| A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z | AA | AB | AC | AD | AE | AF | AG | AH | AI | AJ | AK | AL | |
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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 | comments | curator_comments | ||||||||||
7 | Description | curation date YYYY-MM-DD | A short description of the population where the immune signature is measured. | 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 | tissue (Cell Ontology) | 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.) | Description of the comparison which gives rise to the response behavior reported in the immune signature. | baseline time event | time point relative to baseline event at which response was measured | time point units | exposure material (NCBI pathogen name) | exposure material (NCBI taxid) | exposure process - method by which immune exposure occurred | disease name | disease stage - reported disease stage(s) of affected subjects | Publication identifier (PMID). | Print publication date or posted date. | Publication URL | Identifier of the publication section where the signature is reported. | Curator comments to accompany the released immune signature. | Curator comments directed to the HIPC Dashboard team. | |||||||||
8 | vocabulary, separator | YYYY-MM-DD | free text | number | number | choose from list | number | Free text. Multiple entries must be separated with a semicolon | Choose from list or lookup Cell Ontology code. Multiple entries must be separated by a semicolon, e.g. CL:0000576 (monocyte); CL:0000235 (macrophage). Just the code is also acceptable, e.g. CL:0000576 | 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). When a reported response behavior with identical response components has been observed across multiple comparisons, they may be combined in one row; separate individual comparison entries with semicolons (A vs C; B vs C). | Free text | Number or free text | 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 | number | YYYY-MM-DD | URL | free text | free text | free text | |||||||||
9 | Additional information for curators | Date curation completed | Construct using relevant characteristics of the studied population(s), as reported in the publication. Indicate if the result is relevant to a subgroup of the overall cohort, e.g. • subjects suffering adverse events • particular threshold levels of antibody titer • based on a receiving a particular treatment Example: “COVID-19 patients and healthy controls (Hong Kong, China)”, “Vaccine non-responders with mild/moderate disease (Atlanta, Georgia)”. | 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. | As reported. The parent tissue of the response components. For cell-type results, the tissue is often PBMCs, but can also be a specific base cell type. For gene expression, the tissue might be a specific base cell type | Cell Ontology IDs for tissues in column “tissue_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. If there is no appropriate Cell Ontology term, UBERON codes can also be used. | 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 (N=24) vs healthy (N=28) - 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 If known, include the number of subjects in each comparison group using (N=<num>) notation. 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, e.g. “7”, “various”, “0 to 8” | days, months etc. | Enter the pathogen underlying the immune exposure as reported in the publication or use the NCBI Taxonomy term name | NCBI Taxonomy ID of pathogen causing disease | Method by which exposure to pathogen occurred | E.g. COVID-19 | 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. Examples include moderate, severe, ICU etc. Pooled can also be added. | Enter the PMID for the article curated, e.g. 32788292. If no PMID is available (i.e., because the publication is not listed in Pubmed), leave empty. | Partial dates are OK, e.g. YYYY-MM or YYYY | Use when no PMID is available. Otherwise leave empty. | Enter the figure number, table number, section heading or number, etc., where the signature was found within the source publication. Multiple entries, separated by semicolons, are allowed. This may be necessary if the signature is reported in multiple locations, e.g., in a table within the main article as well as in the supplementary materials. | Additional details related to the signature, not captured in other fields, that the curator deems necessary context for properly parsing the signature. This text will be available in the HIPC Dashboard, as part of the immune signature. Limit of 250 characters | Questions or notes for further examination from the curator. Will not appear in Dashboard. | |||||||||
10 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | NFYA,LASP1,CFLAR,CAMKK1,LAMP2,KDM7A,IFRD1,PAF1,NADK,SPAG9,MMP25,ABHD5,ELOVL5,ALOX5,CALCOCO1,ZC3H3,WAS,SLC11A1,SLC45A4,RB1CC1,UBR2,FAS,RNASET2,GAB2,DAPK2,TIMP2,KATNIP,WWC3,CELF2,HEBP2,RRP12,KIF1B,FOXC1,TMCC3,ATP11B,CDK14,YIPF1,MXD1,SLC2A3,HDAC7,DGAT2,VMP1,LPAR2,CNN2,ABCA7,SBNO2,GNAI3,MAP2K4,SLK,CYB5R4,TBC1D1,PPP2R5A,DIP2B,SPI1,TNFRSF1A,ROCK1,PDK3,HDAC4,MEF2A,TFE3,INPP5A,GRIPAP1,PIGB,ST6GALNAC2,TESK2,MAP4K4,SNX13,UBE2D1,MARK2,NDE1,IRAG1,PANX2,ALPK1,DHRS9,PTGS2,FRY,PICALM,SCARF1,VPS9D1,FNDC3B,RAB7A,ANKRD13A,ICAM3,NT5C2,IL4R,APBB1IP,LRCH4,CST7,MKNK1,FYB1,GSK3B,RNF13,TUT7,CHMP2B,SMAP2,SSH1,NCOA1,CD82,PILRA,SNX10,LAT2,ATXN7L3,PGS1,RFX2,NSFL1C,PXN,RPH3A,GRAMD1A,GMIP,MLF2,SLC9A1,YPEL3,OSBPL8,PPP2R3C,HAUS4,TOX4,SNAP23,NA,WAC,SRPK1,SH3GLB1,RAB18,MAST3,MKNK2,PPM1F,CYTH4,PACSIN2,TOM1,THOC5,MTMR3,NCF4,CSF2RB,RBM23,SOS2,NIN,PYGL,RIN3,ITPK1,DHRS7,SUSD6,PCNX1,GMPR2,TRPC4AP,RNF24,RASSF2,CDS2,SIRPB1,ZNF516,VAPA,TBL1X,SLC35A2,RP2,DNAJC3,DHRS12,MGRN1,MAPK3,LYRM1,USB1,USP10,CRISPLD2,MEFV,CPPED1,RNF40,AQP9,CPQ,SNX16,CD37,MED25,DENND3,CEACAM4,NA,RAB3D,PLPPR2,JAK3,ERF,AVL9,NAMPT,PIK3CG,BUD31,MEGF9,TGFBR1,TLE4,UBE2R2,VSIR,SHOC2,CASC3,RNF167,CPD,MED31,HDAC5,UNC119,CHIC2,UBE2D3,KLHL2,RAPGEF2,HTATIP2,EHD1,ST3GAL4,RNF141,SLC22A18,SELPLG,LIN7A,MANSC1,BLTP3B,TDP2,NEDD9,RIPOR2,SLC26A8,NA,TREML2,E2F3,VNN2,TFEB,SRF,BTNL8,LMNB1,ST8SIA4,ERGIC1,HRH2,BCL6,PFKFB4,USP4,ACAP2,ABTB1,GCA,CHMP3,IL1R2,IL18R1,IL18RAP,HPCAL1,STRN,QPCT,WIPF1,PLEK,RAP1A,SWT1,IVNS1ABP,NCF2,WLS,RGS2,PHTF1,CD58,RRAGC,SIPA1L2,PADI2,CTBS,ECE1,CD46,KLF7,IRAG2,PLAGL1,FBXL5,UBN1,UBE2B,PTBP3,PPP6C,HSDL2,CSF3R,IRF2BPL,OGFRL1,DUSP1,ARAP3,FAM53C,KDM3B,PDLIM2,TRIM25,TMIGD3,GTDC1,EEPD1,GLIPR2,ADGRE5,ARHGAP9,TNFAIP6,BAZ2B,LPGAT1,KCNJ2,B9D2,PI3,PREX1,GNMT,TREM1,NRN1,LRRFIP1,NA,MBOAT7,RTN2,VASP,GPCPD1,TMX4,S1PR4,FFAR2,ZNF384,PLEKHG3,HNRNPH2,FGD3,ADGRE2,EPS15L1,KDM4B,HIP1,PTPN12,STEAP4,LRFN1,RAC2,DOCK4,LRRC4,MBD4,PHF20L1,SLC44A2,ADCY4,SEC14L1,PGAP6,MAU2,SAT1,MLLT1,GDF15,LSP1,TNNI2,OSBPL2,GMFG,SESN2,THEMIS2,CLIP1,UBE4B,ADGRE3,SLC6A6,IL13RA1,STARD3,RARA,CHSY1,RAF1,PTPRE,H3-3B,KDM6B,SDF2,FLOT2,ALOX5AP,RTN3,SBF2,NUMB,VAV3,PHC2,AGO4,DSC2,DHX34,C5AR2,OSTF1,ADAM19,CCNJL,AKIRIN2,PHF21A,PRRG4,USP15,DYNC1LI2,EGLN1,GLUL,NIBAN1,RC3H1,TMEM127,PLXNC1,APPL2,ITM2B,MTHFS,TM6SF1,IL1RN,KIF13A,FLOT1,RNF144B,FAM8A1,TLR2,SDCBP,SORL1,CASP5,EXOC6,ITPRID2,SLC49A4,PPCDC,GPAT3,CCNG2,PPP3CA,ETV6,C1RL,SLC15A4,GIT2,ABHD13,PELI2,SLC12A6,ANP32A,BCL2A1,NCOA2,ABHD2,MCTP2,IQGAP1,ITGAX,CMTM2,PDPK1,DEF8,NPEPPS,SSH2,PIK3R5,SLC16A3,NARF,IFNAR1,SCYL1,MYO1F,RCN3,CD53,COP1,FCGR2A,MCL1,MINDY1,RIT1,LYST,LBR,RALB,SPOPL,RAB5A,DYNC1LI1,IQSEC1,RNF175,ROPN1L,MYO10,ARHGAP26,RNF145,TNIP1,DOK3,PPP1R18,CREB5,SLC12A9,DOCK5,GOLGA7,C9orf72,GPR107,NOTCH1,NRBF2,ITPRIP,ADM,PGAP2,PTPRJ,ROM1,LSM14B,CDC42EP2,LATS2,RILPL2,IPMK,FAM177A1,CDC123,SCLT1,ADAM8,ADAM17,ACSL1,CACUL1,GLT1D1,RASSF3,RBMS1,CYRIB,ASAP1,ING1,LY96,DPH3,PPP4R1,MPPE1,PTPRN2,CDK19,HYCC2,TMBIM4,GNAQ,ZFAND3,RAB11FIP1,PRR14,VPS8,FCHO2,SYN2,ST3GAL2,TSC22D3,KCNJ15,ETS2,TMEM164,SLC37A3,GALNT14,TPRG1L,XKR8,CATIP,NCF1,TAGLN2,F11R,CDA,IFNAR2,ISL2,TMEM234,SHKBP1,DEDD2,MPZL3,JAML,PAQR6,SLC25A44,NBEAL2,SH2B2,LRWD1,ACOX1,CXCL16,ALPL,ZNF281,FCGR3B,OXER1,WDR26,H3-3A,SCNM1,RNF149,CDC42EP3,S100A11,TGFA,EIF4E3,PROK2,CXCR1,NUAK2,MNDA,PPP4R2,WDFY3,SLMAP,RBM47,CXCL1,PLB1,ZDHHC19,PIGX,C4orf3,F2RL1,UBLCP1,STXBP5,LMTK2,OSGIN2,TP53INP1,ABCA1,NFIL3,TMEM71,MID1IP1,NDUFB6,ARHGEF40,FRAT1,ZNF319,ILK,RNF169,CLEC4E,NDEL1,GOLM2,ANPEP,PATL1,STX3,MTMR10,TSC22D4,AKTIP,MBD6,GOLGA2,NOD2,DPEP2,DHRS13,TUBA1A,TMC4,PLIN4,SLC43A2,CD300A,TMEM88,BEST1,ATG16L2,CCDC88B,RBPJ,PXK,PCMTD1,TMUB2,STAT3,TET2,HSPBAP1,ZNF354A,XPO6,RAB24,THBS3,PTAFR,CNBP,REPS2,TPST1,TOR1AIP2,MAP3K2,MYO7B,TMEM154,GABARAP,FOS,USP32,GPR27,KIAA0232,TSEN34,CEACAM3,FPR2,FPR1,LRG1,CANT1,WIPF2,PIK3CD,RGS19,RASGRP4,PTEN,RAB33B,MOB3A,PRL,CEBPB,CLEC7A,AFF1,RAB43,DCP2,SSH3,ANKRD13D,OXSR1,SH3RF3,HSPA6,PPP1R3B,MAP3K11,TRIB1,TNFRSF10C,NABP1,SULT1B1,SLC19A1,STAT5B,CEP19,TLR1,TLR6,FAM174A,PITPNA,AKIRIN1,NLRP6,VCPIP1,B3GNTL1,KCMF1,SLCO3A1,B3GNT5,BASP1,RHOG,ZBTB34,ULK1,B3GNT8,IL17RA,PLEKHM3,CEP295NL,EXOSC4,SAMD4B,NSUN7,MYADM,CSNK1A1L,OAZ2,HCLS1,PAK2,FUT7,H2BC4,CXCR2,KCTD2,NA,DHTKD1,ZNF746,FRAT2,AATK,ZNF467,P2RY13,TNRC18,NOP10,SPACA6,LIMK2,HCAR2,HAPSTR1,COL18A1,ADGRG3,FHL3,ZNF438,KREMEN1,NA,DENND5A,APOBR,IFITM2,TNFAIP2,HGS,EVI2B,FFAR3,C16orf54,IRS2,TMLHE,CYP4F3,HEXIM1,ZDHHC17,SIRT7,ZFTRAF1,TREML4,LAMTOR4,DYNLT4,SELL,RALGAPA2,MTF1,MSL1,LRRK2,FAM120AOS,LITAF,TMEM120A,JPT1,KAZN,IL1RAP,CFAP119,STK40,CD55,NTNG2,MME,SDHAF3,TECPR2,MAML3,PDLIM7,CASP4,IGF2R,SLC22A4,SVIL,LRP10,PELI1,C5AR1,MAP3K5,SIPA1L1,CDC42SE1,SLC9A8,INKA2,MPZL1,SIRPA,HSD17B11,CSF2RA,ASPH,WWP2,BAZ1A,MSRB1,TMEM184B,GK,RASGEF1A,TBKBP1,PJA2,CR1,GDI1,LIPN,ZDHHC18,PBX2,AGER,STK19,CARD16,ABHD16A,HLA-C,LILRB3,HLA-E,PRR13,SUPT4H1,MXD3,SIPA1,ERV3-1,GPSM3,DDAH2,LTB4R,CLDN9,PLIN5,STARD10,ZSWIM8,ZBED1,UBXN2B,FNIP1,CKLF,LINGO3,CEBPD,TAS2R40,NA,PLEKHM1,NA,TMEM185B,GK3,NA,HLA-B,SMIM27,NFAM1,RGL2,FAM200B,LILRA2,PLEKHO2,ARFGAP3,GNG10,IL10RB,ZNF487,ASPRV1,CCDC71L,LYN,SIGLEC14,AP5B1,CHMP1B,HCAR3,CAPNS2,MGAM,INAFM1,MAP1LC3B2,ENSG00000258311,CCPG1,ENSG00000267385,EGLN2,NBPF14,SRXN1,NBPF10,NBPF26,CNTNAP3C | Y | gene expression | differentially expressed | Module 2 derived from WCGNA, higher expression at visit 1 in participants from trajectory group 4-5, and significant change of expression over time between trajectory groups | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6B, Figure 6C | Table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
11 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | CFH,COPZ2,TSPOAP1,ITGAL,TTC22,MATK,TKTL1,CACNA2D2,IL32,GIPR,FYN,RUNX3,OSBPL5,BTN3A1,PRKCH,SH2D2A,USP28,TNIP3,PLEKHA5,SYNE2,NGFR,PDZD4,RASSF1,RORA,TGFBR3,OSBPL3,ARHGAP10,LLGL2,TBX21,NUAK1,TTC38,GTF3C1,ITM2A,SLC4A4,IL12RB2,DLG3,ABCB1,PTPN4,EBF4,LAG3,LTBP4,PCBP4,IL12RB1,ARVCF,YPEL1,IL2RB,GZMH,GZMB,ASB2,PROCR,NINL,NFATC2,SMPD3,METRN,HMOX2,NCALD,KLHDC4,NA,FSD1,LIM2,NKG7,ATP1A3,VIPR2,NOD1,PCOLCE,GLI3,PTGDS,ABI3,CRTAM,B3GAT1,CD81,IFNG,GNPTAB,KLRB1,BTN3A3,ENPP5,GZMK,PDGFRB,CBLB,ZAP70,GNLY,CHST10,C1orf21,CD2,RAB29,CD160,PIK3R3,FASLG,GPR68,PYROXD2,XPNPEP2,GIPC1,MYRF,WNT1,NA,KIR2DL1,BFSP1,PZP,PTPRB,SYNGR3,MACF1,PALLD,EPB41L4A,ABHD17A,RFTN1,GFPT2,C19orf12,PTPRA,SYT11,LGR6,PLAAT4,GSC,KLRD1,KLRC1,GGACT,KHDC1,PRR5L,RAB11FIP5,CCDC102A,CHST12,SLC2A8,DENND4C,FGFBP2,IL18BP,SYTL2,PAK6,SPTBN5,ZNF365,ADAMTS14,STAT4,TRPC3,KIF21A,CLSTN3,KLRG1,CCDC65,ITGB7,UBE2Q2,UNC45B,SKAP1,GNAL,NPC1,RNF165,P3H4,ERBB2,COL6A2,ADAMTS10,XCL1,XCL2,SOX13,SLC20A1,PHLDB2,TM4SF19,DGKQ,LYAR,SCD5,GZMA,FRMPD3,ADHFE1,CEP78,NCAM1,GLB1L2,PLCH2,FEZ1,KLRF1,PRSS23,DLG5,ME3,UTRN,JAKMIP1,CD8A,MCOLN2,GDPD1,PITPNC1,TNIK,CHODL,ADAMTS1,SH3RF2,PPP2R2B,LRFN2,TBC1D31,TMEM171,AGAP1,PAFAH2,LRRC43,GPR153,AUTS2,ADGRG5,SPON2,ZFYVE28,CCDC107,CCDC28B,TMPRSS3,CLDND2,CD3G,CCR5,DMKN,SLC1A7,LEXM,DRAXIN,CAMK2N1,DNAI3,EXTL2,SLAMF6,FCRLB,EOMES,PYHIN1,EIF5A2,RPL39L,ARHGEF3,TLR3,SEPTIN8,SAMD3,PLEKHF1,MAPRE2,SGSM1,GNGT2,TTC16,CERCAM,CORO6,RHEBL1,LAIR2,KIR3DL1,ABCA3,NLRC3,SPINDOC,PTGDR,CX3CR1,ABHD15,SLC35G2,CLIC3,LGALS9B,SMAGP,SGCD,PDGFD,DDI1,NPTX1,HOPX,NMUR1,EPHX4,CD8B,CXCR6,RCAN2,CARNS1,CTSW,EVC2,BNC2,VANGL1,PTPRM,HEG1,CD7,ZNF80,PHLDA3,PODN,LINGO2,CMKLR1,ZDHHC14,GK5,A2M,ARL4D,JAKMIP2,ZNF683,YES1,BOK,C8G,ZBTB38,ACOT4,MAMDC4,GALNT11,DTX3,MAF,MSC,ERICH3,ZFPM1,AKAP5,GAS1,PRF1,S1PR5,FCRL6,C4orf50,TIGIT,TSEN54,HOXB4,KLRC4,ASCL2,SH2D1A,EFNA5,LCN12,MANEAL,SIGIRR,MYBL1,PTCH1,EDARADD,BTN3A2,FOXD2,CARMIL3,TNFRSF18,KANK3,CMC1,VSTM2B,TPRG1,ARL4C,SBK1,PDCD1,ZNF600,TOGARAM2,MMP23B,NCR1,AKR1C3,KIF19,NUDT11,MYO6,ADA,FUT11,DTHD1,KIAA1671,ACSL5,IPP,COL13A1,GZMM,CHSY3,HOXC4,SH2D1B,STK39,ANKRD13B,COLGALT2,CD247,TOX,ITPRIPL1,TMEM244,NCR3,SPIRE2,SLFN12L,VIT,ADGRG1,KLRC2,KLRC3,ATP10A,COLQ,KLRK1,LCNL1,ARHGEF28,PATL2,AJM1,SMKR1,KIR3DL2,PLCXD2,KIR2DL3,APOBEC3D,PCDHGB6,KLRC4-KLRK1,TGFBR3L,HOXB7,HEATR9,CCL5,DGKK,MLLT6 | Y | gene expression | down | Module 14 decreasing expression at Visit 1 with increasing disease severity | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6E | Table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
12 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | CFH,COPZ2,TSPOAP1,ITGAL,TTC22,MATK,TKTL1,CACNA2D2,IL32,GIPR,FYN,RUNX3,OSBPL5,BTN3A1,PRKCH,SH2D2A,USP28,TNIP3,PLEKHA5,SYNE2,NGFR,PDZD4,RASSF1,RORA,TGFBR3,OSBPL3,ARHGAP10,LLGL2,TBX21,NUAK1,TTC38,GTF3C1,ITM2A,SLC4A4,IL12RB2,DLG3,ABCB1,PTPN4,EBF4,LAG3,LTBP4,PCBP4,IL12RB1,ARVCF,YPEL1,IL2RB,GZMH,GZMB,ASB2,PROCR,NINL,NFATC2,SMPD3,METRN,HMOX2,NCALD,KLHDC4,NA,FSD1,LIM2,NKG7,ATP1A3,VIPR2,NOD1,PCOLCE,GLI3,PTGDS,ABI3,CRTAM,B3GAT1,CD81,IFNG,GNPTAB,KLRB1,BTN3A3,ENPP5,GZMK,PDGFRB,CBLB,ZAP70,GNLY,CHST10,C1orf21,CD2,RAB29,CD160,PIK3R3,FASLG,GPR68,PYROXD2,XPNPEP2,GIPC1,MYRF,WNT1,NA,KIR2DL1,BFSP1,PZP,PTPRB,SYNGR3,MACF1,PALLD,EPB41L4A,ABHD17A,RFTN1,GFPT2,C19orf12,PTPRA,SYT11,LGR6,PLAAT4,GSC,KLRD1,KLRC1,GGACT,KHDC1,PRR5L,RAB11FIP5,CCDC102A,CHST12,SLC2A8,DENND4C,FGFBP2,IL18BP,SYTL2,PAK6,SPTBN5,ZNF365,ADAMTS14,STAT4,TRPC3,KIF21A,CLSTN3,KLRG1,CCDC65,ITGB7,UBE2Q2,UNC45B,SKAP1,GNAL,NPC1,RNF165,P3H4,ERBB2,COL6A2,ADAMTS10,XCL1,XCL2,SOX13,SLC20A1,PHLDB2,TM4SF19,DGKQ,LYAR,SCD5,GZMA,FRMPD3,ADHFE1,CEP78,NCAM1,GLB1L2,PLCH2,FEZ1,KLRF1,PRSS23,DLG5,ME3,UTRN,JAKMIP1,CD8A,MCOLN2,GDPD1,PITPNC1,TNIK,CHODL,ADAMTS1,SH3RF2,PPP2R2B,LRFN2,TBC1D31,TMEM171,AGAP1,PAFAH2,LRRC43,GPR153,AUTS2,ADGRG5,SPON2,ZFYVE28,CCDC107,CCDC28B,TMPRSS3,CLDND2,CD3G,CCR5,DMKN,SLC1A7,LEXM,DRAXIN,CAMK2N1,DNAI3,EXTL2,SLAMF6,FCRLB,EOMES,PYHIN1,EIF5A2,RPL39L,ARHGEF3,TLR3,SEPTIN8,SAMD3,PLEKHF1,MAPRE2,SGSM1,GNGT2,TTC16,CERCAM,CORO6,RHEBL1,LAIR2,KIR3DL1,ABCA3,NLRC3,SPINDOC,PTGDR,CX3CR1,ABHD15,SLC35G2,CLIC3,LGALS9B,SMAGP,SGCD,PDGFD,DDI1,NPTX1,HOPX,NMUR1,EPHX4,CD8B,CXCR6,RCAN2,CARNS1,CTSW,EVC2,BNC2,VANGL1,PTPRM,HEG1,CD7,ZNF80,PHLDA3,PODN,LINGO2,CMKLR1,ZDHHC14,GK5,A2M,ARL4D,JAKMIP2,ZNF683,YES1,BOK,C8G,ZBTB38,ACOT4,MAMDC4,GALNT11,DTX3,MAF,MSC,ERICH3,ZFPM1,AKAP5,GAS1,PRF1,S1PR5,FCRL6,C4orf50,TIGIT,TSEN54,HOXB4,KLRC4,ASCL2,SH2D1A,EFNA5,LCN12,MANEAL,SIGIRR,MYBL1,PTCH1,EDARADD,BTN3A2,FOXD2,CARMIL3,TNFRSF18,KANK3,CMC1,VSTM2B,TPRG1,ARL4C,SBK1,PDCD1,ZNF600,TOGARAM2,MMP23B,NCR1,AKR1C3,KIF19,NUDT11,MYO6,ADA,FUT11,DTHD1,KIAA1671,ACSL5,IPP,COL13A1,GZMM,CHSY3,HOXC4,SH2D1B,STK39,ANKRD13B,COLGALT2,CD247,TOX,ITPRIPL1,TMEM244,NCR3,SPIRE2,SLFN12L,VIT,ADGRG1,KLRC2,KLRC3,ATP10A,COLQ,KLRK1,LCNL1,ARHGEF28,PATL2,AJM1,SMKR1,KIR3DL2,PLCXD2,KIR2DL3,APOBEC3D,PCDHGB6,KLRC4-KLRK1,TGFBR3L,HOXB7,HEATR9,CCL5,DGKK,MLLT7 | Y | gene expression | up | Module 14 increasing expression over time in trajectory groups 1-4 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6F | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
13 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | CFH,COPZ2,TSPOAP1,ITGAL,TTC22,MATK,TKTL1,CACNA2D2,IL32,GIPR,FYN,RUNX3,OSBPL5,BTN3A1,PRKCH,SH2D2A,USP28,TNIP3,PLEKHA5,SYNE2,NGFR,PDZD4,RASSF1,RORA,TGFBR3,OSBPL3,ARHGAP10,LLGL2,TBX21,NUAK1,TTC38,GTF3C1,ITM2A,SLC4A4,IL12RB2,DLG3,ABCB1,PTPN4,EBF4,LAG3,LTBP4,PCBP4,IL12RB1,ARVCF,YPEL1,IL2RB,GZMH,GZMB,ASB2,PROCR,NINL,NFATC2,SMPD3,METRN,HMOX2,NCALD,KLHDC4,NA,FSD1,LIM2,NKG7,ATP1A3,VIPR2,NOD1,PCOLCE,GLI3,PTGDS,ABI3,CRTAM,B3GAT1,CD81,IFNG,GNPTAB,KLRB1,BTN3A3,ENPP5,GZMK,PDGFRB,CBLB,ZAP70,GNLY,CHST10,C1orf21,CD2,RAB29,CD160,PIK3R3,FASLG,GPR68,PYROXD2,XPNPEP2,GIPC1,MYRF,WNT1,NA,KIR2DL1,BFSP1,PZP,PTPRB,SYNGR3,MACF1,PALLD,EPB41L4A,ABHD17A,RFTN1,GFPT2,C19orf12,PTPRA,SYT11,LGR6,PLAAT4,GSC,KLRD1,KLRC1,GGACT,KHDC1,PRR5L,RAB11FIP5,CCDC102A,CHST12,SLC2A8,DENND4C,FGFBP2,IL18BP,SYTL2,PAK6,SPTBN5,ZNF365,ADAMTS14,STAT4,TRPC3,KIF21A,CLSTN3,KLRG1,CCDC65,ITGB7,UBE2Q2,UNC45B,SKAP1,GNAL,NPC1,RNF165,P3H4,ERBB2,COL6A2,ADAMTS10,XCL1,XCL2,SOX13,SLC20A1,PHLDB2,TM4SF19,DGKQ,LYAR,SCD5,GZMA,FRMPD3,ADHFE1,CEP78,NCAM1,GLB1L2,PLCH2,FEZ1,KLRF1,PRSS23,DLG5,ME3,UTRN,JAKMIP1,CD8A,MCOLN2,GDPD1,PITPNC1,TNIK,CHODL,ADAMTS1,SH3RF2,PPP2R2B,LRFN2,TBC1D31,TMEM171,AGAP1,PAFAH2,LRRC43,GPR153,AUTS2,ADGRG5,SPON2,ZFYVE28,CCDC107,CCDC28B,TMPRSS3,CLDND2,CD3G,CCR5,DMKN,SLC1A7,LEXM,DRAXIN,CAMK2N1,DNAI3,EXTL2,SLAMF6,FCRLB,EOMES,PYHIN1,EIF5A2,RPL39L,ARHGEF3,TLR3,SEPTIN8,SAMD3,PLEKHF1,MAPRE2,SGSM1,GNGT2,TTC16,CERCAM,CORO6,RHEBL1,LAIR2,KIR3DL1,ABCA3,NLRC3,SPINDOC,PTGDR,CX3CR1,ABHD15,SLC35G2,CLIC3,LGALS9B,SMAGP,SGCD,PDGFD,DDI1,NPTX1,HOPX,NMUR1,EPHX4,CD8B,CXCR6,RCAN2,CARNS1,CTSW,EVC2,BNC2,VANGL1,PTPRM,HEG1,CD7,ZNF80,PHLDA3,PODN,LINGO2,CMKLR1,ZDHHC14,GK5,A2M,ARL4D,JAKMIP2,ZNF683,YES1,BOK,C8G,ZBTB38,ACOT4,MAMDC4,GALNT11,DTX3,MAF,MSC,ERICH3,ZFPM1,AKAP5,GAS1,PRF1,S1PR5,FCRL6,C4orf50,TIGIT,TSEN54,HOXB4,KLRC4,ASCL2,SH2D1A,EFNA5,LCN12,MANEAL,SIGIRR,MYBL1,PTCH1,EDARADD,BTN3A2,FOXD2,CARMIL3,TNFRSF18,KANK3,CMC1,VSTM2B,TPRG1,ARL4C,SBK1,PDCD1,ZNF600,TOGARAM2,MMP23B,NCR1,AKR1C3,KIF19,NUDT11,MYO6,ADA,FUT11,DTHD1,KIAA1671,ACSL5,IPP,COL13A1,GZMM,CHSY3,HOXC4,SH2D1B,STK39,ANKRD13B,COLGALT2,CD247,TOX,ITPRIPL1,TMEM244,NCR3,SPIRE2,SLFN12L,VIT,ADGRG1,KLRC2,KLRC3,ATP10A,COLQ,KLRK1,LCNL1,ARHGEF28,PATL2,AJM1,SMKR1,KIR3DL2,PLCXD2,KIR2DL3,APOBEC3D,PCDHGB6,KLRC4-KLRK1,TGFBR3L,HOXB7,HEATR9,CCL5,DGKK,MLLT8 | Y | gene expression | down | Module 14 decreasing expression over time in fatal trajectory group 5 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6F | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
14 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | M6PR,CYTH3,CD4,MTMR11,RUFY3,CD74,PLEKHO1,POU2F2,ADRB1,HDAC9,NFE2L3,ADCK1,PDE4A,CD84,VASH1,PDE8A,ARHGEF10L,SLC46A1,GPR137B,EPB41L2,MEF2C,DELE1,WDR70,FAM135A,ULK2,ATRN,CD209,EFNB1,LGALS2,SH3BP1,UPK3A,KCTD17,XYLT1,ZC2HC1A,IL4I1,LFNG,CHN2,ENG,PHYH,NEURL1,DLX4,TBC1D9,TRIM3,IL10RA,PITPNM1,ADGRD1,PRLR,SLC12A7,VIPR1,PCYOX1,DOCK7,CAMSAP2,C1orf54,SGK1,WDR11,TGFBI,CD244,NR4A1,BATF3,SLC12A4,AHNAK,CENPB,SGPP1,HIVEP3,FGFRL1,ARHGAP22,TTBK2,CDKN1C,SH3BP4,OLFM1,CAMSAP1,KCNC3,SERPINF1,CLEC10A,ZBED3,AGAP3,CAMK1,SPIRE1,DAGLA,SDS,KCNMB4,SCRN1,FOXP4,ANKRD42,MAP2K5,CALHM2,FAM117B,GALNT6,RTN1,MAN2C1,ARHGAP17,SLC39A6,TTYH2,PCYOX1L,PLA2G7,HTR7,FUOM,LRRC27,TAGLN,TMEM86A,CLEC4F,PID1,KCTD15,ADAMTS5,TIAM1,NECAP2,GATAD1,CACNA2D3,C2CD2,TMEM268,CNNM4,MRAS,AHCYL2,CD1C,CD1B,CD1E,SLAMF8,TPPP3,ZDHHC1,RGS12,ZNF362,CPAMD8,VAV2,SLC2A6,EMC10,ZG16B,ADCY9,PEA15,SLC66A3,FBXO41,PACRGL,ATP1A1,ZMYM6,ALDH1A1,HDX,FOLR2,CRYL1,STK32C,SPRED1,SGPL1,TRIM44,MS4A7,CYP2S1,BMP1,GFRA2,TMEM150A,ENHO,MTSS1,LRRC8C,ZMAT3,CES4A,ENDOV,NRROS,WDR49,C1orf127,PACS2,CIITA,AP1S2,CSF1R,TRAK1,PLCB1,AIFM3,ZNF703,NUDT14,ADSS1,TPCN1,FPR3,CERKL,RTL6,HLA-DRB1,TLR7,ENTPD6,HLA-DRB5,CTNND1,HLA-DMA,HLA-DRA,NOTCH4,SFT2D2,TSPAN4,PPP1R3G,HLA-DPB1,FTCDNL1,HLA-DPA1,HLA-DMB,RTL5,TRNP1,CTSO,NA | Y | gene expression | differentially expressed | Module 29 with genes significantly different in expression levels between clinical trajectory groups at visit 1 related to T cell receptor signaling | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6D | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
15 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | PHTF2,FARP2,DBF4,MAP4K3,MATR3,STEEP1,BIRC3,HSF2,SCML1,ZNF800,FOXN3,USP36,ZFR,RC3H2,MRPS24,DDX20,TAF11,SMARCD1,THUMPD1,SMG6,ATP2B1,MGAT4A,DAZAP1,REXO1,SRCAP,HSP90AA1,DUSP12,CCNT2,ERC1,LYRM2,DIS3,NUFIP1,WBP11,ATG16L1,SRRT,LZTS3,FUS,DDX24,RGS1,NAT14,TMEM38B,WHRN,BTAF1,ABL1,SETD1A,HNRNPM,NA,PIK3IP1,JOSD1,HMGXB4,MIEF1,BRD1,ZBED4,PPP4R3A,PRELID3B,NDUFAF5,ADNP2,RNMT,SMAD7,ALG13,KPNA3,GABPB1,BRF2,CHRAC1,LEPROTL1,AKAP8,AKT2,YJU2,ARRDC2,ZNF14,PMPCB,DNAJC2,POLR1F,CBLL1,WASL,USP42,TNFSF8,RAPGEF1,CCSER2,GTPBP4,EDRF1,MTPAP,TFAM,RASD1,CCL7,CCL2,SH3D19,ZPR1,SC5D,CD69,PRDM4,CNOT2,KRR1,GOLT1B,RWDD1,CD83,ZBTB24,PRPF4B,HSPA9,PFDN1,BRIX1,TCERG1,BNIP1,CRBN,SLC25A36,FXR1,BBX,DNAJC27,ASB3,ID2,CEBPZ,PNO1,AAK1,SFPQ,BCAS2,RPF1,ZNF430,MAPKAP1,ACOT2,ZNF410,AVPI1,EPC1,DUSP4,COIL,TENT4B,PYROXD1,CRY2,ZNF639,FYTTD1,RBBP6,ZNF644,SLC25A16,DDX39A,KBTBD4,EXOSC9,SRSF6,SNAI1,RPS10,RIOK1,GTF3C4,TNFSF9,NR1D1,SBDS,ATG14,ZBTB1,ZNF484,RBM48,PRKRIP1,INO80,PSMA1,CCNT1,ILF3,NGDN,TAF4,ZNF317,ZNF331,PPIL4,LATS1,AAR2,CAPN7,SNRPA1,TIMM10B,LANCL2,NIP7,NXT1,POLR3F,TOE1,USPL1,SRRM1,ZNF414,MED10,CCDC59,MED6,THUMPD3,VHL,BHLHE40,USP30,KLHL36,DHX9,REV1,COG3,NUDT15,HUS1,TRA2B,ARPC5L,RANBP6,HAUS2,PARP6,SMAD6,RABGGTB,SELENOI,THUMPD2,RASGEF1B,G3BP2,AEBP2,KANSL2,ARMC5,MED9,PMAIP1,DUS3L,DPP9,DUSP10,SDE2,CENPC,NAF1,PIK3R1,FBXL17,TNFRSF21,ABT1,NFKBIE,ZNF92,MCPH1,UTP23,UHRF2,PPRC1,YTHDF1,CWC15,ARID5B,TKTL2,CSNK1G3,MBIP,QTRT2,BAG3,TADA1,JMY,ZNF256,ZFP36L2,RANBP2,SREK1,PPP2R5E,BTG3,PI4K2A,C16orf87,MIER3,ZKSCAN2,WHAMM,USP16,SUPV3L1,KAT6B,ZNF689,B3GNT7,BRPF1,TATDN2,DDX19B,DUSP2,PRXL2C,TSR2,MRPL10,GNE,TRAPPC10,CCDC12,SRSF2,TAMALIN,GMEB1,MATN1,ZNF326,ATF3,IER5,TFB2M,DCAF16,KBTBD8,CTLA4,ICOS,WDR43,AIMP1,NAA15,TIGD6,FOXK1,ZHX1,DYNLT3,CFL2,NEMF,DDX21,MOAP1,TAF1D,BAG5,CUL5,BORCS7,RRAD,ATF7IP2,TVP23A,NAB2,SMAD3,KLHL26,HSD11B1L,ZNF598,ULK4,RHOH,ZBTB5,ATF5,CA5B,NMD3,GPR183,HIC2,LUZP1,SPNS1,IFFO2,HNRNPA3,NANP,ADPRM,CDCA4,POLR1C,ASXL1,PTGER4,CXXC5,SLC25A33,ENC1,MRM3,RNASEH1,PRNP,KLF11,SMN1,NAA16,RAPH1,ZBTB21,RCE1,TOMM20,ZNF791,RBM4,TRMT10C,TTC9B,NR1D2,PDE12,DHX36,TVP23C,MARCKSL1,CLCF1,VPS37D,MEX3C,ANKLE2,CHD9,HIC1,TGIF1,NAP1L5,ARIH2,ZBTB33,JUN,HNRNPA0,NDUFV2,KLHL11,PSTK,AEN,ZBTB2,PHLDA2,ZBTB20,C5orf24,DIABLO,ACOT1,DUSP8,SOCS1,GPRIN3,BRWD1,NDUFA13,ANKRD37,INSIG1,GPATCH8,TSPYL4,DUSP28,RBM34,SKOR1,ASTL,HUS1B,TSPYL1,PNRC2,FAM53B,ZNF766,SUPT5H,ZNF34,ZNF124,ZNF136,ZNF460,MAK16,ZXDA,QRICH1,HELZ,UVRAG,ZXDB,YTHDF2,NA,TOGARAM1,GPATCH3,KTI12,SMC5,C1orf174,TIMM23B,ZNF551,ZNF805,ZBTB10,RNPS1,HEXA,ZNF134,DDX47,ZNF845,CSNK1E,HAUS3,MTCP1,ZNF579,C6orf226,NA,TNF,FAM133B,COX19,PEDS1,MTFP1,UBE2V1,ZCCHC3,SHLD3,SMIM18,ALG11,CHMP4A,EID3,NCBP2AS2,DCP1A,NA,NA,ENSG00000283208 | Y | gene expression | differentially expressed | Module 8 with genes significantly different in expression levels between clinical trajectory groups at visit 1 related to TNF-alpha signaling via NF-kappa B and trasnforming growth factor beta (TGF-beta) | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6G | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
16 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | PHTF2,FARP2,DBF4,MAP4K3,MATR3,STEEP1,BIRC3,HSF2,SCML1,ZNF800,FOXN3,USP36,ZFR,RC3H2,MRPS24,DDX20,TAF11,SMARCD1,THUMPD1,SMG6,ATP2B1,MGAT4A,DAZAP1,REXO1,SRCAP,HSP90AA1,DUSP12,CCNT2,ERC1,LYRM2,DIS3,NUFIP1,WBP11,ATG16L1,SRRT,LZTS3,FUS,DDX24,RGS1,NAT14,TMEM38B,WHRN,BTAF1,ABL1,SETD1A,HNRNPM,NA,PIK3IP1,JOSD1,HMGXB4,MIEF1,BRD1,ZBED4,PPP4R3A,PRELID3B,NDUFAF5,ADNP2,RNMT,SMAD7,ALG13,KPNA3,GABPB1,BRF2,CHRAC1,LEPROTL1,AKAP8,AKT2,YJU2,ARRDC2,ZNF14,PMPCB,DNAJC2,POLR1F,CBLL1,WASL,USP42,TNFSF8,RAPGEF1,CCSER2,GTPBP4,EDRF1,MTPAP,TFAM,RASD1,CCL7,CCL2,SH3D19,ZPR1,SC5D,CD69,PRDM4,CNOT2,KRR1,GOLT1B,RWDD1,CD83,ZBTB24,PRPF4B,HSPA9,PFDN1,BRIX1,TCERG1,BNIP1,CRBN,SLC25A36,FXR1,BBX,DNAJC27,ASB3,ID2,CEBPZ,PNO1,AAK1,SFPQ,BCAS2,RPF1,ZNF430,MAPKAP1,ACOT2,ZNF410,AVPI1,EPC1,DUSP4,COIL,TENT4B,PYROXD1,CRY2,ZNF639,FYTTD1,RBBP6,ZNF644,SLC25A16,DDX39A,KBTBD4,EXOSC9,SRSF6,SNAI1,RPS10,RIOK1,GTF3C4,TNFSF9,NR1D1,SBDS,ATG14,ZBTB1,ZNF484,RBM48,PRKRIP1,INO80,PSMA1,CCNT1,ILF3,NGDN,TAF4,ZNF317,ZNF331,PPIL4,LATS1,AAR2,CAPN7,SNRPA1,TIMM10B,LANCL2,NIP7,NXT1,POLR3F,TOE1,USPL1,SRRM1,ZNF414,MED10,CCDC59,MED6,THUMPD3,VHL,BHLHE40,USP30,KLHL36,DHX9,REV1,COG3,NUDT15,HUS1,TRA2B,ARPC5L,RANBP6,HAUS2,PARP6,SMAD6,RABGGTB,SELENOI,THUMPD2,RASGEF1B,G3BP2,AEBP2,KANSL2,ARMC5,MED9,PMAIP1,DUS3L,DPP9,DUSP10,SDE2,CENPC,NAF1,PIK3R1,FBXL17,TNFRSF21,ABT1,NFKBIE,ZNF92,MCPH1,UTP23,UHRF2,PPRC1,YTHDF1,CWC15,ARID5B,TKTL2,CSNK1G3,MBIP,QTRT2,BAG3,TADA1,JMY,ZNF256,ZFP36L2,RANBP2,SREK1,PPP2R5E,BTG3,PI4K2A,C16orf87,MIER3,ZKSCAN2,WHAMM,USP16,SUPV3L1,KAT6B,ZNF689,B3GNT7,BRPF1,TATDN2,DDX19B,DUSP2,PRXL2C,TSR2,MRPL10,GNE,TRAPPC10,CCDC12,SRSF2,TAMALIN,GMEB1,MATN1,ZNF326,ATF3,IER5,TFB2M,DCAF16,KBTBD8,CTLA4,ICOS,WDR43,AIMP1,NAA15,TIGD6,FOXK1,ZHX1,DYNLT3,CFL2,NEMF,DDX21,MOAP1,TAF1D,BAG5,CUL5,BORCS7,RRAD,ATF7IP2,TVP23A,NAB2,SMAD3,KLHL26,HSD11B1L,ZNF598,ULK4,RHOH,ZBTB5,ATF5,CA5B,NMD3,GPR183,HIC2,LUZP1,SPNS1,IFFO2,HNRNPA3,NANP,ADPRM,CDCA4,POLR1C,ASXL1,PTGER4,CXXC5,SLC25A33,ENC1,MRM3,RNASEH1,PRNP,KLF11,SMN1,NAA16,RAPH1,ZBTB21,RCE1,TOMM20,ZNF791,RBM4,TRMT10C,TTC9B,NR1D2,PDE12,DHX36,TVP23C,MARCKSL1,CLCF1,VPS37D,MEX3C,ANKLE2,CHD9,HIC1,TGIF1,NAP1L5,ARIH2,ZBTB33,JUN,HNRNPA0,NDUFV2,KLHL11,PSTK,AEN,ZBTB2,PHLDA2,ZBTB20,C5orf24,DIABLO,ACOT1,DUSP8,SOCS1,GPRIN3,BRWD1,NDUFA13,ANKRD37,INSIG1,GPATCH8,TSPYL4,DUSP28,RBM34,SKOR1,ASTL,HUS1B,TSPYL1,PNRC2,FAM53B,ZNF766,SUPT5H,ZNF34,ZNF124,ZNF136,ZNF460,MAK16,ZXDA,QRICH1,HELZ,UVRAG,ZXDB,YTHDF2,NA,TOGARAM1,GPATCH3,KTI12,SMC5,C1orf174,TIMM23B,ZNF551,ZNF805,ZBTB10,RNPS1,HEXA,ZNF134,DDX47,ZNF845,CSNK1E,HAUS3,MTCP1,ZNF579,C6orf226,NA,TNF,FAM133B,COX19,PEDS1,MTFP1,UBE2V1,ZCCHC3,SHLD3,SMIM18,ALG11,CHMP4A,EID3,NCBP2AS2,DCP1A,NA,NA,ENSG00000283208 | Y | gene expression | up | Module 8 increasing expression over time in trajectory groups 1-4 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6I | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
17 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 429 | PBMC | CL:2000001 (peripheral blood mononuclear cell) | RNA-seq | PHTF2,FARP2,DBF4,MAP4K3,MATR3,STEEP1,BIRC3,HSF2,SCML1,ZNF800,FOXN3,USP36,ZFR,RC3H2,MRPS24,DDX20,TAF11,SMARCD1,THUMPD1,SMG6,ATP2B1,MGAT4A,DAZAP1,REXO1,SRCAP,HSP90AA1,DUSP12,CCNT2,ERC1,LYRM2,DIS3,NUFIP1,WBP11,ATG16L1,SRRT,LZTS3,FUS,DDX24,RGS1,NAT14,TMEM38B,WHRN,BTAF1,ABL1,SETD1A,HNRNPM,NA,PIK3IP1,JOSD1,HMGXB4,MIEF1,BRD1,ZBED4,PPP4R3A,PRELID3B,NDUFAF5,ADNP2,RNMT,SMAD7,ALG13,KPNA3,GABPB1,BRF2,CHRAC1,LEPROTL1,AKAP8,AKT2,YJU2,ARRDC2,ZNF14,PMPCB,DNAJC2,POLR1F,CBLL1,WASL,USP42,TNFSF8,RAPGEF1,CCSER2,GTPBP4,EDRF1,MTPAP,TFAM,RASD1,CCL7,CCL2,SH3D19,ZPR1,SC5D,CD69,PRDM4,CNOT2,KRR1,GOLT1B,RWDD1,CD83,ZBTB24,PRPF4B,HSPA9,PFDN1,BRIX1,TCERG1,BNIP1,CRBN,SLC25A36,FXR1,BBX,DNAJC27,ASB3,ID2,CEBPZ,PNO1,AAK1,SFPQ,BCAS2,RPF1,ZNF430,MAPKAP1,ACOT2,ZNF410,AVPI1,EPC1,DUSP4,COIL,TENT4B,PYROXD1,CRY2,ZNF639,FYTTD1,RBBP6,ZNF644,SLC25A16,DDX39A,KBTBD4,EXOSC9,SRSF6,SNAI1,RPS10,RIOK1,GTF3C4,TNFSF9,NR1D1,SBDS,ATG14,ZBTB1,ZNF484,RBM48,PRKRIP1,INO80,PSMA1,CCNT1,ILF3,NGDN,TAF4,ZNF317,ZNF331,PPIL4,LATS1,AAR2,CAPN7,SNRPA1,TIMM10B,LANCL2,NIP7,NXT1,POLR3F,TOE1,USPL1,SRRM1,ZNF414,MED10,CCDC59,MED6,THUMPD3,VHL,BHLHE40,USP30,KLHL36,DHX9,REV1,COG3,NUDT15,HUS1,TRA2B,ARPC5L,RANBP6,HAUS2,PARP6,SMAD6,RABGGTB,SELENOI,THUMPD2,RASGEF1B,G3BP2,AEBP2,KANSL2,ARMC5,MED9,PMAIP1,DUS3L,DPP9,DUSP10,SDE2,CENPC,NAF1,PIK3R1,FBXL17,TNFRSF21,ABT1,NFKBIE,ZNF92,MCPH1,UTP23,UHRF2,PPRC1,YTHDF1,CWC15,ARID5B,TKTL2,CSNK1G3,MBIP,QTRT2,BAG3,TADA1,JMY,ZNF256,ZFP36L2,RANBP2,SREK1,PPP2R5E,BTG3,PI4K2A,C16orf87,MIER3,ZKSCAN2,WHAMM,USP16,SUPV3L1,KAT6B,ZNF689,B3GNT7,BRPF1,TATDN2,DDX19B,DUSP2,PRXL2C,TSR2,MRPL10,GNE,TRAPPC10,CCDC12,SRSF2,TAMALIN,GMEB1,MATN1,ZNF326,ATF3,IER5,TFB2M,DCAF16,KBTBD8,CTLA4,ICOS,WDR43,AIMP1,NAA15,TIGD6,FOXK1,ZHX1,DYNLT3,CFL2,NEMF,DDX21,MOAP1,TAF1D,BAG5,CUL5,BORCS7,RRAD,ATF7IP2,TVP23A,NAB2,SMAD3,KLHL26,HSD11B1L,ZNF598,ULK4,RHOH,ZBTB5,ATF5,CA5B,NMD3,GPR183,HIC2,LUZP1,SPNS1,IFFO2,HNRNPA3,NANP,ADPRM,CDCA4,POLR1C,ASXL1,PTGER4,CXXC5,SLC25A33,ENC1,MRM3,RNASEH1,PRNP,KLF11,SMN1,NAA16,RAPH1,ZBTB21,RCE1,TOMM20,ZNF791,RBM4,TRMT10C,TTC9B,NR1D2,PDE12,DHX36,TVP23C,MARCKSL1,CLCF1,VPS37D,MEX3C,ANKLE2,CHD9,HIC1,TGIF1,NAP1L5,ARIH2,ZBTB33,JUN,HNRNPA0,NDUFV2,KLHL11,PSTK,AEN,ZBTB2,PHLDA2,ZBTB20,C5orf24,DIABLO,ACOT1,DUSP8,SOCS1,GPRIN3,BRWD1,NDUFA13,ANKRD37,INSIG1,GPATCH8,TSPYL4,DUSP28,RBM34,SKOR1,ASTL,HUS1B,TSPYL1,PNRC2,FAM53B,ZNF766,SUPT5H,ZNF34,ZNF124,ZNF136,ZNF460,MAK16,ZXDA,QRICH1,HELZ,UVRAG,ZXDB,YTHDF2,NA,TOGARAM1,GPATCH3,KTI12,SMC5,C1orf174,TIMM23B,ZNF551,ZNF805,ZBTB10,RNPS1,HEXA,ZNF134,DDX47,ZNF845,CSNK1E,HAUS3,MTCP1,ZNF579,C6orf226,NA,TNF,FAM133B,COX19,PEDS1,MTFP1,UBE2V1,ZCCHC3,SHLD3,SMIM18,ALG11,CHMP4A,EID3,NCBP2AS2,DCP1A,NA,NA,ENSG00000283208 | Y | gene expression | down | Module 8 decreasing expression over time in trajectory group 5 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6I | table S9 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | |||||||||||
18 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 451 | Nasal | CL:1001573 (nasopharyngeal epithelial cell) | RNA-seq | FGR,AOC1,TFPI,PLXND1,CAMKK1,SLC4A1,SKAP2,MPO,SOX8,ITGAL,ITGA2B,CACNA1G,TNFRSF12A,IFRD1,CEACAM21,CD79B,SCN4A,TKTL1,SYN1,JARID2,CAMK1G,NADK,PGLYRP1,MMP25,IL32,TENM1,TRAF3IP3,STAB1,BTK,ABHD5,PLAUR,TYROBP,CD22,ALOX5,CLDN11,TACC3,WAS,BID,SLC11A1,MARCO,HGF,ADGRA2,RUNX3,SERPINB1,C8B,BIRC3,PLEKHO1,TYMP,VIM,CD44,SLAMF7,TNFRSF1B,POU2F2,GRN,GAB2,MAP2K3,DAPK2,TIMP2,VCAN,MSR1,TG,ZIC2,LCP2,CELF2,UTS2,TNFRSF9,TNIP3,CYBA,RELT,NPFFR2,TRAF1,PRDM1,TMCC3,DGKG,TBXAS1,MXD1,SLC2A3,GNA15,BCAT1,DGAT2,VMP1,SEZ6,AHRR,TSPAN32,LPAR2,CNN2,CHI3L2,SBNO2,CALCRL,ANKRD44,MTHFD2,CD84,SPI1,KLF6,TNFRSF1A,TFE3,RASGRP2,PYGM,BCL3,KCNAB2,GAL,SPTB,FSTL3,JMJD6,UBE2D1,FCGR2B,STK10,ACAP1,MRVI1,PTGS2,FRY,SCARF1,VPS9D1,FOSL2,FSCN1,ACTB,ARHGAP15,PAG1,ICAM3,NFKB2,IL4R,APBB1IP,ACTN2,CST7,AMPH,FAP,EDN1,SLC1A3,SP140,CEACAM1,DUSP13,COL5A3,CPB2,CXCL2,MEF2C,PTPRC,STK17B,SMARCD3,FYB1,EPB41L3,SMAP2,HAL,GCKR,FCN1,PILRA,NME8,SNX10,PPEF1,LAT2,PPP1R15A,HSD17B14,FTL,ADAMTS2,PGS1,CETP,LPCAT2,CASS4,SMOX,SIGLEC1,TESC,P2RX7,RPH3A,FXYD5,GRAMD1A,CMTM1,KCNH4,GMIP,ARHGAP4,RGS1,YPEL3,ICAM1,IRAK3,LYZ,FETUB,CHRD,MCOLN1,PLEKHG2,NLRC4,CEBPE,RPGRIP1,COL9A3,UNC13D,VNN3,CDC6,PTGS1,SH2D3C,TLL2,IL11,CREM,TREM2,CRISP3,FKBP5,IL12RB1,MAST3,MYO9B,STX1B,EFNA2,CBARP,HCN2,CDHR5,GADD45B,MADCAM1,SERPIND1,OSM,GGT5,UPB1,GGT1,CYTH4,MFNG,LGALS1,CRYBB1,JOSD1,TOM1,NEFH,HMOX1,RASD2,PDGFB,NCF4,CSF2RB,CTSG,TRIM9,RIN3,HIF1A,NFKBIA,MMP9,SLCO4A1,NTSR1,COL20A1,RNF24,TRIB3,RASSF2,SIRPB1,CCM2L,HCK,BPI,SMCHD1,LIPG,TLR8,MCF2,BMX,RENBP,KCND1,PIM2,TIMP1,GLA,RUBCNL,TNFSF13B,MLNR,ACP5,FLT1,ACOD1,MEDAG,OLFM4,CORO1A,CCL22,NECAB2,COTL1,CRISPLD2,SLC7A5,MEFV,PRSS33,XYLT1,STX4,AQP9,AP3B2,IGDCC4,CEMIP,CA2,RIPK2,NDRG1,NEFM,KCNN4,DHDH,RELB,CD37,LYL1,RETN,FCER2,IL4I1,LILRB1,LILRA1,RASAL3,CLC,EBI3,BBC3,TGFB1,DENND3,CEACAM4,CD79A,ICAM4,ICAM5,CD33,ATP1A3,CARD8,PLA2G4C,SIGLEC5,HAS1,LILRB5,JAK3,KCNN1,ARRDC2,ELL,UPK1A,HAMP,HPN,SCN1B,GRIK5,NAMPT,PIK3CG,TFEC,HOXA1,HOXA3,HOXA5,CPVL,CCL24,FSCN3,IMPDH1,GIMAP2,TNFSF8,ENG,DOCK8,TYRP1,DDX58,PKD2L1,VSIR,FGF8,MAP3K8,PPIF,CSF3,SEPT4,P2RX1,GALK1,RASD1,CHRNE,ICAM2,CCL7,CCL2,CCL8,SLC16A6,FAM20A,RCVRN,PMP22,AREG,NEIL3,BST1,CRYAB,ATG2A,EHD1,NRXN2,MS4A6A,MS4A4A,ST3GAL4,FOLR3,IL10RA,SLC15A3,C11orf21,TCIRG1,CD69,CLEC2B,SELPLG,BIN2,IL23A,LIN7A,GLI1,SLC6A12,SH2B3,MANSC1,OAS3,ARHGDIB,VDR,ADGRD1,PTPN6,CLEC4A,DSE,NEDD9,GABRR2,RIPOR2,ULBP1,SLC26A8,SOD2,PHACTR1,CD83,BACH2,TREML2,E2F3,VNN1,VNN2,SLC16A10,HECA,UNC93A,VEGFA,HBEGF,SLC4A9,HAVCR1,BTNL8,LMNB1,ST8SIA4,PCDH12,C9,PDGFRB,STC2,HRH2,CD86,PFKFB4,ABTB1,CISH,IL1A,CCL20,OTOF,CYTIP,ITGA4,APC2,IFIH1,GCA,LOXL3,STAT1,IL1R2,IL1R1,IL1RL2,IL1RL1,IL18R1,IL18RAP,HPCAL1,QPCT,DLX2,LCT,PLCL1,KYNU,WIPF1,PLEK,ARID3A,AMPD2,RNF19B,LEPR,IVNS1ABP,NCF2,GADD45A,RGS2,KIF21B,MAP7D1,RRAGC,KMO,KCNQ4,SLAMF1,CD48,PADI2,GBP1,CR2,HSD11B1,SERPINC1,MMP8,APOA1,SLC8A2,KLF7,LRMP,CNR1,SGIP1,TNFAIP3,RAB32,ALDH8A1,SGK1,ARG1,SPP1,CCND2,TRPM6,PHF19,SLC46A2,NR4A3,CSF3R,FLVCR2,GPR68,ELOVL3,IFIT3,IFIT2,PRLHR,GNA13,DUSP1,TEK,MLANA,CD274,CXorf21,TNFSF18,PLXDC2,TNFSF11,TGFBI,EGR1,SOCS2,PDLIM2,TNFRSF8,TRIM25,TBX2,ADCY7,RGSL1,LHX4,GJB6,GJA3,CCRL2,CCR2,TMIGD3,CXCR4,FLT3,XPNPEP2,SASH3,HS3ST2,INHBA,TWIST1,PHF24,PLAU,SRGN,EGR2,ADGRE5,ARHGAP9,NCKAP1L,MMP19,NR4A1,PDE1B,NFE2,IL13RA2,COL10A1,TNFAIP6,BATF3,G0S2,KCNJ2,C4BPA,MOGAT1,PI3,FAM209A,PREX1,KCNS1,SNAI1,SEMG1,ZBP1,IL17C,IRGC,CEACAM8,F13A1,OR2B6,TREM1,CDKN1A,CPNE5,NRN1,CXCL6,EREG,GPR18,IRF1,HS3ST3B1,C1orf61,MBOAT7,OPRL1,IL1B,TNFSF9,TNFSF14,FOSB,RTN2,VASP,GPCPD1,CD93,SIRPD,S1PR4,IGFLR1,GPR42,FFAR2,HCST,FFAR1,CCR7,HTN1,PRKCG,CFP,RHOJ,EVI2A,FAM78A,FGD3,EDN2,HELB,TRPV5,ADGRE2,KLF2,TICAM1,VIL1,HIP1,FGL2,LRFN1,ZFP36,RASL11B,ADM2,ADORA2A,RAC2,LIF,APOBEC3A,RNF112,VGF,ARHGAP22,WDFY4,DLL4,ALDH1A2,CD68,ATP1B2,CDKN2D,SIGLEC9,ADCY4,RHBDF2,CHRNA10,CBFA2T3,STARD8,SAT1,ATP8B3,MAS1,FCHO1,SCO2,PXDN,SAG,HELZ2,LSP1,TNNT3,GMFG,SESN2,SMPDL3B,THEMIS2,MPP1,LILRB2,TEX101,F12,CAP1,ADGRE3,C3orf20,GFPT2,AOC3,NINJ1,RARA,CHSY1,FCRLA,EMILIN2,PTPRE,RAP1GAP2,KDM6B,CLEC10A,NES,FCRL2,SYT11,ALOX5AP,CHI3L1,MYBPH,CHIT1,EPSTI1,KL,BEX1,PRAM1,LGALS12,MYO18B,GIMAP4,LYVE1,IRAK2,GNAT2,PTPN22,ADAM30,RSAD2,MYCN,CMPK2,FST,HRH4,DOCK2,MYBPC3,RAB33A,DSC2,DSG1,SLC43A3,C5AR2,CTSL,ADAM19,HAVCR2,CCNJL,SDS,OASL,HTR1B,AKIRIN2,AMHR2,ITGA7,AGAP2,STX11,EGR4,DYSF,ZNF670-ZNF695,NPL,SP110,DOCK10,SERPINE2,PLXNC1,EDNRB,LCP1,IGF2BP3,IL6,AOAH,MYO1G,MTHFS,TM6SF1,LIMD2,TBR1,ERMN,HLX,IL10,IL1RN,IL36B,IL1F10,GYPC,SLC31A2,TLR4,NR5A1,MYC,NOV,PIM1,CAPN11,IRF4,GCM1,IER3,NRM,TLR2,MYO7A,LRRC32,SLCO5A1,SDCBP,FXYD2,CASP1,CASP5,THBS1,PLCB2,CYP19A1,SPTBN5,CYP1B1,SLC3A1,EMILIN1,MFSD13A,ENTPD1,STAT4,PARP9,PPCDC,SEMA7A,HERC5,PCDH10,GPAT3,FGF2,FBN2,PARVG,COL2A1,GLIPR1,DUSP6,DHH,GPR84,VPS37B,RHOF,REM2,TSSK4,KCNH5,GPR65,SLC24A4,SLC25A47,SLC12A6,TLE3,PSTPIP1,BCL2A1,CYP1A1,LMAN1L,FURIN,ITGAX,IGSF6,CLEC18B,NLRC5,KIFC3,CMTM3,CMTM2,OSGIN1,IRF8,CTRL,DPEP3,SPATA22,SSH2,ADCYAP1,MEP1B,NPC1,ARRB2,ZMYND15,ASGR1,PIK3R5,SLC16A3,SECTM1,PMAIP1,VAV1,DMRTC2,IFITM3,PGGHG,TRPM2,EMP3,SLC6A3,MYO1F,NLRP12,SIGLEC10,IGLON5,RCN3,SLC2A5,CELA2A,EFHD2,SH3BGRL3,EVA1B,FNDC7,C1orf162,CD53,FCGR2A,CRABP2,RGS16,ADAMTSL4,MCL1,S100A8,NUP210L,RIT1,PKLR,ACTA1,PPFIA4,PTPN7,NT5DC4,GPR17,PTH2R,CPNE9,CSRNP1,SLC22A14,NFKBIZ,TM4SF19,CORIN,FABP2,LHFPL2,CRHBP,ARHGAP26,TIMD4,TNIP1,KCNMB1,PLA2G7,DOK3,PPP1R18,DAAM2,NFKBIE,PNRC1,TAAR1,CREB5,TMEM140,MSN,CHST7,IL2RG,DOCK11,CSGALNACT1,ATP6V1B2,DOK2,SLC25A37,ST18,PRDM14,PLIN2,GBGT1,IDI2,NOTCH1,TMEM236,ZEB1,NRBF2,ANKRD1,HTR7,ITPRIP,ADM,MS4A3,FERMT3,CDC42EP2,CLEC1A,FCGR1A,LATS2,RGS18,RILPL2,SLC7A11,VENTX,ADAM8,FLI1,ACSL1,GLT1D1,ARL11,PSTPIP2,PDE3B,SH2D6,KCNK13,OLAH,ANKRD22,PRDM8,ZNF117,RAB3C,ACOXL,BMP6,RASSF3,NR4A2,FAM49B,ASAP1,LPCAT1,HS3ST3A1,ROBO4,NRGN,PGM5,GBP5,LY96,RABGEF1,ADAMTS1,WNT7A,EPHB1,PIP4P2,GOLGA7B,SAMSN1,SLC7A7,PIK3AP1,VSIG4,OTOA,ELMO1,SLA,RAB39B,AFF2,KIF5A,BATF,PPEF2,BACH1,TDRD9,FGF18,CD109,PRG3,ITGAD,GHRL,SYN2,CLEC18C,ST3GAL2,TSC22D3,KCNJ15,ETS2,CABP1,DUSP2,HPD,COLEC12,CD1D,NCF1,ALAS2,ITLN2,SPATA2L,CDA,ADAMTS4,FCER1G,TOMM40L,MPZ,IFNGR2,SIM2,PADI4,BTG2,HK2,RGL4,SPRR2G,ISL2,FAM131B,ZYX,PTGIR,FNDC5,CILP2,U2AF1,GAB3,ICOSLG,LRRC3,ITGB2,SLC2A6,HIPK4,SHKBP1,JAML,IL6R,CHRNB2,NBEAL2,HK3,IER2,SH2B2,SQSTM1,CELF5,NPHS1,ITGA5,FMNL3,GRASP,TREML1,CXCL16,BCL6B,ASGR2,AMDHD2,TAL1,CTRC,RBP7,SLC25A34,DRAXIN,MATN1,LAPTM5,ALPL,GBP2,NLRP3,TRIM58,SLAMF9,OLFML2B,FCRLB,FCGR3B,FAM71A,ATF3,IER5,OXER1,IL20,IL24,REL,MSX1,TNFAIP8L2,RNF149,CDC42EP3,ARHGAP25,S100A9,S100A12,ANTXR2,IGFN1,PROK2,TMEM169,CXCR1,FCRL1,SPTA1,MNDA,AIM2,CCNL1,PTX3,DCLK3,PCOLCE2,CXCL3,CXCL5,PPBP,CXCL1,PLB1,SPDYA,CCR1,ZC3H12A,ZDHHC19,MELTF,SLC9B1,CAMP,PITX2,FAM198B,ANKRD33B,SPINK1,EBF1,CSF2,CGAS,IL22RA2,ANKRD55,MYOZ3,TAGAP,PGAM2,DLC1,DEFA4,DCSTAMP,GEM,UBAP1,SYK,ABCA1,NFIL3,TMEM71,LLCFC1,CYBB,ASB11,GJB2,SKA3,DRGX,CLEC1B,TMEM52B,ARL5B,RAB8B,DCHS1,SERPINB8,PRKCB,CLEC4E,CLEC4D,CDH16,YPEL4,LDHAL6A,ANPEP,ANKDD1A,STX3,C15orf48,SCG5,GREM1,TSC22D4,MS4A6E,MS4A7,MS4A14,TGM6,MEI1,SAMD14,C15orf39,GOLGA6C,NOD2,SNX20,LOXHD1,DPEP2,ART5,ACAA2,CA4,TPM4,MIDN,CORO6,NFKBID,ANKRD33,LAIR1,LAIR2,PLIN4,SEMA6B,KRT1,ANGPTL4,IGFBP6,CD300C,CD300A,TMEM88,TMC8,CYP7A1,RAB3IL1,BEST1,FTH1,SLC3A2,ATG16L2,BATF2,CCDC88B,XIRP1,INSM2,FILIP1L,TAP1,MLKL,RHOH,TXNDC2,GFRA2,IL7R,WFDC12,SHOX2,BTNL3,INPP5D,SIGLEC7,XPO6,MN1,GCSAML,RAB24,GPRIN1,OR5AU1,RNASE2,RNASE3,PTAFR,CXCL8,COL22A1,SDC2,HTRA4,GPR183,ZEB2,CSGALNACT2,MUC3A,ITGAM,TAS1R3,MYO7B,ZPLD1,NSG2,FABP4,FOS,TCAF2,ZNF804A,METTL7B,CD14,PFKFB3,SERPINB9,IRX1,GTSF1,HTRA3,GPR27,OSCAR,CEACAM3,S1PR1,FPR2,FPR1,GIMAP8,MUC7,NETO2,JUNB,LRG1,NPTX1,CHST11,KRT20,PIK3CD,P2RY6,S100Z,RGS19,RASGRP4,NHLH1,COL8A2,NINJ2,C3AR1,OR10H2,CYP4F22,LRRC15,MOB3A,CALB2,FRMD3,ISG20,CEBPB,CLEC7A,CLEC12A,IL16,PDZD3,FAM170B,NIPAL4,RAB43,SNX32,EGFL7,LVRN,MYD88,OXSR1,SLC22A13,XKR3,HPSE,HSPA6,PARP14,CYSLTR1,MAB21L3,LIPM,SLC2A14,PPP1R3B,MAP3K11,TRIB1,KCNK7,OLR1,TNFRSF10D,TNFRSF10C,NABP1,XCR1,SULT1B1,SLC19A1,STAT5B,CD7,RNF213,TIGD3,PLK3,PHOSPHO1,C1QTNF1,NRROS,TLR10,TLR1,TLR6,LEP,KIAA1551,ADGRE1,NLRP6,P2RY14,AMZ1,SLC22A1,CHST2,WFDC5,DDIT3,CATSPER1,CCNE2,NRIP3,LPL,TBC1D10C,MCTP1,LRRC25,LONRF3,FOSL1,GAPT,TSPEAR,JAKMIP2,KCNE5,SPHK1,SYNE3,SLCO3A1,DIRAS1,OR5AN1,GNG7,KBTBD11,HORMAD2,BASP1,METRNL,RHOG,B3GNT8,TRIM72,DEFB4B,GJD4,FBXO39,HIC1,SAMD9L,GPR4,RBM44,CD163,JUN,IL17RA,CD163L1,FAM20C,CALHM5,SH2D4B,TMPRSS9,KCNG2,CEP295NL,THBD,CD300LB,OPLAH,MSC,PER1,HES7,PXT1,GGN,LDLRAD3,TMEM151A,RAB39A,EGR3,SLC17A8,SLITRK4,LSMEM2,RNF151,ARL14,APOBEC3B,CDH5,MYADM,GPBAR1,TMEM150B,F2,PNPLA1,HCLS1,ARHGAP45,FUT7,MB21D2,SSTR2,CHST13,MAP3K15,CXCR2,OR56A1,ST20,OR52N1,LSMEM1,TRAPPC5,LRRC75A,DDX60L,AATK,DDN,ZNF467,P2RY13,TNFSF15,GPR3,TMEM252,ADGRB1,OR52K2,CHST15,ADIG,FAM89A,KCNIP1,P2RY8,FAM159A,TMIGD1,AP1S2,SPACA6,FES,CSF1R,PPP1R27,MAFA,HCAR2,GALNT9,COL18A1,ADGRG3,MCEMP1,SLC8A1,BEGAIN,TMEM119,C2CD4C,TMEM121B,SPDYE4,FHL3,PMCH,GPR132,MX2,MEX3B,PCBP3,HIST2H3D,ZNF438,CCR3,RFLNB,UPP1,LRRC55,ST6GALNAC3,DENND5A,C1QTNF12,OLIG1,S100A7A,CSF1,A3GALT2,BPIFC,PTP4A3,TMEM255B,GAST,SOCS3,PDE4B,SNN,CLDN6,APOBR,PRR16,FMNL1,MAFF,C5orf47,IFITM2,TNFAIP2,GP1BA,UBALD2,NOTUM,KLHL33,IL3RA,RGPD2,SOCS1,IRF7,PDE6G,SYN3,SNAI3,IFIT1,IKZF1,EVI2B,TRIM69,ATP6V0C,IFITM1,FFAR3,TAS2R60,C16orf54,ZNF267,IRS2,C7orf61,LCE3E,CCIN,GRK1,PLK5,DLEU7,CD300LF,LRRC70,CYP4F2,BTLA,THBS2,C9orf47,CD300E,FCAR,GNG2,ARHGAP30,CYP4F3,SPATC1,PDE2A,PRG2,LILRB4,TNFRSF4,KRT14,RTN4RL2,GPR141,TMEM262,LILRA5,FPR3,HIST1H1T,C11orf96,NANOS3,ISG15,RGPD1,PERM1,TRPV2,C9orf153,DNAH17,CARD9,SOWAHD,CLEC17A,OVCH1,RTP5,TREML4,PLA2G4E,EYS,DCUN1D3,POTEE,HES4,IGFL1,PEAK3,PLSCR1,PRR19,C10orf99,H3F3C,CLEC2A,SELL,INSC,CLN3,CC2D2B,IDO2,SPRED3,TMCO2,CALHM6,CNR2,ASTL,AC099489.1,LRRK2,NYX,LITAF,VSTM1,ANKRD34B,ZAR1L,C6orf222,SH2D5,ZFP92,NCR1,IL1RAP,MYT1,SIRPB2,NLGN3,CD55,NTNG2,ELAVL3,ASMT,RFX8,MME,HSH2D,OR52K1,ADA,ARID5A,HCAR1,PDLIM7,FLNA,ZNF705A,SERTAD1,ANXA6,IGF2R,SERPINA1,IL27,SVIL,PELI1,DACT3,OR6N1,C5AR1,COL13A1,GZMM,ELANE,CCDC154,MFAP5,MPEG1,SERPINB2,CFD,STPG3,FAM212B,SGTB,PRB3,FAM49A,PLCG2,CLEC9A,FCGR1B,SIRPA,GRK6,CLEC4C,CACNA1E,CSF2RA,FKBP1C,OR5B21,PIM3,RTP2,MMP17,FAM19A2,TEX45,F5,MSRB1,APCDD1L,RCSD1,ALPK2,PNP,GK,SUCNR1,GJC2,R3HDM4,GRK5,SFMBT2,L1CAM,TBKBP1,CR1,FCGR3A,LOR,PRR9,HIST2H2AA3,SMIM9,IFIT1B,LIPN,RPA4,MAFB,NHSL2,ZDHHC18,C10orf128,CXorf65,COL11A2,TAP2,COL15A1,AGER,CD300LD,CARD16,MPIG6B,LY6G6C,AIF1,LST1,MICB,HLA-C,LILRB3,HLA-E,TRIM40,HLA-G,HLA-F,FAM196B,CD177,PABPN1L,CLLU1OS,TMEM240,SAMD9,TMSB4X,C17orf107,DENND1C,CRLF2,ARRDC5,CLEC6A,OLIG2,SERPINB4,MLLT11,MXD3,SIPA1,ERV3-1,GBP7,GPSM3,S1PR3,FAM209B,ATP6V1G2,PPM1N,SH3D21,C19orf38,FOXI3,PLIN5,C10orf105,EFCAB8,CELA2B,C1orf167,IFI30,FNIP1,CKLF,RNASEK,PPP1R3G,LINGO3,TAS2R41,CEBPD,BTBD19,C10orf55,BCL6-AS1,PRRT4,LINC00694,C5orf67,OR52I2,LTA,LTB,ORM2,ORM1,GK3P,NFE4,PRB4,C17orf105,SBK3,TMEM253,TNF,NFAM1,KIAA0040,IRGM,STPG4,TLR9,DEFA3,LILRA4,LILRA2,TEX35,TNFRSF13B,L1TD1,HLA-DOB,PLEKHO2,GNG10,PSG4,AF130351.1,IFITM10,ETV5,LILRA6,ASPRV1,TWF2,INSL3,TARM1,ACTN3,AC069368.1,NAIP,RNF103-CHMP3,TMEM158,PTTG2,CCDC71L,LYN,SIGLEC14,AP5B1,SIGLEC12,AP000781.2,EID3,CARD17,HCAR3,RAB44,AP002373.1,CLEC12B,CAPNS2,HP,MGAM,MGAM2,MAP1LC3B2,CLEC5A,C17orf49,TUBB3,AL110118.2,ITGB3,ST20-MTHFS,AL136295.5,C6orf229,MRC1,HSPB9,AL049634.2,XKR7,FIGNL2,PECAM1,TPBGL,MMP12,AC119396.1,AC134669.2,RASSF5,AC011498.4,AC010616.1,AC007192.1,AC243756.1,RASL10B,SRXN1,MILR1,HIST2H2AA4,DOC2B,AC025594.2,EPOP,ADRA2B,TBC1D3B,LENG9,CCL4,CCL18,C17orf98,CCL4L2,CCL3L3,PIK3R6,DACH1,PADI6,FP565260.3,HIST1H2BF,MARCKS,CCL3,SSTR3,TMEM272,AL031777.3,AL138694.1,FAM169B,MYOCOS,AC051649.2,AC106774.10,AC119674.2,AP003071.5 | Y | gene expression | associated | Module 1 signifcantly associated with clinical outcome at longitudinal visits | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure S12E | table S11 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | unsure if tissue type ID is correct | ||||||||||
19 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 451 | Nasal | CL:1001573 (nasopharyngeal epithelial cell) | RNA-seq | TMEM132A,DLX6,MLXIPL,FMO1,DCN,LTF,SLC38A5,CNTN1,PHLDB1,SNAI2,CYP3A43,KCNG1,LRRC7,C6,TNC,PREX2,ADAMTS6,ELN,DKK3,COL23A1,METTL24,ENTPD2,KCNH2,PHF21B,MSH4,CAMK2B,LZTS1,SLC6A16,NGFR,TRO,NAV3,PDZD4,SDK2,ABCC9,TRPM5,MYO3B,SLC6A15,SPEG,TRHDE,CRMP1,MOV10L1,TP63,TEAD2,WSCD2,MCAM,PAK3,FGFR1,SMC1B,RUNX1T1,TNS1,MOXD1,KCNN2,IGSF9B,CDH7,COL19A1,SLCO1A2,COL16A1,WNT11,FAT2,HSD17B2,NID2,PTHLH,CHGB,NOS1,LAMB4,NRCAM,LAMB1,SLC22A17,SEMA6A,FMO2,MYO3A,MMP11,SOX10,BMP7,TUBB1,MYL9,PAK5,PPP1R16B,LAMA1,ZC3H12B,SCML2,FGF9,ZNF423,WFDC1,SALL1,RASL12,SFRP1,WISP1,TLE6,OLFM2,SYDE1,APLP1,TMEM59L,RUNDC3B,NPTX2,AEBP1,LHX2,ACTA2,SORCS1,ASPA,SLC6A4,ASIC2,FOXN1,SULT1E1,ODAM,PF4V1,B3GAT1,KIAA1549L,KCNA1,COL12A1,KHDRBS2,BVES,NR2E1,SMOC2,TBX18,SEMA5A,GHR,SPARC,CDH6,FGF1,DPYSL3,CNTN3,COL7A1,ADAM23,TACR1,FN1,KCNC4,DNAJC6,NID1,BMP8B,MFAP2,MUC5B,OLFM3,GDA,CNRIP1,GRIA2,GLT8D2,A1BG,DEPDC7,CPXM2,FMOD,RECK,CALD1,NUDT10,NECAB1,HIF3A,NDP,MT1G,IL37,WNK4,ARMCX1,NXF5,ZC4H2,OR7C1,WFIKKN1,FBXL16,ZNF835,SGCE,GAL3ST1,PDE11A,CHN1,ISLR,GAMT,PRRG3,NXNL2,LRCH2,DPP6,BMP15,COL5A1,FIBCD1,PNCK,DUSP9,RGN,NAPSA,RAMP2,TMEM204,LRRC9,PODNL1,DLG4,KANK4,ATP8A2,MTUS2,LGR6,POSTN,IRS4,GGT2,SEC14L4,TEX15,GSTM5,SPOCD1,DTNA,COL4A2,CLDN10,NREP,MSI1,ADGRB3,EPHA7,FAIM2,SLC19A3,WNT10A,EDAR,ALDH1L2,STAB2,NACAD,ZFP37,ENPP2,DMRT1,FXYD6,UNC13C,SMAD6,SEMA6D,CGREF1,KHK,FGF5,MMRN1,ENPEP,KIAA1644,PRICKLE1,LGR5,LUM,SSTR1,NOVA1,FGF7,CELF6,NTRK3,TGFB1I1,ADAMTS18,CDH11,CDH13,RHBDL3,SLC14A1,SLC13A5,RNF165,MAPK4,FKBP10,COL6A1,COL6A2,ADAMTS10,FBN3,SLC47A1,PRDM16,ITGA10,HMCN1,ST6GAL2,NXPH2,THSD7B,ZNF385B,NYAP2,ACKR3,CNTN4,PTPRG,COL8A1,BOC,TMEM108,AMT,UCN2,EPHA5,SNCA,RNF175,NKD2,UGT3A1,TSLP,ADAMTS19,CXCL14,TENM2,TTBK1,VIP,VWDE,DENND2A,GPC3,DNAJC5B,DPYS,PLPPR1,ST8SIA6,CDHR1,CYP17A1,NCAM1,P4HA3,SCN2B,CDH22,MMP3,CNKSR2,ADGRL3,FAM124A,LYPD1,GPM6A,ATP6V1G3,CCDC3,ANO4,EDNRA,KCNJ1,GFRA1,SCHIP1,ASTN1,SPOCK1,GUCY1A2,GRIA4,GJA1,CLEC4F,STK32B,PTPRD,KCTD15,CACNA2D1,SEMA3D,ANKRD29,THY1,ANKH,ROBO3,TNIK,WNT3A,OBSCN,PDLIM3,NCAM2,JAM2,CA10,DKK2,CNTNAP5,ODF1,MARVELD1,MMP16,TSPAN7,NMNAT2,NRG1,ARMC12,ERG,TSPAN18,RADIL,SV2A,STC1,UROC1,FTCD,ZNF208,FCN2,BRSK1,SLC45A1,PDPN,MEGF6,DIRAS3,HFM1,KCNT2,TDRD5,CAPN13,VSNL1,NPPC,CCKAR,CADPS,TM4SF18,LRRC2,HEYL,OTOP1,CLDN19,NDST3,GUCY1A3,ASB5,NPY1R,EGFLAM,TERT,ACSL6,LEAP2,SAMD3,DACT2,GPR85,BMPER,COL1A2,FNDC1,ADCY1,TNFRSF11B,GPR146,FREM1,DIRAS2,ZMAT4,CPA6,SLITRK5,DACT1,FAM69B,JCAD,CYP2C19,NELL1,CACNB2,HACD1,JAM3,GLB1L3,FBN1,CYYR1,MFAP4,ELFN2,TERB2,B4GALNT2,CERCAM,OR51I1,NAALADL1,COL3A1,GDNF,UGT3A2,NSG1,SFTPB,CPT1C,STK32A,GP2,SCN9A,LDB2,LINGO1,CALML6,FRMPD4,ZFPM2,MYRIP,EMX2,CDH2,SGCD,PKIA,XKR6,DLK2,SCG2,ANKRD20A4,SYNPO2,PDE3A,FAM71D,ARPP21,LRRN3,ADGRG2,MSRB3,SNX31,BRSK2,CADM2,CSRP2,DPP10,PRIMA1,B3GNT4,RIMS2,VPS37D,FIBIN,KCNA2,AC024940.1,MAMDC4,LRRC75B,PRSS42,TMEM151B,IGSF22,WSCD1,FJX1,GRM8,NRXN1,FAM71E2,TDRP,ADGRD2,ALX1,CCDC129,SERTM1,GAS1,RNF182,MAB21L1,S1PR5,FDCSP,ANKRD62,RGMA,GABRG3,FIGN,B4GALNT4,OR5P3,NXPH4,BGN,KCNB2,PAPPA,GRID1,RGS7,NEB,GPC6,CTNNA3,PRR36,PLGLB1,CCBE1,OR5P2,OVCH2,C19orf71,LHFPL6,NPBWR1,SLC35F3,PNMA3,ZNF730,KIRREL1,KCNH8,ADRA2C,SLIT3,C6orf58,SMIM10,DRD1,JAG2,LCN12,SORCS2,SLC22A10,FLRT2,ROR1,SPATA45,FAM212A,NDUFA4L2,NTF3,POU3F1,C6orf201,NRG3,KCNQ5,KRT5,BPIFB4,MYT1L,MPPED1,ZNF732,MAPT,EMID1,TMPRSS6,MT1X,BCAM,DCC,COL4A1,COX8C,CXorf67,C2orf88,PEAR1,OR7A5,COL25A1,ZNF177,PCDH18,SPOCK3,FAT4,CGB7,NUDT11,CACNA1H,WNK3,COL27A1,CHRNG,ZFP28,ADGRA1,OGDHL,DMBX1,KLHL14,KEL,DLGAP2,ZNF667,PEG3,MT-ND6,GPX6,DLL1,OXCT2,MT-ND2,MT-ND5,ITPRIPL1,MT-ND4,MT-ND1,MT-ATP6,STUM,SAMD5,C10orf62,FOXO6,NEU4,NOTCH4,SP5,PNMA8B,PCDHA9,PCDHA5,CCDC144NL,VIT,MGAT4D,NT5M,C15orf59,CYS1,DOK6,XKR4,MT-ND4L,FAM106A,KRT222,ZNF90,MEF2B,SEC14L6,RAD51AP2,EVPLL,UBE2QL1,TENM3,FAM19A5,NTF4,ELFN1,ERVMER34-1,TEX46,MT-ATP8,CLDN25,ZNF883,IQCF3,DIRC3,C9orf172,AC126755.2,PNMA6A,UBE2L5,PNMA2,ARHGEF25,TDGF1,BGLAP,PEG10,PTCHD4,PCP4L1,PCDHA11,AC114296.1,PABPC4L,AC005885.1,TRIL,OR13A1,BUB1B-PAK6,FRRS1L,ANKRD20A1,PRSS46,PCDHGA4,SPON1,AC055811.2,ANXA8L1,ANXA8,ZNF488,MYO15B,AC008770.3,AC023509.3,AC087289.3,ZNF285,EDDM13,AC003002.2,AC008687.4,TRABD2B,NXF2,NXF2B,C8orf44-SGK3,AL591806.3,HIST2H4A,MROH7-TTC4,MUSTN1,ZBTB8B,C8orf89,NPHP3-ACAD11,XKR5,RIMBP3,ANKRD20A3,RAB7B,GPR179,RDM1,AC023491.2,IQCJ-SCHIP1,PRRT1B,AC098650.1,AL590132.1,BTBD8,AC108941.2 | Y | gene expression | up | Module 3 increased expression in severe trajectory groups 4-5 at visit 1 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 2 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-19 | mild, moderate, severe | PMID: 37327781 | 2023-05-23 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6K | table S11 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | unsure if tissue type ID is correct | ||||||||||
20 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 451 | Nasal | CL:1001573 (nasopharyngeal epithelial cell) | RNA-seq | TMEM132A,DLX6,MLXIPL,FMO1,DCN,LTF,SLC38A5,CNTN1,PHLDB1,SNAI2,CYP3A43,KCNG1,LRRC7,C6,TNC,PREX2,ADAMTS6,ELN,DKK3,COL23A1,METTL24,ENTPD2,KCNH2,PHF21B,MSH4,CAMK2B,LZTS1,SLC6A16,NGFR,TRO,NAV3,PDZD4,SDK2,ABCC9,TRPM5,MYO3B,SLC6A15,SPEG,TRHDE,CRMP1,MOV10L1,TP63,TEAD2,WSCD2,MCAM,PAK3,FGFR1,SMC1B,RUNX1T1,TNS1,MOXD1,KCNN2,IGSF9B,CDH7,COL19A1,SLCO1A2,COL16A1,WNT11,FAT2,HSD17B2,NID2,PTHLH,CHGB,NOS1,LAMB4,NRCAM,LAMB1,SLC22A17,SEMA6A,FMO2,MYO3A,MMP11,SOX10,BMP7,TUBB1,MYL9,PAK5,PPP1R16B,LAMA1,ZC3H12B,SCML2,FGF9,ZNF423,WFDC1,SALL1,RASL12,SFRP1,WISP1,TLE6,OLFM2,SYDE1,APLP1,TMEM59L,RUNDC3B,NPTX2,AEBP1,LHX2,ACTA2,SORCS1,ASPA,SLC6A4,ASIC2,FOXN1,SULT1E1,ODAM,PF4V1,B3GAT1,KIAA1549L,KCNA1,COL12A1,KHDRBS2,BVES,NR2E1,SMOC2,TBX18,SEMA5A,GHR,SPARC,CDH6,FGF1,DPYSL3,CNTN3,COL7A1,ADAM23,TACR1,FN1,KCNC4,DNAJC6,NID1,BMP8B,MFAP2,MUC5B,OLFM3,GDA,CNRIP1,GRIA2,GLT8D2,A1BG,DEPDC7,CPXM2,FMOD,RECK,CALD1,NUDT10,NECAB1,HIF3A,NDP,MT1G,IL37,WNK4,ARMCX1,NXF5,ZC4H2,OR7C1,WFIKKN1,FBXL16,ZNF835,SGCE,GAL3ST1,PDE11A,CHN1,ISLR,GAMT,PRRG3,NXNL2,LRCH2,DPP6,BMP15,COL5A1,FIBCD1,PNCK,DUSP9,RGN,NAPSA,RAMP2,TMEM204,LRRC9,PODNL1,DLG4,KANK4,ATP8A2,MTUS2,LGR6,POSTN,IRS4,GGT2,SEC14L4,TEX15,GSTM5,SPOCD1,DTNA,COL4A2,CLDN10,NREP,MSI1,ADGRB3,EPHA7,FAIM2,SLC19A3,WNT10A,EDAR,ALDH1L2,STAB2,NACAD,ZFP37,ENPP2,DMRT1,FXYD6,UNC13C,SMAD6,SEMA6D,CGREF1,KHK,FGF5,MMRN1,ENPEP,KIAA1644,PRICKLE1,LGR5,LUM,SSTR1,NOVA1,FGF7,CELF6,NTRK3,TGFB1I1,ADAMTS18,CDH11,CDH13,RHBDL3,SLC14A1,SLC13A5,RNF165,MAPK4,FKBP10,COL6A1,COL6A2,ADAMTS10,FBN3,SLC47A1,PRDM16,ITGA10,HMCN1,ST6GAL2,NXPH2,THSD7B,ZNF385B,NYAP2,ACKR3,CNTN4,PTPRG,COL8A1,BOC,TMEM108,AMT,UCN2,EPHA5,SNCA,RNF175,NKD2,UGT3A1,TSLP,ADAMTS19,CXCL14,TENM2,TTBK1,VIP,VWDE,DENND2A,GPC3,DNAJC5B,DPYS,PLPPR1,ST8SIA6,CDHR1,CYP17A1,NCAM1,P4HA3,SCN2B,CDH22,MMP3,CNKSR2,ADGRL3,FAM124A,LYPD1,GPM6A,ATP6V1G3,CCDC3,ANO4,EDNRA,KCNJ1,GFRA1,SCHIP1,ASTN1,SPOCK1,GUCY1A2,GRIA4,GJA1,CLEC4F,STK32B,PTPRD,KCTD15,CACNA2D1,SEMA3D,ANKRD29,THY1,ANKH,ROBO3,TNIK,WNT3A,OBSCN,PDLIM3,NCAM2,JAM2,CA10,DKK2,CNTNAP5,ODF1,MARVELD1,MMP16,TSPAN7,NMNAT2,NRG1,ARMC12,ERG,TSPAN18,RADIL,SV2A,STC1,UROC1,FTCD,ZNF208,FCN2,BRSK1,SLC45A1,PDPN,MEGF6,DIRAS3,HFM1,KCNT2,TDRD5,CAPN13,VSNL1,NPPC,CCKAR,CADPS,TM4SF18,LRRC2,HEYL,OTOP1,CLDN19,NDST3,GUCY1A3,ASB5,NPY1R,EGFLAM,TERT,ACSL6,LEAP2,SAMD3,DACT2,GPR85,BMPER,COL1A2,FNDC1,ADCY1,TNFRSF11B,GPR146,FREM1,DIRAS2,ZMAT4,CPA6,SLITRK5,DACT1,FAM69B,JCAD,CYP2C19,NELL1,CACNB2,HACD1,JAM3,GLB1L3,FBN1,CYYR1,MFAP4,ELFN2,TERB2,B4GALNT2,CERCAM,OR51I1,NAALADL1,COL3A1,GDNF,UGT3A2,NSG1,SFTPB,CPT1C,STK32A,GP2,SCN9A,LDB2,LINGO1,CALML6,FRMPD4,ZFPM2,MYRIP,EMX2,CDH2,SGCD,PKIA,XKR6,DLK2,SCG2,ANKRD20A4,SYNPO2,PDE3A,FAM71D,ARPP21,LRRN3,ADGRG2,MSRB3,SNX31,BRSK2,CADM2,CSRP2,DPP10,PRIMA1,B3GNT4,RIMS2,VPS37D,FIBIN,KCNA2,AC024940.1,MAMDC4,LRRC75B,PRSS42,TMEM151B,IGSF22,WSCD1,FJX1,GRM8,NRXN1,FAM71E2,TDRP,ADGRD2,ALX1,CCDC129,SERTM1,GAS1,RNF182,MAB21L1,S1PR5,FDCSP,ANKRD62,RGMA,GABRG3,FIGN,B4GALNT4,OR5P3,NXPH4,BGN,KCNB2,PAPPA,GRID1,RGS7,NEB,GPC6,CTNNA3,PRR36,PLGLB1,CCBE1,OR5P2,OVCH2,C19orf71,LHFPL6,NPBWR1,SLC35F3,PNMA3,ZNF730,KIRREL1,KCNH8,ADRA2C,SLIT3,C6orf58,SMIM10,DRD1,JAG2,LCN12,SORCS2,SLC22A10,FLRT2,ROR1,SPATA45,FAM212A,NDUFA4L2,NTF3,POU3F1,C6orf201,NRG3,KCNQ5,KRT5,BPIFB4,MYT1L,MPPED1,ZNF732,MAPT,EMID1,TMPRSS6,MT1X,BCAM,DCC,COL4A1,COX8C,CXorf67,C2orf88,PEAR1,OR7A5,COL25A1,ZNF177,PCDH18,SPOCK3,FAT4,CGB7,NUDT11,CACNA1H,WNK3,COL27A1,CHRNG,ZFP28,ADGRA1,OGDHL,DMBX1,KLHL14,KEL,DLGAP2,ZNF667,PEG3,MT-ND6,GPX6,DLL1,OXCT2,MT-ND2,MT-ND5,ITPRIPL1,MT-ND4,MT-ND1,MT-ATP6,STUM,SAMD5,C10orf62,FOXO6,NEU4,NOTCH4,SP5,PNMA8B,PCDHA9,PCDHA5,CCDC144NL,VIT,MGAT4D,NT5M,C15orf59,CYS1,DOK6,XKR4,MT-ND4L,FAM106A,KRT222,ZNF90,MEF2B,SEC14L6,RAD51AP2,EVPLL,UBE2QL1,TENM3,FAM19A5,NTF4,ELFN1,ERVMER34-1,TEX46,MT-ATP8,CLDN25,ZNF883,IQCF3,DIRC3,C9orf172,AC126755.2,PNMA6A,UBE2L5,PNMA2,ARHGEF25,TDGF1,BGLAP,PEG10,PTCHD4,PCP4L1,PCDHA11,AC114296.1,PABPC4L,AC005885.1,TRIL,OR13A1,BUB1B-PAK6,FRRS1L,ANKRD20A1,PRSS46,PCDHGA4,SPON1,AC055811.2,ANXA8L1,ANXA8,ZNF488,MYO15B,AC008770.3,AC023509.3,AC087289.3,ZNF285,EDDM13,AC003002.2,AC008687.4,TRABD2B,NXF2,NXF2B,C8orf44-SGK3,AL591806.3,HIST2H4A,MROH7-TTC4,MUSTN1,ZBTB8B,C8orf89,NPHP3-ACAD11,XKR5,RIMBP3,ANKRD20A3,RAB7B,GPR179,RDM1,AC023491.2,IQCJ-SCHIP1,PRRT1B,AC098650.1,AL590132.1,BTBD8,AC108941.3 | Y | gene expression | down | Module 3 decreased expression in trajectory groups 1-4 at longitudinal visits | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 3 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-20 | mild, moderate, severe | PMID: 37327782 | 2023-05-24 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6L | table S11 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | unsure if tissue type ID is correct | ||||||||||
21 | 2023-10-20 | Participants hospitalized with symptoms or signs of COVID-19 from 20 hospitals | 18 | years | 451 | Nasal | CL:1001573 (nasopharyngeal epithelial cell) | RNA-seq | CYP26B1,PRSS22,PRSS3,GPRC5A,CLCA4,PRSS8,MRPS24,DLX3,KIF26A,PPP2R2C,ANO8,BRINP1,CEACAM6,ACHE,TMPRSS11E,SLC15A1,OAS1,P3H2,TIMP3,EEF1A2,SLC52A3,VGLL1,GDPD3,NDRG4,TGM5,CALB1,PLAT,EPHX3,CNFN,DLX5,DKK1,KRT23,ALOX12,GNRHR,VWF,GPRC5D,RASAL1,ENDOU,FZD10,ADGRG6,MDFI,IRX4,GNAT1,KCNIP3,DUSP4,CSTA,FAM126A,ARHGAP40,PMEPA1,XG,LYPD3,TRIP10,BMP2,SLURP1,NR1D1,STATH,AIF1L,CDC42EP1,KRT17,CPA4,STRIP2,CHAC1,KLK10,KLK8,CYP2E1,ULBP2,ANO1,SLC6A11,SPINK5,EMP1,DSG3,SLC37A2,TBX3,KCP,ESPL1,TMBIM1,SCEL,IL36G,IL36A,IL36RN,KLF4,CTSV,GCOM1,DUSP5,ZNF365,MYPN,PHLDA1,GCNT3,HAPLN3,RHCG,PADI1,CYR61,TINAGL1,ECM1,ANXA9,DUSP10,FLG2,CRNN,S100A7,FLG,MALL,SPINK7,SLC22A3,FAM83A,CDKN2B,INA,ESAM,HSPB8,ADGRF4,TMPRSS11D,CERS3,GPR78,FZD7,RAET1L,CLDN17,FBXO32,SLC34A2,GRHL3,XDH,FAM46B,GPR153,PLA2G2F,PGLYRP3,PIP,GPSM1,LY6K,PTGER1,PLCD3,PDZK1IP1,CAMK2N1,LCE3D,IVL,SPRR3,SPRR2D,ALPP,DCST1,S100P,TMC1,C10orf10,SLC39A2,RNASE7,SMCO2,ABTB2,ASPG,PLEKHF1,SYNPO2L,SERPINB7,A2ML1,BEAN1,SERPINB12,TTYH1,TRPV3,KLK5,KLK6,KLK11,KLK13,KRT80,GSDMA,VASN,KLHL30,HR,LGI3,BMP1,VAMP5,CPLX1,KLK7,SH3TC2,SPRR1B,SPRR1A,CRCT1,CLIC3,KRT78,SDR9C7,KRT6C,KRT4,KRT13,HOPX,DEFB4A,MAL,PRSS27,RND1,OVOL1,ABLIM3,MMRN2,NWD2,SLC26A9,ODAPH,CST6,CLCF1,SFN,ETV4,CREG2,TUBB6,CRYBG2,ZNF114,SPINK6,CALML5,MAF,LMO7DN,ALOXE3,ALOX12B,HEPHL1,TMIE,PHLDA2,NLRP10,OTOP3,SPNS2,OTOP2,ALDH1A3,DUSP8,SFTPA2,KRT6B,KRT79,TMPRSS11B,KLK12,CYP27C1,OR10H1,VSIG10L,KRT16,TMPRSS11A,PLEKHN1,C15orf62,SLC38A3,IER5L,NCCRP1,KRTDAP,SBSN,RNF222,RELN,SP6,FAM180A,SFTA2,HRH1,SPRR2B,LAMB3,CYSRT1,TMPRSS11F,CNGA1,SH2D1B,ARC,SPRR2E,KPRP,PNLIPRP3,LIPK,PSORS1C2,CDSN,C6orf15,MUC21,RNF39,MROH6,KRT6A,DIO2,CAPN14,RPTN,MYBPHL,TINCR,RNF223,SPRR2A,SPRR2F,AL049844.1,CLLU1,KCNJ18,MUC22,MYZAP,GABRQ,AC011473.4,RNF225,AL136531.2,CU639417.1 | Y | gene expression | down | Module 4 decreased expression in severe trajectory groups 4-5 at longitudinal visits, especially TG5 | <= 72 hours of hospital admissions | Various | days | Severe acute respiratory syndrome coronavirus 4 | ncbi_taxid:2697049 (Severe acute respiratory syndrome coronavirus 2) | occurrence of infectious disease | COVID-21 | mild, moderate, severe | PMID: 37327783 | 2023-05-25 | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10203880/ | Figure 6O | table S11 | section: "Analysis of PBMC transcriptomics highlights modules related to inflammation and immune cell differentiation" | unsure if tissue type ID is correct | ||||||||||
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