Journal: bioRxiv

Article Title: PAK6 rescues pathogenic LRRK2-mediated ciliogenesis and centrosomal cohesion defects in a mutation-specific manner

doi: 10.1101/2024.04.11.589075

Figure Lengend Snippet: (a) Distribution of PAK6 candidate interactors according to their Z-score retrieved from a Human Proteome Microarray probed with recombinant full-length human PAK6. (b) A GO:BP analysis using gProfiler g:GOSt ( https://biit.cs.ut.ee/gprofiler/gost ) was performed for PAK6 candidate interactors with Z score >2.5 (left) and for PAK6 interactors annotated in PPI web-based tools PINOT, HIPPIE and MIST (PHM) (right). GO:BP terms with 2000 (array) and 1000 (PHM) term size were grouped into semantic categories. (c) Venn diagrams showing overlaps between the primary cilium proteome (GO:0005929, 640 genes) and the experimental (array) PAK6 interactome (left) or the literature-based (PHM) PAK6 interactome (right). (d) Protein network of overlapping PAK6 interactors with the primary cilium proteome (c) (including PAK6) obtained with STRING ( https://string-db.org/cgi/input?sessionId=b1S4T5BW27rz&input_page_show_search=on ); number of nodes: 11, number of edges: 11, average node degree: 2, average local clustering coefficient: 0.591, expected number of edges: 3, PPI enrichment P -value: 0.000502. Blue nodes are ciliary proteins present in the experimental PAK6 interactome (array) and grey nodes are those found in the literature-based PAK6 interactome.

Article Snippet: HuProt TM Human Proteome Microarray v4.0 was purchased from Cambridge Protein Arrays (Babraham Research Campus, Cambridge, UK) and employed to screen PAK6 interactor candidates following manufacturer’s instructions.

Techniques: Microarray, Recombinant

Journal: Communications Medicine

Article Title: Preclinical characterization of an active immunotherapy targeting calcitonin gene-related peptide

doi: 10.1038/s43856-025-00870-2

Figure Lengend Snippet: Proteome and peptide screens were used to evaluate potential off-target binding of affinity-purified p4796kb antibodies. a Manhattan plot displays results from the HuProt Human Proteome Microarray screen of antibody binding. Colors represent each block from the array, containing approximately 1000 proteins each. Spots represent individual protein intensity score from array. Hits are annotated with protein names. b Manhattan plot from peptide counter screen of 21 putative hits from proteome screen. Overlapping 15mer peptides were synthesized and printed on arrays. Spots represent individual peptide intensity scores from array. Peptide sequences of hits are displayed. Sera from guinea pigs immunized with p4796kb were tested for binding to putative hits from screens ( c ) and calcitonin family ( d ) measured by ELISA. Pre-immune sera were used as controls. Data are presented as means +/− SEM; n = 3. *** p < 0.0001.

Article Snippet: Guinea pig sera collected at week 15 post p4796kb immunization were assessed for their potential off target binding using HuProtTM Human Proteome Microarrays v4.0 (Cambridge Protein Arrays Ltd., Cambridge, UK) with over 20,000 individual proteins, representing more than 16,000 human genes, including the peptides of the calcitonin/CGRP peptide family.

Techniques: Binding Assay, Affinity Purification, Microarray, Blocking Assay, Synthesized, Enzyme-linked Immunosorbent Assay

Journal: Journal of Immunology Research

Article Title: Identification of Differentially Expressed lncRNAs in a CpG ODN-Activated Macrophage

doi: 10.1155/2020/1407654

Figure Lengend Snippet: qRT-PCR primers used.

Article Snippet: The CapitalBio Technology mouse lncRNA microarray v4.0 was applied for the profiling analysis of mouse lncRNAs and mRNAs.

Techniques:

Journal: Journal of Immunology Research

Article Title: Identification of Differentially Expressed lncRNAs in a CpG ODN-Activated Macrophage

doi: 10.1155/2020/1407654

Figure Lengend Snippet: Changed expression profiles of lncRNAs and mRNAs during CpG ODN-induced macrophage activation. (a) The heat map of all lncRNA expression at different time points during CpG ODN-induced macrophage activation from microarray data. (b) Scatter plots showing differentially expressed lncRNAs between macrophages with the stimulation with CpG ODN at 0 h and activated macrophages at different time points (4 h, 8 h, and 16 h). (c) Often differentially expressed lncRNAs between macrophages with the stimulation with CpG ODN at 0 h and activated macrophages at different time points (4 h, 8 h, and 16 h). (d) Hierarchical clustering showing often upregulated and downregulated lncRNAs among the four groups (macrophages stimulated for 0 h, 4 h, 8 h, and 16 h). (e) The heat map of all mRNA expression at different time points during CpG ODN-induced macrophage activation from microarray data. (f) Scatter plots showing differentially expressed mRNAs between macrophages with the stimulation with CpG ODN at 0 h and activated macrophages at different time points (4 h, 8 h, and 16 h). (g) Often differentially expressed mRNAs between macrophages with the stimulation with CpG ODN at 0 h and activated macrophages at different time points (4 h, 8 h, and 16 h). (h) Hierarchical clustering showing often up- and downregulated mRNAs among the four groups (macrophages stimulated for 0 h, 4 h, 8 h, and 16 h).

Article Snippet: The CapitalBio Technology mouse lncRNA microarray v4.0 was applied for the profiling analysis of mouse lncRNAs and mRNAs.

Techniques: Expressing, Activation Assay, Microarray