sindbis virus for mapseq Search Results


sindbis virus  (Cold Spring Harbor Laboratory Meetings)
86
Cold Spring Harbor Laboratory Meetings sindbis virus
(A) Experimental design for MAPseq. <t>A</t> <t>barcoded</t> <t>Sindbis</t> virus library was injected into the center of V1 at various developmental and adult time points. Brains were collected 48 hours later, and target regions, including LM/LI, AL, AM, PM, RSP, and the cerebellum (as a negative control), were microdissected. Tissue samples were processed for RNA extraction, followed by Illumina sequencing and barcode matrix generation for projection pattern analysis. (B) Timeline of viral injection and brain collection at various developmental and adult stages. (C) Confocal images showing eGFP+ barcoded Sindbis virus injection into V1 at P14 (arrow, left) and eGFP+ barcoded axons in a representative target region, AL (right). (D) Example of a Sindbis eGFP-labeled V1 region (white arrow) from a coronal section before (middle) and after (right) microdissection (black arrow). This section’s cortical areas - LM, V1, and PM - correspond to those of the ARA88 section from the Allen Brain Common Coordinate Framework . (E) UMI sum (left), UMI mean (middle), and barcode sum (right) for individual animals across three developmental stages. n = 3 mice for P14→P16, n = 3 for P22→P24, and n = 7 for P60+→P62+. One-way ANOVA with uncorrected Fisher’s LSD. p < 0.05. Data are shown as mean ± SEM. (F) Pie charts showing the distribution of neurons projecting to 1–4 targets in each age group (P14→P16, P22→P24, P60+→P62+). (G) Diversity of projection patterns measured at different developmental stages. (H) Proportion of neurons showing specific projection motifs (V1→AL, V1→PM, V1→AL+PM) across age groups. (I) Heatmaps of projection strength from barcoded neurons to five targets, measured by MAPseq at three postnatal stages. (J) Volcano plots showing statistical significance and effect sizes for over- and under-represented projection motifs across developmental stages. See Methods for null model generation. n = 614 cells, 5 mice (P14→P16), 492 cells, 3 mice (P22→P24), 2117 cells, 7 mice (P60+→P62+). (K) Projection strengths of individual neurons for six representative projection motifs across three developmental time points. See for the complete motifs. (L) Proportions of individual motifs within groups of neurons projecting to one, two, or three target groups over development. For both (K) and (L) , P14→P16 neurons (red), P22→P24 neurons (green), and P60+→P62+ neurons (blue).
Sindbis Virus, supplied by Cold Spring Harbor Laboratory Meetings, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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virus strains sindbis virus for mapseq  (Addgene inc)
97
Addgene inc virus strains sindbis virus for mapseq
(A) Experimental design for MAPseq. <t>A</t> <t>barcoded</t> <t>Sindbis</t> virus library was injected into the center of V1 at various developmental and adult time points. Brains were collected 48 hours later, and target regions, including LM/LI, AL, AM, PM, RSP, and the cerebellum (as a negative control), were microdissected. Tissue samples were processed for RNA extraction, followed by Illumina sequencing and barcode matrix generation for projection pattern analysis. (B) Timeline of viral injection and brain collection at various developmental and adult stages. (C) Confocal images showing eGFP+ barcoded Sindbis virus injection into V1 at P14 (arrow, left) and eGFP+ barcoded axons in a representative target region, AL (right). (D) Example of a Sindbis eGFP-labeled V1 region (white arrow) from a coronal section before (middle) and after (right) microdissection (black arrow). This section’s cortical areas - LM, V1, and PM - correspond to those of the ARA88 section from the Allen Brain Common Coordinate Framework . (E) UMI sum (left), UMI mean (middle), and barcode sum (right) for individual animals across three developmental stages. n = 3 mice for P14→P16, n = 3 for P22→P24, and n = 7 for P60+→P62+. One-way ANOVA with uncorrected Fisher’s LSD. p < 0.05. Data are shown as mean ± SEM. (F) Pie charts showing the distribution of neurons projecting to 1–4 targets in each age group (P14→P16, P22→P24, P60+→P62+). (G) Diversity of projection patterns measured at different developmental stages. (H) Proportion of neurons showing specific projection motifs (V1→AL, V1→PM, V1→AL+PM) across age groups. (I) Heatmaps of projection strength from barcoded neurons to five targets, measured by MAPseq at three postnatal stages. (J) Volcano plots showing statistical significance and effect sizes for over- and under-represented projection motifs across developmental stages. See Methods for null model generation. n = 614 cells, 5 mice (P14→P16), 492 cells, 3 mice (P22→P24), 2117 cells, 7 mice (P60+→P62+). (K) Projection strengths of individual neurons for six representative projection motifs across three developmental time points. See for the complete motifs. (L) Proportions of individual motifs within groups of neurons projecting to one, two, or three target groups over development. For both (K) and (L) , P14→P16 neurons (red), P22→P24 neurons (green), and P60+→P62+ neurons (blue).
Virus Strains Sindbis Virus For Mapseq, supplied by Addgene inc, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


(A) Experimental design for MAPseq. A barcoded Sindbis virus library was injected into the center of V1 at various developmental and adult time points. Brains were collected 48 hours later, and target regions, including LM/LI, AL, AM, PM, RSP, and the cerebellum (as a negative control), were microdissected. Tissue samples were processed for RNA extraction, followed by Illumina sequencing and barcode matrix generation for projection pattern analysis. (B) Timeline of viral injection and brain collection at various developmental and adult stages. (C) Confocal images showing eGFP+ barcoded Sindbis virus injection into V1 at P14 (arrow, left) and eGFP+ barcoded axons in a representative target region, AL (right). (D) Example of a Sindbis eGFP-labeled V1 region (white arrow) from a coronal section before (middle) and after (right) microdissection (black arrow). This section’s cortical areas - LM, V1, and PM - correspond to those of the ARA88 section from the Allen Brain Common Coordinate Framework . (E) UMI sum (left), UMI mean (middle), and barcode sum (right) for individual animals across three developmental stages. n = 3 mice for P14→P16, n = 3 for P22→P24, and n = 7 for P60+→P62+. One-way ANOVA with uncorrected Fisher’s LSD. p < 0.05. Data are shown as mean ± SEM. (F) Pie charts showing the distribution of neurons projecting to 1–4 targets in each age group (P14→P16, P22→P24, P60+→P62+). (G) Diversity of projection patterns measured at different developmental stages. (H) Proportion of neurons showing specific projection motifs (V1→AL, V1→PM, V1→AL+PM) across age groups. (I) Heatmaps of projection strength from barcoded neurons to five targets, measured by MAPseq at three postnatal stages. (J) Volcano plots showing statistical significance and effect sizes for over- and under-represented projection motifs across developmental stages. See Methods for null model generation. n = 614 cells, 5 mice (P14→P16), 492 cells, 3 mice (P22→P24), 2117 cells, 7 mice (P60+→P62+). (K) Projection strengths of individual neurons for six representative projection motifs across three developmental time points. See for the complete motifs. (L) Proportions of individual motifs within groups of neurons projecting to one, two, or three target groups over development. For both (K) and (L) , P14→P16 neurons (red), P22→P24 neurons (green), and P60+→P62+ neurons (blue).

Journal: bioRxiv

Article Title: Structured and Target-Specific Development of Cortico-Cortical Connectivity in the Mouse Visual Cortex

doi: 10.1101/2025.11.03.686379

Figure Lengend Snippet: (A) Experimental design for MAPseq. A barcoded Sindbis virus library was injected into the center of V1 at various developmental and adult time points. Brains were collected 48 hours later, and target regions, including LM/LI, AL, AM, PM, RSP, and the cerebellum (as a negative control), were microdissected. Tissue samples were processed for RNA extraction, followed by Illumina sequencing and barcode matrix generation for projection pattern analysis. (B) Timeline of viral injection and brain collection at various developmental and adult stages. (C) Confocal images showing eGFP+ barcoded Sindbis virus injection into V1 at P14 (arrow, left) and eGFP+ barcoded axons in a representative target region, AL (right). (D) Example of a Sindbis eGFP-labeled V1 region (white arrow) from a coronal section before (middle) and after (right) microdissection (black arrow). This section’s cortical areas - LM, V1, and PM - correspond to those of the ARA88 section from the Allen Brain Common Coordinate Framework . (E) UMI sum (left), UMI mean (middle), and barcode sum (right) for individual animals across three developmental stages. n = 3 mice for P14→P16, n = 3 for P22→P24, and n = 7 for P60+→P62+. One-way ANOVA with uncorrected Fisher’s LSD. p < 0.05. Data are shown as mean ± SEM. (F) Pie charts showing the distribution of neurons projecting to 1–4 targets in each age group (P14→P16, P22→P24, P60+→P62+). (G) Diversity of projection patterns measured at different developmental stages. (H) Proportion of neurons showing specific projection motifs (V1→AL, V1→PM, V1→AL+PM) across age groups. (I) Heatmaps of projection strength from barcoded neurons to five targets, measured by MAPseq at three postnatal stages. (J) Volcano plots showing statistical significance and effect sizes for over- and under-represented projection motifs across developmental stages. See Methods for null model generation. n = 614 cells, 5 mice (P14→P16), 492 cells, 3 mice (P22→P24), 2117 cells, 7 mice (P60+→P62+). (K) Projection strengths of individual neurons for six representative projection motifs across three developmental time points. See for the complete motifs. (L) Proportions of individual motifs within groups of neurons projecting to one, two, or three target groups over development. For both (K) and (L) , P14→P16 neurons (red), P22→P24 neurons (green), and P60+→P62+ neurons (blue).

Article Snippet: A total of 15–100 nl of barcoded Sindbis virus (Cold Spring Harbor Laboratory MAPseq core), depending on the animal’s age (see Table S1), was injected into V1 at postnatal days P14, P22, or P60+ following the procedures described in the ‘Animal surgery and injections’ section.

Techniques: Virus, Injection, Negative Control, RNA Extraction, Illumina Sequencing, Labeling, Laser Capture Microdissection