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crop seq opti dsred vector backbone  (Addgene inc)


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    Structured Review

    Addgene inc crop seq opti dsred vector backbone
    Crop Seq Opti Dsred Vector Backbone, supplied by Addgene inc, used in various techniques. Bioz Stars score: 95/100, based on 48 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/crop+seq+vector/CROP-seq-opti+(Plasmid+%23106280)/pm41611887-914-1-7
    Average 95 stars, based on 48 article reviews
    crop seq opti dsred vector backbone - by Bioz Stars, 2026-09
    95/100 stars

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    Related Articles

    Plasmid Preparation:

    Article Title: Epigenetic reprogramming shapes the cellular landscape of schwannoma
    Article Snippet: .. Genetic perturbations in snARC-seq rely on the CROP-seq vector (Addgene, pBA950) , which allows for the capture of sgRNA identity from nuclear RNA transcripts. ..

    Article Title: A genome-wide atlas of human cell morphology.
    Article Snippet: The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described13. .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence. .. The resulting plasmid libraries were purified and concentrated via solid-phase reversible immobilization bead cleanup before being transformed into electrocompetent cells (Lucigen Endura, VWR International, 71003- 038) for plasmid library amplification.

    Article Title: Epigenetic reprogramming shapes the cellular landscape of schwannoma.
    Article Snippet: .. Single-nuclei ATAC, RNA, and CRISPRi perturbation sequencing (snARC-seq) Genetic perturbations in snARC-seq rely on the CROP-seq vector (Addgene, pBA950)94, which allows for the capture of sgRNA identity Nature Communications | (2024) 15:476 14 from nuclear RNA transcripts. ..

    Article Title: Functional phenotyping of genomic variants using multiomic scDNA-scRNA-seq
    Article Snippet: The base editing vectors were all-in-one cytosine or adenine base editor + guide expression constructs (Addgene, #158581 and #179097). .. The gRNA screening vector was a modified CROP-seq vector (Addgene, #86708) to also express an EGFP and include a capture sequence in the scaffold of the gRNA . .. Oligos for pegRNA and gRNA libraries were order from IDT as oPools. pegRNA oligos included a spacer sequence, PBS and RT with overhangs for amplification that included BbsI sequences compatible with Golden Gate cloning.

    Article Title: Disease-linked regulatory DNA variants and homeostatic transcription factors in epidermis
    Article Snippet: .. To express guides for split-pool, the CROP-seq vector was obtained from Addgene (CROP-seq-opti #106280) and modified by inserting the 10x “capture sequence 1” in the guide backbone. ..

    Article Title: Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue.
    Article Snippet: Resource Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue

    Ligation:

    Article Title: A genome-wide atlas of human cell morphology.
    Article Snippet: The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described13. .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence. .. The resulting plasmid libraries were purified and concentrated via solid-phase reversible immobilization bead cleanup before being transformed into electrocompetent cells (Lucigen Endura, VWR International, 71003- 038) for plasmid library amplification.

    Purification:

    Article Title: A genome-wide atlas of human cell morphology.
    Article Snippet: The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described13. .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence. .. The resulting plasmid libraries were purified and concentrated via solid-phase reversible immobilization bead cleanup before being transformed into electrocompetent cells (Lucigen Endura, VWR International, 71003- 038) for plasmid library amplification.

    Gel Extraction:

    Article Title: A genome-wide atlas of human cell morphology.
    Article Snippet: The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described13. .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence. .. The resulting plasmid libraries were purified and concentrated via solid-phase reversible immobilization bead cleanup before being transformed into electrocompetent cells (Lucigen Endura, VWR International, 71003- 038) for plasmid library amplification.

    Sequencing:

    Article Title: A genome-wide atlas of human cell morphology.
    Article Snippet: The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described13. .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence. .. The resulting plasmid libraries were purified and concentrated via solid-phase reversible immobilization bead cleanup before being transformed into electrocompetent cells (Lucigen Endura, VWR International, 71003- 038) for plasmid library amplification.

    Article Title: High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer’s disease
    Article Snippet: Lentiviruses was concentrated with Lenti-X concentrator (Takara) as has been done previously . .. For Perturb-seq analysis, we generated a modified the crop-seq vector (based on Addgene: # 106280) carrying a PuroR-T2A-mVenus selection marker along with incorporating the 10x Genomics capture sequence (5’-GCTCACCTATTAGCGGCTAAGG-3’) at the 3’-end of the gRNA scaffold. ..

    Article Title: Epigenetic reprogramming shapes the cellular landscape of schwannoma.
    Article Snippet: .. Single-nuclei ATAC, RNA, and CRISPRi perturbation sequencing (snARC-seq) Genetic perturbations in snARC-seq rely on the CROP-seq vector (Addgene, pBA950)94, which allows for the capture of sgRNA identity Nature Communications | (2024) 15:476 14 from nuclear RNA transcripts. ..

    Article Title: Functional phenotyping of genomic variants using multiomic scDNA-scRNA-seq
    Article Snippet: The base editing vectors were all-in-one cytosine or adenine base editor + guide expression constructs (Addgene, #158581 and #179097). .. The gRNA screening vector was a modified CROP-seq vector (Addgene, #86708) to also express an EGFP and include a capture sequence in the scaffold of the gRNA . .. Oligos for pegRNA and gRNA libraries were order from IDT as oPools. pegRNA oligos included a spacer sequence, PBS and RT with overhangs for amplification that included BbsI sequences compatible with Golden Gate cloning.

    Article Title: Disease-linked regulatory DNA variants and homeostatic transcription factors in epidermis
    Article Snippet: .. To express guides for split-pool, the CROP-seq vector was obtained from Addgene (CROP-seq-opti #106280) and modified by inserting the 10x “capture sequence 1” in the guide backbone. ..

    Generated:

    Article Title: High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer’s disease
    Article Snippet: Lentiviruses was concentrated with Lenti-X concentrator (Takara) as has been done previously . .. For Perturb-seq analysis, we generated a modified the crop-seq vector (based on Addgene: # 106280) carrying a PuroR-T2A-mVenus selection marker along with incorporating the 10x Genomics capture sequence (5’-GCTCACCTATTAGCGGCTAAGG-3’) at the 3’-end of the gRNA scaffold. ..

    Article Title: Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue.
    Article Snippet: Resource Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue

    Modification:

    Article Title: High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer’s disease
    Article Snippet: Lentiviruses was concentrated with Lenti-X concentrator (Takara) as has been done previously . .. For Perturb-seq analysis, we generated a modified the crop-seq vector (based on Addgene: # 106280) carrying a PuroR-T2A-mVenus selection marker along with incorporating the 10x Genomics capture sequence (5’-GCTCACCTATTAGCGGCTAAGG-3’) at the 3’-end of the gRNA scaffold. ..

    Article Title: Functional phenotyping of genomic variants using multiomic scDNA-scRNA-seq
    Article Snippet: The base editing vectors were all-in-one cytosine or adenine base editor + guide expression constructs (Addgene, #158581 and #179097). .. The gRNA screening vector was a modified CROP-seq vector (Addgene, #86708) to also express an EGFP and include a capture sequence in the scaffold of the gRNA . .. Oligos for pegRNA and gRNA libraries were order from IDT as oPools. pegRNA oligos included a spacer sequence, PBS and RT with overhangs for amplification that included BbsI sequences compatible with Golden Gate cloning.

    Article Title: Disease-linked regulatory DNA variants and homeostatic transcription factors in epidermis
    Article Snippet: .. To express guides for split-pool, the CROP-seq vector was obtained from Addgene (CROP-seq-opti #106280) and modified by inserting the 10x “capture sequence 1” in the guide backbone. ..

    Article Title: Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue.
    Article Snippet: Resource Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue

    Selection:

    Article Title: High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer’s disease
    Article Snippet: Lentiviruses was concentrated with Lenti-X concentrator (Takara) as has been done previously . .. For Perturb-seq analysis, we generated a modified the crop-seq vector (based on Addgene: # 106280) carrying a PuroR-T2A-mVenus selection marker along with incorporating the 10x Genomics capture sequence (5’-GCTCACCTATTAGCGGCTAAGG-3’) at the 3’-end of the gRNA scaffold. ..

    Marker:

    Article Title: High throughput identification of genetic regulators of microglial inflammatory processes in Alzheimer’s disease
    Article Snippet: Lentiviruses was concentrated with Lenti-X concentrator (Takara) as has been done previously . .. For Perturb-seq analysis, we generated a modified the crop-seq vector (based on Addgene: # 106280) carrying a PuroR-T2A-mVenus selection marker along with incorporating the 10x Genomics capture sequence (5’-GCTCACCTATTAGCGGCTAAGG-3’) at the 3’-end of the gRNA scaffold. ..

    Amplification:

    Article Title: A genome-wide atlas of human cell morphology
    Article Snippet: To prepare pooled plasmid libraries, targeting and nontargeting guide subpools were first individually amplified by dial-out PCR using orthogonal primer pairs. . PCR products were purified using the QIAquick PCR purification kit (Qiagen, 28104). .. The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described . .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence.

    Clone Assay:

    Article Title: A genome-wide atlas of human cell morphology
    Article Snippet: To prepare pooled plasmid libraries, targeting and nontargeting guide subpools were first individually amplified by dial-out PCR using orthogonal primer pairs. . PCR products were purified using the QIAquick PCR purification kit (Qiagen, 28104). .. The amplified libraries were cloned into the CROP-seq vector (Addgene, 86708) via Golden Gate assembly using BsmBI restriction sites as previously described . .. To prevent self ligation events in Golden Gate reactions, the CROP-seq vector was predigested and purified via gel extraction using the QIAquick gel extraction kit (Qiagen, 28706) to remove the filler sequence.

    CRISPR:

    Article Title: Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue.
    Article Snippet: Resource Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue



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