Journal: Cell Reports Medicine

Article Title: Clinical and CSF single-cell profiling of post-COVID-19 cognitive impairment

doi: 10.1016/j.xcrm.2024.101561

Figure Lengend Snippet: Factors associated with long-term PASC-CI prognosis (A) Among 77 PASC-CI participants who consented to follow-up, recovery from PASC-CI was not associated with number of abnormal tests at baseline or common COVID-19 risk factors such as asthma but was associated with a history of immunosuppression or non-dementing neurological disorder ( p = 0.005 by Kaplan-Meier survival analysis). (B) GSEA (permissive thresholds, hallmark gene sets) linked improving PASC-CI ( n = 5 participants) to enriched IFN- and TNF-related genes compared to persistent PASC-CI ( n = 7 participants), but both PASC-CI groups shared multiple biological processes not observed in HCs. Shown are p adj values from GSEA. (C) STRING analysis additionally identified improving PASC-CI to be enriched in many chemokine and chemokine receptor genes, as well as viral mRNA translation/cytosolic ribosomal genes, compared to persistent PASC-CI. FDR values reflect network enrichment. (D) PCA of chemokine and chemokine receptor genes confirmed ligand-receptor gene relationships to differ according to PASC-CI prognosis. (E) Aptamer-based assays also confirmed CSF protein levels to differ according to PASC-CI prognosis (mean and SD are shown for protein concentrations normalized to HC levels, with p values from Mann-Whitney U tests).

Article Snippet: A custom CSF inflammatory protein array was developed using proteins associated with TNF-α, interferon, and other immunological signaling pathways from the greater SomaLogic CSF panel ( ).

Techniques: MANN-WHITNEY

Journal: Cell Reports Medicine

Article Title: Clinical and CSF single-cell profiling of post-COVID-19 cognitive impairment

doi: 10.1016/j.xcrm.2024.101561

Figure Lengend Snippet: CSF inflammatory proteomic profiles in PASC-CI according to prognosis PCA in 118 CSF inflammatory proteins from 19 HCs to 30 PASC-SCC/PASC-CI (20 PASC-CI participants with long-term follow-up) participants identified two PCs, which accounted for 99.6% of the variance. p values from ANOVA are shown. (A) The top proteins in the first PC consisted of sTNFR1-related proteins (sTNFR1, sTNFR2) and a common marker of neurodegeneration (neurofilament light chain, NfL). (B) The top proteins in the second PC consisted of TRAF4, IFNL2, and IL-6/IL-6sR complex. (C) Several proteins loaded onto both PCs, including sTREM2, TNFRSF4, and progranulin (GRN), while five (such as MX1) did not load onto either PC. Shown are CSF PC scores or Z-transformed protein concentrations using HC participants’ mean and standard deviation (post hoc difference between HCs and participants with improved PASC-CI for PC2, sTREM2, and progranulin and between HCs and participants with persistent PASC-CI for IL-6/sIL-6R and MX1). Lines represent mean and standard deviations.

Article Snippet: A custom CSF inflammatory protein array was developed using proteins associated with TNF-α, interferon, and other immunological signaling pathways from the greater SomaLogic CSF panel ( ).

Techniques: Marker, Transformation Assay, Standard Deviation

Journal: Cell Reports Medicine

Article Title: Clinical and CSF single-cell profiling of post-COVID-19 cognitive impairment

doi: 10.1016/j.xcrm.2024.101561

Figure Lengend Snippet:

Article Snippet: A custom CSF inflammatory protein array was developed using proteins associated with TNF-α, interferon, and other immunological signaling pathways from the greater SomaLogic CSF panel ( ).

Techniques: Recombinant, Software

Journal: medRxiv

Article Title: Complex Autoantibody Responses Occur Following Moderate to Severe Traumatic Brain Injury

doi: 10.1101/2020.07.24.20161786

Figure Lengend Snippet: ( A ) Marked increase in polyantigenic IgM and smaller increase in polyantigenic IgG is seen between the Acute and Subacute time points at a group-level in the 20 patients with paired serum from the Discovery cohort. Each datapoint refers to the median Z-score of an antigen across the cohort. ( B ) Heatmaps, where antigens Z > 3 are highlighted, display the polyantigenic nature of IgM, and to a lesser degree, IgG, responses. ( C&D ) The median Z score of all antigens per patient captures the degree of inter-individual variation of IgM, and comparatively homogenous IgG, polyantigenic responses. ( E ) Total serum IgM concentration correlated with an individual’s median IgM Z-score derived from the protein microarray. Statistical tests for A: Wilcoxon Matched-Pairs Signed Rank test; C&D: F-test from one-way ANOVA E: Linear regression .

Article Snippet: The custom microarray was devised in collaboration with Cambridge Protein Arrays Ltd. (Cambridge, UK) and CDI laboratories (Puerto Rico) to detect autoantibodies to a broad selection of CNS, BBB and systemic antigens.

Techniques: Concentration Assay, Derivative Assay, Microarray