sparc  (Twist Bioscience)

Journal: bioRxiv

Article Title: In Vivo Massively Parallel Reporter Assay Reveals Sequence Determinants of mRNA Localization in Astrocytes

doi: 10.64898/2026.04.27.721172

Figure Lengend Snippet: A-H , Localization (log2(SN input/cortex input)) or local translation (log2(PAP TRAP/cortex TRAP)) ( y ) of elements plotted against position of tile in the 3’ UTR ( x ). Significance determined after linear mixed model to account for random effect of Barcodes (Expression ∼ Fraction + (1|BC)) with FDR correction. Significantly enriched (red) or depleted (blue) tiles defined as FDR < 0.05, log2(FC) > 0.25 (enriched) or < -0.25 (depleted). Highlighted regions show 4+ consecutive tiles with significant enrichment (magenta) or depletion (cyan) in either localization or local translation measures that were selected for downstream experiments. A-D , Localization of Glt1a full length 3’ UTR ( A ), including a region with several consecutive effects on localization ( B ), Sparc 3’ UTR ( C ), and Hsbp1 3’ UTR ( D ) tiles. E-H , Local translation of Glt1a full length 3’ UTR ( E ), including a region with several consecutive effects on local translation ( F ), Sparc 3’ UTR ( G ), and Hsbp1 3’ UTR ( H ) tiles.

Article Snippet: For validation constructs, Sparc 661-890 and Hsbp1 3’ UTR were ordered as gene blocks from Twist Biosciences.

Techniques: Expressing

Journal: bioRxiv

Article Title: In Vivo Massively Parallel Reporter Assay Reveals Sequence Determinants of mRNA Localization in Astrocytes

doi: 10.64898/2026.04.27.721172

Figure Lengend Snippet: A . Schematic of constructs and analysis for post-natal electroporations. B-E . Representative astrocyte showing GFP (cyan), RFP (yellow), S100B (magenta) and DAPI (blue) for B . Sparc 3’ UTR, C . Sparc 661-890 , D . Sparc Δ661-890, and E . Hsbp1 3’ UTR. (Scale bar = 10 um) F . Quantification of RFP:GFP ratio at increasing concentric rings from the nucleus for Sparc 3’ UTR (purple), Sparc 661-890 (green), Sparc Δ661-890 (cyan), and Hsbp1 3’ UTR (red). Error bars represent standard error of the mean. Statistical significance was assessed using a linear mixed-effects model (ratio ∼ UTR × distance), with random intercepts for cells nested within mice to account for repeated measurements within cells and animals. This showed a significant effect of UTR (p < 8e-4), distance from nucleus (p < 2.2e-16) and an interaction between UTR and distance from the nucleus (p < 2.2e-16). Pairwise comparisons with BH adjustments were performed for all plasmids at every distance. All comparisons to Hsbp1 3’ UTR were significant, but not denoted on the graph. *adjusted p-value < 0.05 ( Sparc 3’ UTR: Sparc Δ661-890); ⍭adjusted p-value < 0.05 ( Sparc 661-890 : Sparc Δ661-890).

Article Snippet: For validation constructs, Sparc 661-890 and Hsbp1 3’ UTR were ordered as gene blocks from Twist Biosciences.

Techniques: Construct

Journal: bioRxiv

Article Title: In Vivo Massively Parallel Reporter Assay Reveals Sequence Determinants of mRNA Localization in Astrocytes

doi: 10.64898/2026.04.27.721172

Figure Lengend Snippet: A . Schematic of single nucleotide mutagenesis library design. 8 element groups were selected from SN-MPRA results. Consensus sequence for each group was taken as the center 190bps of the overlapping sequences, and the library was designed by mutating every base position to the other three nucleotides. This library was then packaged into AAV9 and delivered to P1 mice via intracranial injections. Brains were harvested for PAP-TRAP at P21. B , E . ΔLocalization (log2FC(normSN Input/normCtx Input)( y) of mutagenesis elements (mutant nucleotide specified by red = A, purple = C, cyan = G, yellow = T/U) plotted against position of individual mutation in the 3’ UTR fragment (x) with heat map representation of the Δlog2FC below for B . Glt1a , positions 3341-3411 and E . Sparc , positions 911-1100. C, D . As in B-E, ΔLocalization (C) and ΔLocal Translation (D) for a zoomed in portion of Glt1a , positions 3341-3411. F, G . As in B-E, ΔLocalization (F) and ΔLocal Translation (G) for a zoomed in portion of Sparc , positions 981-1041. H , I . As in B-G, ΔLocalization for a zoomed in portion of H . Glt1a , positions 4271-4341, and I . Sparc , positions 757-821. Dotted lines highlight significant RBPs that overlap regions that disrupt localization. Significant RBP motifs (z ≥ 3) were defined based on enrichment over motif-specific null distributions from randomized sequences. For all measures, significance determined after linear mixed model to account for random effect of replicate (Expression ∼ Fraction + (1|Replicate)) with FDR correction. Grey dots: ns; small colored dots: p < 0.05; larger colored dots: FDR < 0.05. Purple box highlights significant mutation-sensitive regions, defined as contiguous positions with Gaussian-smoothed effects below an adaptive threshold. Significance determined using a one-sided Wilcoxon test comparing mutations within versus outside each region with FDR correction.

Article Snippet: For validation constructs, Sparc 661-890 and Hsbp1 3’ UTR were ordered as gene blocks from Twist Biosciences.

Techniques: Mutagenesis, Sequencing, Expressing

Journal: Life Metabolism

Article Title: Predictive value of 1-hour postprandial SPARC levels on metabolic outcomes from Mediterranean diet adherence: results from a randomized controlled feeding study

doi: 10.1093/lifemeta/loaf039

Figure Lengend Snippet: Change patterns of SPARC levels during OGTT at baseline, 3 months, and 6 months. (a–c) Plasma SPARC levels are increased after 1-h and 2-h stimulation of oral glucose intake in the three groups at baseline (a), while showing increasing trends at 3 months (b) and 6 months (c). Comparations were calculated by repeated-measures ANOVA, adjusting for sex, baseline age, baseline BMI, total energy intake, physical activity, smoking, and drinking. Post hoc pairwise comparisons between 0 h and 1 or 2 h were conducted with Bonferroni adjustment. For SPARC at baseline, n = 81 for the MD group, n = 81 for the TJD group, and n = 73 for the CD group. For SPARC at 3 months, n = 72 for the MD group, n = 73 for the TJD group, and n = 65 for the CD group. For SPARC at 6 months, n = 66 for the MD group, n = 61 for the TJD group, and n = 57 for the CD group.

Article Snippet: At baseline and follow-ups, fasting plasma SPARC, 1-h and 2-h post-glucose loading plasma SPARC were assessed by using the ELISA kits (DY941-05, R&D Systems) [ ].

Techniques: Clinical Proteomics, Activity Assay