sgrnas used in arrayed validation experiments Search Results


gene exp actb mm02619580 g1  (Thermo Fisher)
99
Thermo Fisher gene exp actb mm02619580 g1
Gene Exp Actb Mm02619580 G1, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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crispr-cas9 sgrna  (Applied StemCell Inc)
90
Applied StemCell Inc crispr-cas9 sgrna
Crispr Cas9 Sgrna, supplied by Applied StemCell Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Average 90 stars, based on 1 article reviews
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retroviral crispr sgrna library  (Addgene inc)
90
Addgene inc retroviral crispr sgrna library
(A) Top: Schematic of the dual <t>sgRNA</t> <t>CRISPR</t> KO <t>retroviral</t> vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).
Retroviral Crispr Sgrna Library, supplied by Addgene inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/sgrnas+used+in+arrayed+validation+experiments/EFS-Vector+(Plasmid+%23109395)/bio_rxiv__2024__11__18__624106-317-7-30
Average 90 stars, based on 1 article reviews
retroviral crispr sgrna library - by Bioz Stars, 2026-10
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dual sgrna crispr cas9 genome editing  (Addgene inc)
97
Addgene inc dual sgrna crispr cas9 genome editing
(A) Top: Schematic of the dual <t>sgRNA</t> <t>CRISPR</t> KO <t>retroviral</t> vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).
Dual Sgrna Crispr Cas9 Genome Editing, 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
https://www.bioz.com/product/sgrnas+used+in+arrayed+validation+experiments/Cas9+sgRNA+vector+(Plasmid+%2368463)/pm39103364-285-31-52
Average 97 stars, based on 1 article reviews
dual sgrna crispr cas9 genome editing - by Bioz Stars, 2026-10
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crispr sgrna complexes rnps  (New England Biolabs)
96
New England Biolabs crispr sgrna complexes rnps
(A) Top: Schematic of the dual <t>sgRNA</t> <t>CRISPR</t> KO <t>retroviral</t> vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).
Crispr Sgrna Complexes Rnps, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/sgrnas+used+in+arrayed+validation+experiments/Cas9+Nuclease/pmc09108660-183-16-26
Average 96 stars, based on 1 article reviews
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sgrnas used in arrayed validation experiments  (Synthego Inc)
86
Synthego Inc sgrnas used in arrayed validation experiments
(A) Top: Schematic of the dual <t>sgRNA</t> <t>CRISPR</t> KO <t>retroviral</t> vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).
Sgrnas Used In Arrayed Validation Experiments, supplied by Synthego Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/sgrnas+used+in+arrayed+validation+experiments/sgrnas/pmc12514753-911-0-9
Average 86 stars, based on 1 article reviews
sgrnas used in arrayed validation experiments - by Bioz Stars, 2026-10
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Image Search Results


(A) Top: Schematic of the dual sgRNA CRISPR KO retroviral vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).

Journal: bioRxiv

Article Title: Spatially Resolved in vivo CRISPR Screen Sequencing via Perturb-DBiT

doi: 10.1101/2024.11.18.624106

Figure Lengend Snippet: (A) Top: Schematic of the dual sgRNA CRISPR KO retroviral vector used for Perturb-DBiT with the small (2 and 86 sgRNA) libraries. Bottom: Schematic of the AAV-CRISPR vector containing two sgRNA expressing cassettes used for Perturb-DBiT with the medium (288 sgRNA library). (B) Small library guide detection (86 sgRNAs) in Cas9-expressing tumor cells in a tumor tissue using a library of 38 epigenetic regulators and 10 non-targeting controls (NTC). Top: Top sgRNA hit spatial plot and adjacent H&E image corresponding to the region of interest. Bottom: Top sgRNAs are presented with points atop a 2D density map (sgRNA1 and sgRNA2 overlap = blue-to-gold). (C) Detection of a medium-sized guide library (288 sgRNAs) in a murine model of autochthonous liver cancer. Left: Liver tissue stained with hematoxylin and eosin (H&E), demonstrating the ROI used for Perturb-DBiT. Right: spatial clustering of gene expression data overlaid on brightfield image, labeled with pathologist annotations. (D) Left: Spatial visualization of the top gene perturbations, depicted by color-coded 2D-density maps atop an autochthonous liver tumor ROI. Right: Bar plot of the top 10 gene perturbations detected by 50-micron Perturb- DBiT. The area and total counts of the gene perturbations are presented by bars and blue line, respectively. (E) Left: UMAP dimensional reduction embedding of gene expression, leading to distinct spatial clusters. Right: Distribution of detected gene/UMI counts per spatial pixel from gene expression data. (F) Heat map of differentially expressed (DE) genes between GEX pixel clusters. The top 15 expressed DE genes are shown for each cluster with z-score values, arranged by hierarchical clustering of genes, pixels, and clusters. (G) Left: Recapitulation analysis comparing sgRNA capture accuracy between Perturb-DBiT and the traditional pooled sequencing method (MIP). Right: Receiver-operator curve comparing the sgRNA detection by 50- micron Perturb-DBiT vs the traditional pooled sequencing method (MIP).

Article Snippet: To generate tumor cells transduced with the retroviral CRISPR sgRNA library (LMA-DC-EFS vectors used as backbone) targeting epigenetic genes, retrovirus was produced by co-transfecting the retroviral library with pCL-Eco (12371, Addgene) and VSV.G (14888, Addgene) packing plasmids into Plat-E cells.

Techniques: CRISPR, Retroviral, Plasmid Preparation, Expressing, Staining, Labeling, Sequencing