) of affected subjects in all comparisons entered in row (not including control subjects). We will not attempt to match these directly with the comparisons. | Enter an official identifier for the article curated, using format type:id | Partial dates are OK, e.g. YYYY-MM | URL of the article curated. Primary source publication (e.g. Cell, Nature) preferred over PMC | Figure, table number etc. where the signature was found, usually the original primary publication rather than PMC | Link to figure, table number etc. where the signature was found, usually the original primary publication rather than PMC. Please enter the URL directly, not as a hyperlinked name. | Details clarifying any aspect of the signature not captured in other fields | Questions or notes for further examination from curator. Will not appear in Dashboard | |||||||||||
10 | 2021-03-31 | Atlanta | 23 | 94 | years | 36 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | phospho-CyTOF | plasmablasts (CD3−, CD20−, CD56−, HLA-DR+, CD14−, CD16−, CD11c−, CD123−, CD19lo, CD27hi, and CD38hi); effector cd8 T cells(CD3+, CD8+, CD38hi, and HLA-DRhi) | N | cell-type frequency | up | pooled moderate, severe, ICU, and convalescent COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU, convalescent (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1B | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | HLA-DR+/++ is noted specifically for these two cell types | To explain y-axis, found elsewhere that "CD45 is expressed on all leucocytes". | |||||||||||
11 | 2021-03-31 | Hong Kong | 18 | 80 | years | 99 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | phospho-CyTOF | plasmablasts (CD3−, CD20−, CD56−, HLA-DR+, CD14−, CD16−, CD11c−, CD123−, CD19lo, CD27hi, and CD38hi); effector cd8 T cells(CD3+, CD8+, CD38hi, and HLA-DRhi) | N | cell-type frequency | up | pooled moderate, severe, ICU, and convalescent COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU, convalescent (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1B | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | HLA-DR+/++ is noted specifically for these two cell types | To explain y-axis, found elsewhere that "CD45 is expressed on all leucocytes". | |||||||||||
12 | 2021-03-31 | Atlanta | 23 | 94 | years | 36 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | phospho-CyTOF | plasmacytoid dendric cell (CD3−, CD20−, CD56−, HLA-DR+, CD14−, CD16−, CD11c−, and CD123+) | N | cell-type frequency | down | pooled moderate, severe, ICU, and convalescent COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU, convalescent (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1C | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
13 | 2021-03-31 | Hong Kong | 18 | 80 | years | 99 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | phospho-CyTOF | plasmacytoid dendric cell (CD3−, CD20−, CD56−, HLA-DR+, CD14−, CD16−, CD11c−, and CD123+) | N | cell-type frequency | down | pooled moderate, severe, ICU, and convalescent COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU, convalescent (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1C | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
14 | 2021-03-31 | Atlanta | 23 | 94 | years | 36 | plasmacytoid dendric cell | CL_0000784 (plasmacytoid dendric cell) | phospho-CyTOF | S6 | N | cytokine/protein level | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1D | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | "reduced expression of phosphorylated RPS6, a canonical target of mTOR activation in pDCs...known to mediate the production of interferon-α in pDCs, ... suggests pDCs may be impaired in their capacity to produce IFN-α in COVID-19 patients" | ||||||||||||
15 | 2021-03-31 | Hong Kong | 18 | 80 | years | 99 | plasmacytoid dendric cell | CL_0000784 (plasmacytoid dendric cell) | phospho-CyTOF | S6 | N | cytokine/protein level | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1D | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | "reduced expression of phosphorylated RPS6, a canonical target of mTOR activation in pDCs...known to mediate the production of interferon-α in pDCs, ... suggests pDCs may be impaired in their capacity to produce IFN-α in COVID-19 patients" | ||||||||||||
16 | 2021-03-31 | Atlanta | 23 | 94 | years | 36 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | phospho-CyTOF | IkappaBalpha | N | cytokine/protein level | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1E | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | NFKB Inhibitor Alpha (NFKBIA gene) | ||||||||||||
17 | 2021-03-31 | Hong Kong | 18 | 80 | years | 99 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | phospho-CyTOF | IkappaBalpha | N | cytokine/protein level | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 1E | https://science.sciencemag.org/content/sci/369/6508/1210/F1.large.jpg?width=800&height=600&carousel=1 | NFKB Inhibitor Alpha (NFKBIA gene) | ||||||||||||
18 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | plasmacytoid dendric cell | CL_0000784 (plasmacytoid dendric cell) | flow cytometry | IFN-alpha | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2A | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
19 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | plasmacytoid dendric cell | CL_0000784 (plasmacytoid dendric cell) | flow cytometry | TNF-alpha | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2A | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
20 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | plasmacytoid dendric cell | CL_0000784 (plasmacytoid dendric cell) | flow cytometry | IFN-alpha + TNF-alpha | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2A | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
21 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IL-6 | N | cell-type frequency | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
22 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | TNF-alpha | N | cell-type frequency | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
23 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IFN-alpha + TNF-alpha | N | cell-type frequency | down | pooled moderate, severe, and ICU COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
24 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IL-6 | N | cell-type frequency | down | bacterial stimulated, pooled moderate, severe, and ICU COVID-19 vs bacterial stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
25 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | TNF-alpha | N | cell-type frequency | down | bacterial stimulated, pooled moderate, severe, and ICU COVID-19 vs bacterial stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
26 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IFN-alpha + TNF-alpha | N | cell-type frequency | down | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | ||||||||||||||
27 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IL-6 | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
28 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | TNF-alpha | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
29 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | IFN-alpha + TNF-alpha | N | cell-type frequency | down | viral stimulated, pooled moderate, severe, and ICU COVID-19 vs viral stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2B | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
30 | 2021-03-31 | Atlanta | 23 | 94 | years | 31 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | flow cytometry | p65(Ser529) | N | cytokine/protein level | down | bacterial stimulated, pooled moderate, severe, and ICU COVID-19 vs bacterial stimulated healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU (pooled) | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 2C | https://science.sciencemag.org/content/sci/369/6508/1210/F2.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
31 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | IL-6 | N | cytokine/protein level | up | moderate COVID-19 vs healthy; ICU vs moderate COVID-19; ICU vs severe COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
32 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | TNF-alpha | N | cytokine/protein level | up | moderate COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
33 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | MCP-3 | N | cytokine/protein level | up | ICU vs moderate COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
34 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | OSM | N | cytokine/protein level | up | moderate COVID-19 vs healthy; severe vs moderate COVID-19; ICU vs moderate COVID-19; ICU vs severe COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | noted as correlated with clinical severity | ||||||||||||
35 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | TNFSF14 | N | cytokine/protein level | up | moderate COVID-19 vs healthy; severe vs moderate COVID-19; ICU vs moderate COVID-19; ICU vs severe COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | noted as correlated with clinical severity | ||||||||||||
36 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | EN-RAGE | N | cytokine/protein level | up | severe vs moderate COVID-19; ICU vs moderate COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 3 | https://science.sciencemag.org/content/sci/369/6508/1210/F3.large.jpg?width=800&height=600&carousel=1 | noted as correlated with clinical severity | ||||||||||||
37 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | CXCL10 | N | cytokine/protein level | up | moderate COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Fig S6B | https://science.sciencemag.org/content/369/6508/1210/suppl/DC1 | |||||||||||||
38 | 2021-03-31 | Atlanta | 23 | 94 | years | 34 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | RNA-seq | TAP1 IFITM1 IFIT2 STAT1 IFIT1 IFIT3 DDX60 IFIH1 DDX58 OASL PML RSAD2 SP100 HESX1 HERC5 USP18 EIF2AK2 PLSCR1 OAS1 IRF7 SERPING1 PARP9 MX2 IFI27 APOBEC3A OAS3 SIGLEC1 ATF3 C1QB BCL2A1 IFNGR2 MGST1 HLX | N | gene expression | up | interferon-stimulated genes in COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 4G | https://science.sciencemag.org/content/sci/369/6508/1210/F4.large.jpg?width=800&height=600&carousel=1 | expanded cohort of 17 covid, 17 healthy, no ages given. | ||||||||||||
39 | 2021-03-31 | Atlanta | 23 | 94 | years | 34 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | phospho-CyTOF | HLA-DR | N | cytokine/protein level | down | moderate COVID-19 vs healthy; severe COVID-19 vs healthy; severe vs moderate COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 5B | https://science.sciencemag.org/content/sci/369/6508/1210/F5.large.jpg?width=800&height=600&carousel=1 | Drawn from same cohort as Fig 1, but not all samples. | ||||||||||||
40 | 2021-03-31 | Hong Kong | 18 | 80 | years | 55 | myeloid dendritic cell | CL_0000782 (myeloid dendritic cell) | phospho-CyTOF | HLA-DR | N | cytokine/protein level | down | moderate COVID-19 vs healthy; severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 5B | https://science.sciencemag.org/content/sci/369/6508/1210/F5.large.jpg?width=800&height=600&carousel=1 | Drawn from same cohort as Fig 1, but not all samples. | ||||||||||||
41 | 2021-03-31 | Atlanta | 23 | 94 | years | 34 | classical monocyte | CL:0000860 (classical monocyte) | phospho-CyTOF | HLA-DR | N | cytokine/protein level | down | severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 5B | https://science.sciencemag.org/content/sci/369/6508/1210/F5.large.jpg?width=800&height=600&carousel=1 | Drawn from same cohort as Fig 1, but not all samples. | ||||||||||||
42 | 2021-03-31 | Hong Kong | 18 | 80 | years | 55 | classical monocyte | CL:0000860 (classical monocyte) | phospho-CyTOF | HLA-DR | N | cytokine/protein level | down | severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 5B | https://science.sciencemag.org/content/sci/369/6508/1210/F5.large.jpg?width=800&height=600&carousel=1 | Drawn from same cohort as Fig 1, but not all samples. | ||||||||||||
43 | 2021-03-31 | Atlanta | 23 | 94 | years | 34 | peripheral blood mononuclear cell | CL_2000001 (peripheral blood mononuclear cell) | RNA-seq | S100A12 | N | gene expression | up | severe COVID-19 vs healthy; ICU COVID-19 vs healthy; severe vs moderate COVID-19; ICU vs moderate COVID-19 | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 5C | https://science.sciencemag.org/content/sci/369/6508/1210/F5.large.jpg?width=800&height=600&carousel=1 | |||||||||||||
44 | 2021-03-31 | Atlanta | 23 | 94 | years | 64 | blood plasma | UBERON_0001969 (blood plasma) | Olink multiplex inflammation panel | IL-6, TNF, MCP-3, EN-RAGE, OSM, TNFSF14 | N | cytokine/protein level | positively correlated | bacterial DNA levels across COVID-19 and healthy subjects | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | healthy, moderate, severe, ICU | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Fig 6C | https://science.sciencemag.org/content/sci/369/6508/1210/F6.large.jpg?width=800&height=600&carousel=1 | Spearman’s correlation between cytokines and bacterial DNA measured in plasma | cohort and number of subjects taken from earlier blood plasma entry, but can't be sure | |||||||||||
45 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | B cell | CL_0000236 (B cell) | CITE-seq | HLA-DRB5, MTRNR2L8, CD27, S100A4, CCDC88A, ABCA6, MT-ND3, ACTG1, S100A6, MT-CO1, HSPA8, HLA-DPA1, MT-CYB, VOPP1, TRAC, RHOC, RAB11FIP1, RGS1, RPS14, MT-ATP6, AHNAK, RGS10, RGS2, ARL4C, SMARCB1, RNH1, GPR183, VIM, YPEL5, MT-CO3, COTL1, EEF2, ANXA11, LGALS1, GABARAPL2, HLA-DPB1, DYNLL1, SRGN, MT-ND4, ANXA2, MT-ND2, RPL6, CYB561A3, EIF3L, MBD2, LITAF, RPL4, UBE2M, BRK1, CLIC1, MT-ND1, GAPDH, RPS7, TOMM7, GNAS, TNFRSF13B, MT-ATP8 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
46 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | B cell | CL_0000236 (B cell) | CITE-seq | RPS10, H3F3B, ELF1, COBLL1, SF3B1, STK17A, DUSP22, SRRM2, IFI16, DDX5, SRSF10, AFF3, ADAM28, SELL, EIF5A, MACF1, LYST, RIPOR2, LTB, CD22, HLA-C, ZNF92, ILF3-DT, CNOT1, HSH2D, CCNL1, TRA2A, EIF1B, SP110, P2RX5, ATP2B1, REL, PLCG2, SNX29, DDX6, CSNK1G3, VPS13C, HNRNPH1, ATF7IP, HLA-DQB1, ITGA4, BANK1, SP140L, SNHG9, TYMP, IRF8, BST2, USP15, TMEM156, IL4R, ETS1, PPM1K, DDX21, ITPR1, JUN, HLA-A, COL19A1, MYC, MBNL1, HIF1A, TP53INP1, CXCR4, BCL7A, MEF2C, DDX24, HLA-DRB1, PIK3IP1, PRPF4B, MDM4, SMCHD1, UTRN, TCOF1, TAPT1, IFITM2, MTRNR2L12, SMAP2, FCHSD2, SAMD9, TRA2B, HIST1H2AC, PARP14, APLP2, SP100, ADAR, STAT1, LINC00926, HIST1H1C, HIST1H1E, CLEC2D, ISG20, CYBB, MX2, RNF213, RHOB, S100A9, IRF7, S100A8, TMEM123, BIRC3, SAMD9L, TSC22D3, AC007952.4, BTG1, ZFP36L2, AC245014.3, H1FX, LY6E, TRIM22, EPSTI1, EIF2AK2, IFIT3, IFI6, JCHAIN, MX1, XAF1, ISG15, TXNIP, IFI44L | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
47 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | basophil | CL_0000767 (basophil) | CITE-seq | HBB, KLF2, RPL10, MT-ND3, RPL13A, RPLP1, RPS14, RPL23A, RPS27A | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
48 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | basophil | CL_0000767 (basophil) | CITE-seq | RRBP1, OAS3, CCZ1, SPATS2L, ACADVL, USP18, ADAR, PLSCR1, MCM4, ZFC3H1, EIF5A, OAS1, SMC1A, DDX11, PAXBP1, MX2, HNRNPU, IRF7, LAP3, HSPD1, TYMP, IFIT3, IFITM1, PRPF4B, YWHAE, HIST1H1C, HERC5, SP100, HIST2H2AC, SMCHD1, STAT1, LGALS1, EIF2AK2, HIST1H1D, MIR4435-2HG, HIST1H1B, IFI44, EPSTI1, XAF1, IFITM3, IFI6, HIST1H1E, IFI44L, ISG15, MX1, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
49 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster 1) | CL_0000860 (classical monocyte) | CITE-seq | TMEM176B, TMEM176A, RPS4Y1, HLA-DPB1, DDX3Y, RPL27A, RPL23, MT-ND3, HLA-DQA2, HLA-DPA1, RPL7, RPS3A, TXNIP, RPLP1, RPS26, EEF1B2, AC007952.4, RPL10, RPL5, CYP27A1, RBP7, EEF1A1, CYP1B1, GIMAP7, RPL13A, NAP1L1, ZFAS1, RPS20, MTRNR2L1, TPT1, RPL9, RPL21, RPS11, CCL3, RPL15, EIF3L, RPL38, TOMM7, RPS27, RPS2, BRI3, RPL23A, RPL3, RPLP0, EEF2, EIF3E, IER3, EIF4B, RPL4, AC103591.3, RPS24, KLF4, RPL29, P2RY13, RPS6, JAML, RPS14, ALDH1A1, RPL6, SNHG8, KCTD12, MT-ND4L, CCR2, RPL10A, RPS8, FRAT2, SEC11A, LGALS2, HLA-DRA, RPS27A, UBA52, MT-ND2, IL13RA1, RPL13, RPL7A, RPL27, RPS13, KIAA1551, CD36, HNMT, LSM6 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
50 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster 1) | CL_0000860 (classical monocyte) | CITE-seq | TRA2B, S100A9, AFF4, UPP1, EIF5A, CR1, RSRC2, WARS, NR4A1, OASL, ETS2, TRIM22, ACTB, SLC25A37, LGALS1, SGK1, IFIT3, MX2, HIST1H1C, SAMSN1, SECTM1, SPAG9, GRASP, ADAR, MBOAT7, TPM3, SH3BGRL3, H2AFJ, EMP3, ACSL1, CSRNP1, OAS3, FMNL1, CBX6, BST2, SAMD9L, GRN, UBE2L6, FCGR1A, CFL1, NAPA, CTNNB1, PKM, LILRB2, CD300E, CEBPB, OAS1, S100A10, MXD1, MIR22HG, CXCL2, SLC11A1, PLSCR1, BLVRA, SPI1, EAF1, TLE3, ID1, PPDPF, TPM4, DNTTIP2, H1FX, HLA-C, EIF2AK2, PARP14, ZBTB43, EMP1, IRF7, STAT1, TNNT1, CD14, GBP1, HIST1H1D, CTSD, RNF213, KLF10, PSME2, AC020656.1, CFD, SIGLEC1, S100A8, NKG7, RGCC, NAMPT, PLAUR, HBEGF, MIDN, MX1, SELL, MAP3K8, CD63, XAF1, HIF1A, IFI44, TIMP1, XIST, RNASE2, DUSP2, EGR1, JCHAIN, TYMP, ID2, MAFB, HIST1H1E, EPSTI1, PLAC8, ISG15, CLU, G0S2, MT2A, IFITM2, APOBEC3A, LMNA, IFI6, IFI44L, LY6E, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
51 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster 2) | CL_0000860 (classical monocyte) | CITE-seq | RPS4Y1, TMEM176B, TMEM176A, MT-ND3, RPL27A, RPS26, RPL23, HLA-DQA2, LGALS2, RPL38, TPT1, AC007952.4, RPS20, RHOB, RPL21, EEF1B2, DDX3Y, RPS3A, RPS27, TOMM7, RPL7, RPL13A, IER2, RPL10, RPL3, SMIM25, MTRNR2L1, RPL9, RPL23A, RPL5, KLF4, RPLP1, GIMAP7, RPS11, RPS29, EEF1A1, RPS6, RPS27A, FGL2, RPS2, RPL36A, DUSP1, RPL37, JUNB, RPL34, BRI3, LST1, RPL37A, EIF3L, RPL4, RPL24, RPL10A, LTA4H, RPL31, CYP27A1, SERP1, ALDH1A1, RPL15, RPL26, RPL6, GIMAP1, RPS14 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
52 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster 2) | CL_0000860 (classical monocyte) | CITE-seq | GPRIN3, PSMB3, UPP1, OASL, RHOG, EMP3, IFIT3, RRBP1, SIGLEC1, RSAD2, ETS2, LGALS9, EZR, SUPT16H, CFL1, CEMIP2, S100A10, TLE3, AFF4, IFITM1, FCGR1A, TNNT1, LDHA, ZBTB43, DYNC1H1, BST2, TPM4, SLC25A36, SH3BGRL3, PDE4B, ZEB2, EML4, ACTB, PSMB10, HBEGF, TPM3, MIR22HG, GAPDH, PLSCR1, PNPLA8, DDX21, RNF19A, MXD1, EIF2AK2, IRF7, SELL, CTSD, SMCHD1, NAPA, PPDPF, SP100, BCLAF1, PFN1, PDE4D, SLC11A1, PIK3R1, PKM, HLA-C, SYNE2, STAT1, TIMP1, SAMSN1, PSME2, PLAUR, DNTTIP2, RNF213, H1FX, XIST, RNASE2, S100A8, HIST1H1C, IFITM2, IL32, JCHAIN, LGALS1, MX1, HIF1A, IFI44, ID2, CD63, CLU, MAP3K8, EPSTI1, HIST1H1D, LMNA, XAF1, TYMP, ISG15, MT2A, APOBEC3A, IFI6, HIST1H1E, IFI44L, LY6E, G0S2, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
53 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster enriched in ISGs) | CL_0000860 (classical monocyte) | CITE-seq | PPBP, PF4, NRGN, CAVIN2, TUBB1, GNG11, CCL5, CXCL8, TUBA4A, GP9, PRKAR2B, ODC1, IER3, TSC22D1, PTCRA, TREML1, IL1B, CCL3, ACRBP, HIST1H2AC, TMEM40, CLEC1B, C2orf88, CLDN5, RUFY1, CMTM5, KIF2A, HLA-DRB5, NCOA4, MYL9, RGS18, TSPAN33, CD9, GRAP2, MPIG6B, PDZK1IP1, RGS10, LIMS1, MTURN, JUND, ITGA2B, SPARC, GNAS, MAP3K7CL, TPM1, F13A1, NAP1L1, PARVB, XIST, VCL, TLN1, TPM4, IER2, BEX3, TGFB1, 43892, PGRMC1, KLF4, NCK2, CTTN, ILK, PDLIM1, PPP1R15A, MAX, AC147651.1, MMD, RAB27B, TAGLN2, CA2, FOSB, SNCA, MMRN1, IRF1, MPP1, OST4, NFKBIA, PNRC1, AP001189.1, CD83, SOD2, CD151, LGALSL, JUN, AC090409.1, ATP2B1-AS1, DAB2, AP003068.2, KLF2, MT-ND3, MT-CO3, HLA-DPB1, Z93241.1, RAB32, ENKUR, GPX4, DMTN, ACTN1, CD226, TMEM176B, ARHGAP6, GNAZ, RAP1B, CALM3, EIF1, BTG1, LINC00877, CALD1, TUBA1C, SNN, MYLK, YWHAH, RPL10, SNAP23, MT-CO1, TMEM140, GUCY1B1, GP1BA, H3F3A, SMOX, CTDSPL, FLNA, C12orf57, PDE5A, NFKBIZ, PTGS1, FTH1, CCL4, DYNLL1, FOS, CDKN2D, MGAT4B, GAS2L1, ARHGAP18, HIST1H2BJ, AC007952.4, MGLL, RNF11, AC020916.1, FERMT3, MT-ND1, GFI1B, LUCAT1, ITGB3, RPS14, LINC00937, VIM-AS1, TUBB4B, KDM6B, MT-ND2, ZCCHC17, ESAM, SH3BGRL2, PTGS2, ENDOD1, NR4A2, TST, FAM110A, RPS4X, TMEM158, ASAP2, JUNB, ALDH1A1, DOK2, RGS2, MFAP3L, LAMTOR1, TAGAP, MEIS1, MT-CYB, SMIM5, INAFM2, SLC40A1, RDH11, DDX3X, PPP1R14A, FAXDC2, ATF3, ORAI1, PRDX6, DUSP1, C19orf33, EGR1, DUSP2, AGPAT1, FRMD4B, ANKRD9, BCL2L1, VDAC3, LAT, HLA-DPA1, TNFSF4, ERV3-1, ANO6, ITGB1, ITGB5, PDGFA, RPLP1, SELP, DNM3, ITM2B, ABCC3, CYP27A1, ABTB1, RPS27A, RGS1, YPEL5, RPS8, HGD, RPLP0, BRK1, RPS3A, SNRPN, WBP2, TNNC2, ARHGAP21, MTPN, MLH3, STON2, FHL1, SSX2IP, RPL5, TOMM7, SVIP, RPL13, HLA-DQB1, RPL6, TRIM58, CD4, HIST1H3H, SULF2, RPL23, TPT1, EIF1B, MYL12A, OAZ1, EEF2, TMSB4X, UBB, CAMTA1, SLA2, HLA-C, MCUR1, SUSD3, C12orf75, HNMT, C9orf16, LDLRAP1, AQP10, THAP2, RPL21, LTBP1, TAL1, HLA-DMB, KLF6, EEF1A1, A1BG, RPL26, ZNF185, RAB37, CENPT, TMEM91, LRBA, NT5M, EEF1D, PFDN5, RPS23, EGFL7, RPS12, TSPOAP1-AS1, PABPC1, TNF, RPL7A, RPL18, TGFB1I1, RPL15, ELOVL7, RPL7, RPL35A, RPA1, RPS11, HSPA6, HLA-E, RPS7, MT-ATP6, AL360012.1, PLA2G12A, ZDHHC1, CDIP1, RPL19, AP000547.3, BAD, SYTL4 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | Cluster enriched in interferon stimulated genes (ISGs). PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
54 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | classical monocyte (cluster enriched in ISGs) | CL_0000860 (classical monocyte) | CITE-seq | S100A6, B2M, HSP90AA1, MYL12B, TMSB10, CYBA, RPS29, RRAGA, PRDX3, UTY, ANXA5, PTPRC, EFHD2, HLA-A, TMBIM6, FAM20A, MAP2K1, CAPN2, CFL1, TNFSF13B, HELZ2, NDUFA12, PSMA7, NT5C2, FLT3, ITGB7, POLR2L, MEF2A, PGAM1, FCGR1A, ERO1A, SAMHD1, PDIA6, RPN2, DECR1, COX7B, NCKAP1L, SPI1, MRPS18C, UNC93B1, NDUFB3, H2AFJ, ROMO1, ANXA6, ST14, TXN, SH3GLB1, ACTR2, SRI, EIF5A, RRBP1, PSMB6, PML, LAPTM4A, IFNGR1, LMAN2, SMAP2, UBE2L6, PSMA3, SAMD4A, DRAP1, TTC39C, SLFN5, STAT2, LITAF, SERPING1, LAP3, LAMP2, STK17B, ZCCHC2, EZR, SNX2, ARF6, DDX58, ATOX1, PSMB3, VPS29, HLX, POMP, PSMA4, TMED9, DDOST, NMI, GNS, PTEN, ANP32A, RPS26, SDHD, ANXA4, SHTN1, B4GALT5, HLA-B, RAB5IF, F5, PTBP3, SP110, BLOC1S1, LMNB1, VNN1, CHMP5, ENO1, PAG1, AQP9, CD164, MNDA, STAT1, COX6C, SAP30, DDX60, LGALS3BP, USP18, NOP10, TCN2, PIM1, 43891, LARP7, DDX60L, NKG7, H2AFY, CALR, CNIH4, MGST3, SPATS2L, PARP9, HIST1H1C, GIMAP4, IFIT2, S100A11, PPIB, TNFSF10, IFNGR2, NAIP, SP100, DBI, S100A10, CD163, GBP1, AC020656.1, LCP1, PHF11, SAMSN1, IFIH1, GM2A, CTSB, CUL1, DTX3L, LGALS9, CTSL, ITGB2, SHISA5, FPR1, HMOX1, RPS4Y1, LILRB2, PIK3AP1, MGST1, SSB, CSGALNACT2, LILRB4, BLVRA, H1FX, TYMP, VCAN, LDHA, LILRA5, PARP14, IRF7, GRN, ANXA2, HERC5, AGFG1, CD53, APLP2, ADAR, ALOX5AP, TMEM123, PLIN2, RNF213, ISG20, CREG1, SULT1A1, SAMD9, IFI35, MAFB, CMPK2, IFITM1, SPTLC2, SAMD9L, TNNT1, TRIM22, OASL, IFI16, CD63, OAS1, MS4A4A, JCHAIN, PLSCR1, HMGB2, ACSL1, PPA1, FKBP5, SIGLEC1, HIST1H1D, LGALS1, BST2, RSAD2, IFIT1, OAS3, EIF2AK2, DDIT4, OAS2, IFI44, MX2, XAF1, CTSD, EPSTI1, HIST1H1E, IFIT3, S100A9, APOBEC3A, MT2A, S100A8, SELL, PLBD1, S100A12, IFITM2, RNASE2, RETN, MX1, IFI44L, LY6E, ISG15, PLAC8, IFI6, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | Cluster enriched in interferon stimulated genes (ISGs). PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
55 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | CD4-positive, alpha-beta T cell | CL_0000624 (CD4-positive, alpha-beta T cell) | CITE-seq | RPS4Y1, ANXA1, RGCC, IER5, RPS26, RPL27A, TNFAIP3, MT-ND3, MT-ND2, DUSP1, RPS20, TOMM7, MT-ND1, RPL13A, NFKBIA, S100A4, RPS11, MT-ATP6, CXCR4, LGALS1, MT-CYB, TPT1, SRGN | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
56 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | CD4-positive, alpha-beta T cell | CL_0000624 (CD4-positive, alpha-beta T cell) | CITE-seq | EIF2AK2, PIK3IP1, SAMHD1, CHD2, MDM4, TNRC6B, ARGLU1, SYNE2, NKTR, MX1, SRRM2, NORAD, IKZF1, IL32, HNRNPU, NFKBIZ, LEF1, TRAT1, PRRC2C, STAT3, PRPF4B, DDX24, MTRNR2L8, ATM, SFPQ, DDX21, IL6ST, PDE3B, OXNAD1, SATB1, GPRIN3, CYLD, LY6E, MTRNR2L12, EPB41, PIM1, HNRNPH1, TRA2B, SMCHD1, PRMT2, ITGA4, TXK, TXNIP, RNF213, DDX6, SELL, STK17B, MBNL1, MYC, RIPOR2, ETS1, XAF1, ARID5B, XIST, BCL2, HIST1H1E, SOCS3, IFI44L, JCHAIN | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
57 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | CD8-positive, alpha-beta T cell | CL_0000625 (CD8-positive, alpha-beta T cell) | CITE-seq | RPS4Y1, IER5, KLRB1, RPL27A, NFKBIA, RPS20, MT-ND1, RPS14, RPS18, FOS, RPS27A, RPL3, RPL10, RPL13A, MT-CYB, RPL21, EEF1B2, RPS3A, DUSP1, RPL7, SERTAD1, JUNB, RPL13, RPS2, MT-ND3, RPS9, LTB, JUND, RPS11, TPT1, RPL29, RPS3, RPL4, RPS12, RGCC, RPL9, RPS6, TOMM7, MT-ND2, RPL23A, RPL10A, IER2, HOPX, RPS19, IFNG, MT-ATP6, RPL19, RPL18, RPS23, RPL34, RPLP2, JUN, RPS26, MT-ND4, RPS8, RPL7A, RPS7, MT-CO1, RPLP0, RPL23, TNFAIP3, NACA, RPL11, GZMK, UBA52, RPLP1, BTG2, MYADM, RPL18A, GADD45B, EEF1A1, RPS5, RPL26 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
58 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | CD8-positive, alpha-beta T cell | CL_0000625 (CD8-positive, alpha-beta T cell) | CITE-seq | PRRC2C, NDUFA13, RBM39, MYO1F, N4BP1, DOCK10, CTSW, IL32, KIAA1109, KLRD1, CAPN2, KLF3, ELF1, MYH9, AKNA, CD2, ARAP2, ATF7IP, APOL6, CEMIP2, EML4, PARP14, PTPN4, DDX17, HNRNPA3, OGA, AKAP13, EPB41, DOCK8, BZW1, IQGAP2, FLNA, MTRNR2L8, SLFN12L, IFI35, WIPF1, SH2D2A, PHF11, PARP8, PDE4D, TYMP, SRRM2, PDE3B, SF3B1, KTN1, BST2, OASL, DTX3L, PYHIN1, ATG2A, ITGA4, TMEM123, S100A11, IFITM2, HNRNPH1, HCLS1, KIAA1551, ZBP1, CEBPZ, IRF9, SYNE1, HNRNPU, GNLY, USP15, LCP1, SAMD3, MACF1, XIST, BTN3A2, RNF125, SYTL2, ATM, VPS13C, DDX24, H1FX, XCL2, RIPOR2, SELL, SLFN5, ALOX5AP, ARID5B, SP110, PLAC8, SAMHD1, PRF1, MBNL1, TRBC1, CLEC2D, SYTL3, SAMSN1, MX2, HIST1H1C, DDX6, PRPF4B, UTRN, ADAR, TRIM22, MYBL1, TRGC2, IFI16, PARP9, PLSCR1, HIST1H1D, HLA-DRB1, GZMB, STAT1, SMCHD1, ETS1, SYNE2, OAS1, SAMD9, SAMD9L, LY6E, IL7R, RNF213, PIK3R1, EPSTI1, IFITM1, IRF7, ISG20, SP100, MT2A, TXNIP, EIF2AK2, HIST1H1E, JCHAIN, MX1, XAF1, IFI6, IFI44L, ISG15 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
59 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | conventional dendritic cell 1 | CL_0000990 (conventional dendritic cell) | CITE-seq | HLA-DQA2, HLA-DRB5, RPS11, PPP1R14B, RPL27A, RPS20, BRI3, HLA-DPA1, HLA-DPB1, MAP2K2, RPL13A, RPL23, RPS14, RPL10, MTRNR2L1, RPS18, MBD2, RPL29, RPL23A, RPS12, RPS6, RPL31, RPL38, RPS3A, RPLP1, RPL13, RPL27, RPLP0, RPS2, RPL7, RPL18A, SPAG7, EEF1B2, RPS23, RPL7A, RPS7, RPL24, RPL3, RPL35, RPS25 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
60 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | conventional dendritic cell 1 | CL_0000990 (conventional dendritic cell) | CITE-seq | SUB1, FNBP1, TPM3, HLA-A, IDH3A, IRF8, SRP14, HSH2D, IFIH1, RHOA, H3F3B, WAS, PLEK, B2M, HNRNPC, GMPR, HLA-B, PSME2, PLSCR1, PARP14, HNRNPU, 44080, MEF2A, TPM4, PDIA3, FCHSD2, SAMD9, SHTN1, NAPA, EFHD2, CNDP2, SEPHS2, PHF11, SSB, USP18, IFI27L2, IFI35, CHMP5, HNRNPA2B1, PTPRC, SMCHD1, DRAP1, DDX21, CALR, CD164, PRPF4B, PARP9, TRIM22, HSP90B1, LCP1, HIST1H1C, PIM3, HLA-DQA1, ADAR, CAP1, MCL1, UBE2L6, IFI16, OAS2, HIST1H1D, BST2, HSPA5, NAMPT, TYMP, HSDL2, IFI44, KLF10, PPA1, LAP3, MX2, SAMD9L, HLA-DRB1, TXNIP, COX5A, PLAC8, EIF2AK2, DDIT4, SP110, STAT1, HIST1H1E, XAF1, IFI6, EPSTI1, IRF7, JCHAIN, IFITM2, IFI44L, LY6E, ISG20, MX1, ISG15, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
61 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | conventional dendritic cell 2 | CL_0000990 (conventional dendritic cell) | CITE-seq | RPS4Y1, HLA-DQA2, CLEC10A, RPL27A, EEF1B2, RPL13A, MS4A6A, RPS20, RPL23, HLA-DPB1, RPS26, RPS11, RPL3, RPS3A, RPL7, RPS18, RPLP0, TOMM7, RPS6, RPL9, RPLP1, RPS14, HLA-DRB5, RPL23A, RPS2, RPL10, RPS27A, TPT1, RPL21, DDX3Y, RPS8, EIF3L, HLA-DPA1, EEF1A1, MT-ND3, RPS23, RPL5, FCER1A, RPL10A, RPL38, RPL13, SEC11A, RPS16, RPL7A, NOP53, RPS3, ZFAS1, RPS24, BRI3, RPL37A, RPL15, RPL6, RPL29, SNHG8, BATF3, RPL18A, EIF3E, RPS7, RPL31, EIF3F, RPS12, RPL27, RPL24, RPS27, RPS5, LST1 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
62 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | conventional dendritic cell 2 | CL_0000990 (conventional dendritic cell) | CITE-seq | SH3BP5, NEU1, MAP3K8, SAMHD1, PSMB9, TPM4, ZYX, IER2, SAMD9, RHOG, TIMP1, PFN1, IFI35, CMPK2, PTP4A2, CD63, DUSP1, GRASP, STK17B, EIF5A, GLIPR2, ADAR, CFD, OAS3, RBM39, ARPC1B, TPM3, CTSD, TRA2B, HLA-DQA1, YBX3, NEAT1, MBOAT7, HIST1H1C, LGALS9, ACTB, HSPA5, PKM, CLK1, HSP90B1, LAP3, PPDPF, HLA-A, NAPA, CUL1, OAS1, GBP1, SNHG15, CCND3, PDIA3, PIM3, ISG20, PARP9, TOB1, DDIT4, SP110, OAS2, BST2, FOS, EREG, H1FX, HNRNPU, ATF3, CALR, IFIT3, PSME2, RNASE2, HIF1A, CCL3L1, SAMD9L, HIST1H1D, UBE2L6, ZFP36, SELL, PARP14, NAMPT, STAT1, XIST, JCHAIN, RNF213, KLF10, MX2, EIF2AK2, IFI44, AREG, HLA-DRB1, PLSCR1, IFITM1, IRF7, AC020656.1, HIST1H1E, JUN, EPSTI1, IFITM2, TYMP, XAF1, MX1, MTRNR2L8, MT2A, ISG15, LY6E, IFI6, IFI44L, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
63 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | eosinophil | CL_0000771 (eosinophil) | CITE-seq | FOSB, IER5, KLF6, RPS18, JUN, SAT1, IER2, TOMM7, RPL13, RPS27A, RPL13A, NOP53, RPL27A, FOS, RPS3, RPL21, RPL9, RPS26, RPL10, RPL3, RPS2, RPS3A, RPS6, RPS27, RPS12, MT-CYB, RPL32, MT-ND3, TPT1, RACK1, MT-ND2, MT-ND1, RPS8 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
64 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | eosinophil | CL_0000771 (eosinophil) | CITE-seq | MACF1, SYNE2, RNF213, UTRN, SP100, XAF1, HIST1H1E, IFI44L, JCHAIN | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
65 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | granulocyte | CL_0000094 (granulocyte) | CITE-seq | HLA-DPA1, HLA-DPB1, FCGR3A, CDKN1C, HLA-DRB5, TMEM154, RPL10, TOMM7, RPS27, TPT1, RPL4, RGS2, MT-ND3, RPS20, CALM2, RPL21, RPL38, PFDN5, RPS3A, RPL26, RPL30, EEF1B2, RPS2, RPL5, RPS14, RPL34, FGL2, RPS24, RPL23A, RPS27A, RPL11, RPL9, RPL13A, RPL24, EEF1A1, RPS6, CST3, RPL27, RPL29, RPL13, RPS16, RPS12, RPS29, NACA, UBA52, RPS9, RPL6, RPL12, RPL14, RPL37A, RPL37, RPS18, MALAT1, RPL19, RPL8 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
66 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | granulocyte | CL_0000094 (granulocyte) | CITE-seq | CD63, HIF1A, LY6E, APOBEC3A, HSP90B1, IFITM3, MZB1, IFI27, JCHAIN | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
67 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | hematopoietic stem cell | CL_0000037 (hematopoietic stem cell) | CITE-seq | ZFP36, JUND, FOSB, IER2, RGS1, RPL10, RPS14, IER5, NR4A2, GNAS, FOS, MAP2K2, PPP1R15A, RPS11, MAZ, RPL3, EEF1B2, CD7, SEC11A, RPL13A, SERTAD1, RPS3A, RPL19, DUSP1, CNRIP1 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
68 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | hematopoietic stem cell | CL_0000037 (hematopoietic stem cell) | CITE-seq | KTN1, KIF2A, TYMP, H3F3B, PPDPF, CST7, HLA-B, APP, HLA-A, RPS10, SOD2, HLA-DQB1, HSPD1, MSI2, STOM, RNF213, HNRNPDL, JCHAIN, MTURN, PRDX1, ATP5ME, POLR2J3.1, PROM1, RPL36, CDK6, NCOA7, IFIH1, SPTLC2, ADAR, CD9, SOCS2, NPR3, RPS17, PIM1, TRIM22, NEAT1, YWHAE, OAS2, PRKG1, PRSS57, CD44, CEBPZ, MGST1, MTRNR2L12, GLIPR1, APLP2, MIR181A1HG, DDX60, HSP90B1, MT-ND4L, STAT1, IQGAP2, BCL11A, S100A9, MX2, HIST1H2AC, RPL36A, TCEAL4, TFPI, SNHG25, ANXA5, RSAD2, CD99, SAMD9, NPDC1, IRF7, MMRN1, OAS1, MLLT3, SP100, FHL1, HSPB1, NUCB2, ANKRD28, CLU, PARP9, MSRB3, ATP8B4, LAPTM4B, IFI44, SELL, H1FX, PTMS, TPM4, IFI16, MT2A, PLSCR1, EGFL7, ZFP36L2, SAMD9L, H1F0, MDK, YBX3, IFIT1, S100A8, IFIT3, HLA-DRB1, EPSTI1, EIF2AK2, HIST1H1C, BST2, HBB, LY6E, HIST1H1D, HIST1H1E, AVP, XAF1, IFITM3, ISG15, MX1, IFI6, IFI44L, AREG | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
69 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | non-classical monocyte | CL_0000875 (non-classical monocyte) | CITE-seq | TMEM176B, HLA-DQA2, RPL27A, HLA-DRB5, HLA-DPB1, RPL13A, TMEM176A, EEF1B2, RPS20, RPS18, RPS27, RPS6, GIMAP7, RPL9, RPL23, RPS2, RPL23A, RPL10, HLA-DPA1, RPL3, S100A9, RPL10A, RPL27, TPT1, RPLP0, RPS3A, RPL38, RPL13, SNHG8, RPL15, TOMM7, RPL7, RPL5, RPL21, RPL4, P2RY13, RPS11, CTSH, RPS5, EEF1A1, RPS4X, TUBA1B, RPL18A, MT-ND3, MALAT1, DYNLL1, HLA-DRA, RPL35, RPL37A, LSM6, CPVL, RPLP1, RPL12, MTRNR2L1, GNLY, RPL31, RPL34, RPL29, RPS3, MNDA, RPS9, CD48, RPL6 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
70 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | non-classical monocyte | CL_0000875 (non-classical monocyte) | CITE-seq | EIF4G2, LILRA1, ULK1, CSRNP1, CREBRF, TACC1, CALM3, ATG2A, NKG7, AFF4, FUS, ADM, MIR22HG, CYP4F22, ATF3, ID2, CD300E, GLUL, CSTB, FOXO3, ANPEP, ADAM10, H1FX, BCLAF1, MAP1LC3B, RSRC2, EP300, TPM3, TMC6, CCDC85B, FTH1, CLK1, PIK3AP1, RHOC, CCNL1, KLF6, CXCL16, NFKBIZ, TCIRG1, ZFP36, AC020656.1, GRASP, FAM45A, CDKN2D, IFITM1, SLC43A2, ELL2, TRA2B, ARF5, CTSD, RPS27L, POLR2J3.1, LENG8, MAP3K8, MYO9B, XAF1, SCGB3A1, TNF, SNHG15, BLOC1S1, TMSB10, EPSTI1, MDM2, NFKBIA, RNF144B, PIM3, TNNT1, CTNNB1, IFI30, ANXA4, CDKN1A, LILRB1, PPDPF, CFD, ZBTB7A, HIST1H1D, TIMP1, NAMPT, FMNL1, NEAT1, AC020916.1, LILRB2, G0S2, IFI6, KLF10, IFI44L, JCHAIN, MIDN, ISG15, HES4, LY6E, HIST1H1E, MT2A, CD63, APOBEC3A, C1QB, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
71 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | natural killer cell | CL_0000623 (natural killer cell) | CITE-seq | MT-ND3, RPL27A, PTGDS, CD52, RPS4Y1, GIMAP7, MT-CYB, MT-ND2, RPL13A, RPS20, KLRB1, MT-ATP6, CCL4, RPL7, MT-ND1, LYZ, RPL38, FOSB, MT-ND4, RPL3, RPL10, RPS6, CD160, RPL21, EEF1B2, IER5, RPS3A, RPS14, RPS11, RPS18, PTGDR, MT-CO1, RPL27, RPL23A, CLIC3, MT-ND5, RPL9, RPS27, PLEKHF1, TOMM7, TPT1, RPL37A, TUBA1B, RPL13, COQ7, RPLP2, RPL23, MT-ND4L, JUNB, RPS9 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
72 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | natural killer cell | CL_0000623 (natural killer cell) | CITE-seq | CCND2, TMEM123, ZBTB1, ATF7IP, HNRNPU, DTX3L, CEBPB, GNLY, PMAIP1, GZMH, OGA, SETX, CALR, HMGB2, SFPQ, NFKBIA, SRRM2, MIR4435-2HG, EML4, BAX, PARP14, HSH2D, IFITM2, S100A10, TGFB1, FBXO7, IFI16, STAT3, TAP1, TRA2B, UBE2L6, CD79B, CAPN2, FXYD5, TNFAIP3, ARID5B, PPDPF, PSMB10, ZBP1, SYAP1, DDX6, GNAS, TCIRG1, USP15, RAB5IF, ZFP36, HLA-DPB1, IFI35, LGALS9, PRPF4B, CTSW, SEC14L1, UTRN, HSPA5, S100A11, SLA2, FLNA, SP110, TXNIP, TSPYL2, CREM, TRIM22, PSME2, ETS1, HLA-C, PARP9, PRKX, ITGA4, PRF1, SYNE2, GAPDH, OAS2, SH2D2A, SAMD9, CD38, IRF9, RNF213, SELL, MAP3K8, BST2, ADAR, SMCHD1, TYMP, CD74, SP100, HLA-DPA1, ATG2A, PLSCR1, STAT1, PIK3R1, SAMD9L, PDE4D, MX2, OAS1, LAIR2, SYTL3, KLRC1, IFI44, HLA-DRB1, XIST, GZMB, H1FX, LY6E, IRF7, CEMIP2, LGALS1, EIF2AK2, ISG20, HIST1H1D, EPSTI1, MTRNR2L8, IFITM1, ALOX5AP, HIST1H1C, MT2A, IL32, AREG, MYOM2, HIST1H1E, MX1, XAF1, JCHAIN, ISG15, IFI6, IFITM3, IFI44L | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | text says: "differentially expressed genes (DEGs) in each cluster compared with all other cells" | |||||||||||
73 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | plasmablast | CL_0000980 (plasmablast) | CITE-seq | CCT3, SF3B6, ISOC2, SLC38A5, PSMA1, RAN, CLPP, RPL7A, MRPL43, VDAC3, EMC4, ECHS1, RPL8, TIMM17B, ZBTB8OS, TMED3, CTSS, MRPS23, NUDT22, HADHA, SNRPG, TMED2, HNRNPH3, MRPL3, DESI1, PSMD4, SSBP1, C19orf24, PSMB3, SNRPE, SRPRB, MRPL40, HSPD1, C1orf43, PTP4A2, XRN2, ECH1, FDPS, RPL13, ANAPC11, KRAS, PSMA7, LAMTOR5, EZR, EMC3, TKT, HIST1H1E, ACADM, RNF114, TRAPPC1, CCT4, ATP5PO, PIGT, TNFRSF13B, SLC1A4, CD47, SDHB, GABARAPL2, CCT8, SLC25A5, SRSF3, TRIR, LDHB, HARS, GNAI2, MFF, TMPO, MRPL57, MRPL12, FUCA2, UBE2L3, SH3BGRL3, UQCRC2, RNASEH1, CCT5, IMMT, PUM1, B3GAT3, PSMB6, BAK1, MPC1, DECR1, CCDC167, ALKBH7, ARPC5L, BUD31, TMEM208, TLN1, AUP1, NUCB2, PSMA4, ATF4, ARL6IP5, SNRPC, SNRPB, SF3B2, HNRNPF, DPM2, MCL1, NDUFS8, GTF3C6, PLP2, SARS, GMPPB, CHMP2A, PHF3, NPC2, PSMC4, FKBP1A, IRF1, GNB2, VSIR, SOD1, UBE2I, CLEC2D, CTSD, POLR2K, NUDC, MRPS7, RAP1B, ETFA, OS9, RBMX, CIRBP, GRK6, SRI, SAP18, TMEM30A, DBI, YWHAQ, ERP44, S100A11, MRPL22, YBX3, SRA1, UQCRC1, MRPS11, UAP1, OXA1L, TMEM14B, WDR83OS, MRPL55, PSMD2, VAMP8, SRSF9, FAM173A, POLR1D, BRK1, TMCO1, BLOC1S1, SPTLC1, DNAJC4, NDUFA9, PRDX2, SRSF7, DAZAP2, C19orf53, SLC25A4, SMC1A, ALG14, SEMA4A, MRPS34, MAPRE1, PRMT1, GLRX5, C1D, SDF4, RAC1, LITAF, PTGES3, CYB561D2, NDUFV2, RAD21, CHCHD1, THOC7, SUCLG1, TAP1, HNRNPAB, DDT, CCT7, UBN1 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
74 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | plasmablast | CL_0000980 (plasmablast) | CITE-seq | GON4L, CHMP4B, CEP128, VPS4B, PJA2, ATF5, RAB14, ATOX1, ERAP2, FAM133B, BTN3A2, GOLGA2, ELL2, ZDHHC12, PMPCB, NAA20, GSDMD, NOL8, SPEN, TARSL2, HNRNPDL, SRP54, TSEN15, DUSP5, ACAA1, LLPH, NCKAP1L, ARSA, PAICS, APOL1, RNPS1, DAPP1, LGALS1, COPZ1, ARID5B, GLO1, LIMS1, MAP3K2, ARHGAP15, FKBP8, RBM39, AP1G1, ZNF37A, CFLAR, CTSH, 44076, CLPTM1, DNAJC3, MAGT1, NDUFA11, MEF2A, CDC16, CHMP4A, PRKCSH, GOLGA3, RABGAP1L, AC007952.4, PPA1, TTC3, BMS1, CEBPZ, PCBP1, CAPZA1, TRIP11, HIBCH, RPS26, ADAM10, CALR, RPS10, CLIP1, ACTR2, PNKD, SEC14L1, APOL6, NIN, BCAP31, B4GALT1, TMEM259, VPS13C, PTK2B, MSL3, SSR1, DLG1, RTF1, CPSF6, ITGB7, RPS21, LMO4, KLF13, SGK1, EIF4G1, EIF4G2, MTRNR2L8, TRANK1, GRB2, MUC20-OT1, TMEM156, WAPL, MAP1LC3B, RPL22L1, ITGB1, CDK17, RASA2, STK17B, SQSTM1, ASH1L, ILF3, CREB3L2, PPIP5K2, NUGGC, RSL24D1, CYLD, PSMD14, UPF2, CKLF, MED13L, OXR1, AP3D1, TPP2, IFITM1, BLOC1S6, MT-ND6, PDIA4, SCFD1, SPTBN1, IFI35, PDCD4, RIPOR2, TCF4, IBTK, TCEA1, EBAG9, ARPP19, UBA1, FBH1, XAF1, AC103591.3, CCDC32, SPTY2D1, LMBRD1, IFNG-AS1, RBX1, ANKRD36B, N4BP2L2, TMEM50A, OTULIN, EML4, IFI27L2, ARIH2, CBWD1, VPS36, TFRC, CSDE1, CLINT1, TROVE2, LSM14A, RBM26, EDEM2, ZNF292, MT-ND4L, RFC1, ICAM3, ATP6V0A1, CNPY2, THOC2, ACBD3, CHST2, LUC7L3, HIPK2, SYNE2, FBXW7, SELPLG, MYCBP2, PLD3, TRIP12, ITSN2, ZNF92, CNP, SEL1L3, PNISR, RPL17, POLR2B, GCC2, SNHG25, METTL7A, HSPB11, GOLGB1, TMEM87A, PET100, DUSP22, ABI1, KMT2A, NEMF, GOSR2, SRSF11, PTPN1, NDUFA3, UBR5, CTSA, APOL2, PPP2R5C, AC016745.2, MON2, MDM4, IKZF3, PAPOLA, CD2BP2, SUZ12, ARID4B, AFTPH, RPS27, RBM5, FUBP1, TMC6, RPS17, PIM2, STAT2, NCF1, TMEM256, NKTR, HERC5, CHPF, ATM, EBPL, BIRC6, SETBP1, MT-ND2, VAPA, UQCC2, ADAR, HDAC7, EIF5B, SIL1, CASP10, TLK1, STAT1, PIM1, ATP2A2, SERBP1, EPB41, NDUFB9, LILRB4, HLA-A, SEC13, RPL38, GOLGA4, SEC31A, PPM1K, SCARB2, ATP5ME, TRAF3IP3, HLA-C, ATP5F1E, NXPE3, SLC38A2, ATP2A3, MZT2B, IFI44, FKBP2, BCL2L11, MBNL2, SLAMF7, IFI16, FCRL5, MARK3, CRIP1, IFI44L, ROMO1, SEC24A, PDK1, UGGT1, PARP14, COBLL1, TNFSF10, GLS, ITPR2, EIF1AX, KMT2C, USP34, ARGLU1, ASCC3, TXNDC11, ACO2, CPEB4, MEF2C, FMNL1, NCOA3, AKAP9, MSI2, COX7A2L, TXNDC5, ST6GAL1, ENTPD1, SMAP2, DSTN, PRDM1, TRAM1, C4orf3, HNRNPH1, YWHAE, WIPF1, COPA, OGT, MAN1A1, TRA2A, NSD1, TXNDC15, XRN1, JAK1, RPL27A, AC012368.1, AP2M1, CASP3, PLCG2, TYMP, MDM2, MALAT1, IRF4, HERC2, NDUFB6, FNDC3A, CD38, SP100, MIR4435-2HG, MT-ND3, ANKRD12, PTPN2, SMCHD1, SAMD9L, ATRX, MIF, RNF213, IRF7, TP53INP1, DDX24, MX1, XIST, IFI6, MTRNR2L12, ISG15, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
75 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | plasmacytoid dendritic cell | CL_0000784 (plasmacytoid dendritic cell) | CITE-seq | HLA-DQA2, TCL1A, MS4A6A, HLA-DRB5, MT-ND3, PPP1R14B, UBE2E3, PLA2G16, CLIC3, VIM, JUND, MYADM, NPC2, FCER1G, BRI3, MT-ND1, VEGFB, MT-CO1, PYCARD, RPS11, PTCRA, RGS1, GNAS, RPLP0, AL355075.4, C12orf75, PLXNA4, IDS, MIF4GD, CCDC50, SRGN, ARL4C, AC020916.1, RPL23, TBC1D4, PMEPA1, CYP46A1, S100A10, ID1, CD4, TSPYL2, GZMB, DRD4, KDM6B, RPS20, ZNRF2, CDK2AP2, DUSP5, RUBCN, C12orf57, SCT, TAGLN2, RPS14, RPS18, PTPRE, TMEM8B, SLC1A5, C12orf45, CD52, ALCAM, SEC61B, CRYM, GUK1, CUEDC1, FCGRT | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
76 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | plasmacytoid dendritic cell | CL_0000784 (plasmacytoid dendritic cell) | CITE-seq | DNAJC15, C19orf66, XRN1, SOX4, MGLL, CTSH, HESX1, SH3BGRL, NMI, PTMA, SELL, GLRX, GADD45B, PDIA6, PSMB9, TAP1, DUSP22, H1FX, DDX60, GALNT2, H3F3B, HLA-DQA1, SPATS2L, FXYD5, CD63, STAT2, DRAP1, RASD1, SLC20A1, NAPA, CLEC2B, GLUL, MYBL2, SAMD9, HLA-F, LGMN, PARP9, B2M, CD38, TSC22D1, PHF11, NT5C3A, HSH2D, TNFSF10, IFI6, HLA-E, HLA-C, TXNIP, CAPN2, SP100, HLA-DRB1, HLA-B, TRIM22, IFI35, DDIT4, S100A9, FCHSD2, S100A8, MNDA, HERC5, LAP3, ANXA5, HIST1H1D, LGALS9, HIST1H2AC, OAS1, HLA-A, HIST1H1C, COX5A, IFITM2, OAS2, ADAR, TYMP, UBE2L6, SP110, MX2, USP18, PLSCR1, ZFP36L2, PARP14, HIST1H1E, IFI16, SAMD9L, BST2, IFI44, EPSTI1, STAT1, EIF2AK2, PIM3, ISG20, XAF1, MX1, LY6E, IFI44L, ISG15, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
77 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | platelet | CL_0000233 (platelet) | CITE-seq | PDZK1IP1, TSPAN33, NCOA4, AC147651.1, HEMGN, AQP10, LGALSL, TMEM91, VIM-AS1, HGD, ANAPC5, NCK2, TMEM158, MLH3, FHL1, C19orf33, GNAS, DYNLL1, AMD1, MTRNR2L8, TUBA4A, MPST, CA2, PABPC1, ZCCHC17, CTDSPL, ITGB5, UBXN11, LY6G6F, TUBA1B, ODC1, MGAT4B, PDLIM1, ILK, TACC3, CALD1, TUBA1C, TST, GAPDH, CERS2, MT-CO3, CDKN2D, TPM1, RPA1, AP001189.1, AC090409.1, TMSB4X, INAFM2, CCDC92, PRKAR2B, EMC3, MT-CYB, GNAZ, ACTG1, CYB5R3, DAPP1, ACTN1, PF4, CLDN5, TAGLN2, RNF11, EID1, FCER1G, PTCRA, CENPT, SCN1B, PYCR2, MT-ATP8, CD68, USF2, MYL12A, GSN, PRDX5, MT-ND1, CD9, UBC, PARVB, GP9, PLEK, RAB8A, TNNC2, PPBP, MYL6, NDUFA4, SPINT2, MAP3K7CL, NENF, CAVIN2, YBX1, RPL10, MFSD1, RAB4A, UBE2E3, SH3BGRL, LIMS1, RDH11, ANKRD9, PLEKHO1, MT-ND2, ACTB, MT-ATP6, UQCRH, GRAP2, CXCL5, GNG11, DOK2, MTPN, AP2S1, SRGN, CCL5, MT-ND3 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
78 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | platelet | CL_0000233 (platelet) | CITE-seq | HMG20B, YWHAH, G3BP2, PCP2, RSU1, OAZ1, RPS19BP1, VAPA, UXS1, KCTD20, MYLK, MORF4L1, RPL8, RACK1, HIST1H2AC, HIST1H2AG, FHL2, RPL7A, ABTB1, RPL30, GAS2L1, RPL18A, UCP2, SEC14L1, UBE2F, RPL32, APP, TMEM50A, SERF2, GMFG, RPS16, GPX4, AKIRIN2, ANO6, RPS23, RPL15, H2AFJ, DERA, FTH1, FTL, SELP, TSC22D3, EIF1, CD99, RIOK3, RPS2, CTSD, ADD3, RPS13, RPS19, NAP1L4, BEX3, SVIP, STON2, C12orf76, RPS7, ARHGEF12, UQCR11, CMIP, RPL39, RPS8, SQSTM1, ISCU, CST3, RPL28, YBX3, HLA-E, LCN2, UBE2J1, RPS27, SMIM10L1, HSPB1, EPB41, FRMD3, STRAP, RPL34, HIST1H2BJ, SLC40A1, SET, RPL26, RPL41, ARHGDIB, CNPY3, RPL23A, TMEM140, RPS29, EIF2AK1, RPL37A, JAK1, UBE2B, ATP5F1E, TIMP1, ATP5MPL, CAPN2, MMD, 44085, ADI1, RPS18, NDUFB4, RPL36AL, ATP2A3, CRBN, PAIP2, RPL37, RPS24, ITM2B, TXNIP, UIMC1, TMSB10, HIST1H3H, RPS28, YPEL3, EGFL7, SUB1, PCMT1, HIST1H1C, CFLAR, RPL36, MIR4435-2HG, SMIM5, RPS26, RHOC, PTMA, IFITM2, HTATIP2, IFI27L2, CCDC88C, EVA1B, KIFAP3, EPSTI1, HCST, S100A9, S100A8, CMPK2, LY6E, JCHAIN, IFI6, IFITM3, CST7, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
79 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | erythrocyte | CL_0000232 (erythrocyte) | CITE-seq | FOS, FOSB, S100A9, HBB | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
80 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | erythrocyte | CL_0000232 (erythrocyte) | CITE-seq | ASCC2, HBQ1, ISCA1, CDC34, EIF2AK1, RAD23A, RBX1, STMP1, POLR1D, ANKRD9, METTL9, FAM210B, FKBP8, WDR45, OAZ1, CHPT1, NFE2, PPP1CB, RPIA, MICAL2, WASF2, MAP1LC3B, HK1, LPIN2, SKP1, TMOD1, MARK3, ANP32B, 43898, PIM1, TESC, HPS1, SMIM1, SEC14L1, YBX3, MXI1, EIF1B, PA2G4, MTRNR2L12, SNCA, MKRN1, PRDX6, ODC1, FECH, EPB42, TALDO1, MAP2K3, DCAF12, TRIM58, KRT1, FIS1, NCOA4, ADIPOR1, GYPB, BCL2L1, JCHAIN, YPEL3, DMTN, R3HDM4, BSG, HAGH, OST4, ISCU, HBA2, WNK1, BLVRB, SIAH2, TERF2IP, CCNDBP1, HBA1, RNF10, GUK1, FTH1, PRDX2, RBM38, GMPR, SELENBP1, MPP1, GABARAPL2, ATP5F1E, UBB, GSPT1, SLC4A1, GLRX5, HBM, CA1, ALAS2, AHSP, HBD, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
81 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | T cell | CL_0000084 (T cell) | CITE-seq | JUN, PDZK1IP1, NCOA4, IER2, DUSP1, HOPX, FOSB, JUND, IER5, JUNB, FOS, KLF2, NFKBIA, MT-CYB, NCR3, NR4A2, SERTAD1, AC147651.1, ARL4C, MT-ND3, MT-CO1, RPS14, MT-CO3, MT-ND1, RPL3, MT-ATP6, MT-CO2, MT-ND4 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
82 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | T cell | CL_0000084 (T cell) | CITE-seq | ITM2B, ETS1, IFI44, IRF7, EPSTI1, MIR4435-2HG, TIMP1, LY6E, EIF2AK2, TXNIP, MX1, XAF1, ISG15, JCHAIN, IFI44L, HBG2, S100A9, IFI6, S100A8, IFITM3, IFI27 | N | gene expression | up | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | PBMCs enriched for DCs | ||||||||||||
83 | 2021-03-31 | Atlanta | 38 | 90 | years | 12 | T cell (cluster enriched in ISGs) | CL_0000084 (T cell) | CITE-seq | GBP4, MT-CYB, RPS14, RPL4, RPL10 | N | gene expression | down | pooled moderate and severe COVID-19 vs healthy | none | none | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | moderate and severe | pmid:32788292 | 2020-09-04 | https://science.sciencemag.org/content/369/6508/1210.long | Suppl Table S4 | https://science.sciencemag.org/highwire/filestream/748363/field_highwire_adjunct_files/2/abc6261_TableS4.xlsx | Cluster enriched in interferon stimulated genes (ISGs). PBMCs enriched for DCs | ||||||||||||
84 | |||||||||||||||||||||||||||||||||||||||
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105 |