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Species: Homo sapiens
Genetic Insert: GPC3-BBz CAR
Vector Backbone Description: Vector Backbone:LentiGuide-Puro; Vector Types:Lentiviral; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40993398
Proper citation: RRID:Addgene_242984 Copy
Vector Backbone Description: Vector Backbone:pAAV-Neo_CAG; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin
Defining Citation: PMID:41372705
Comments: pAAV-Neo_CAG is an empty AAVS1-targeting backbone used as a filler plasmid during genome editing. It carries a CAG-driven neomycin resistance cassette and is co-delivered with pAAV-Puro_siKD2.0 (Plasmid #220536) during nucleofection to enrich for biallelic AAVS1 integration. This plasmid does not express any shRNA or functional payload and serves only as a selection-compatible filler vector.
Please visit https://dx.doi.org/10.17504/protocols.io.e6nvw4q29lmk/v1 for a detailed protocol for use.
Proper citation: RRID:Addgene_220537 Copy
Species: Synthetic
Genetic Insert: pCMV-SpCas9-VRQR(L1111R)-BPNLS(SV40)-3xFLAG-P2A-EGFP
Vector Backbone Description: Vector Backbone:pCMV-T7-SpCas9-P2A-EGFP (RTW3027) (Addgene Plasmid #139987); Vector Types:Mammalian Expression, CRISPR; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40935887
Proper citation: RRID:Addgene_242673 Copy
Vector Backbone Description: Vector Backbone:DP6; Vector Types:Bacterial Expression; Bacterial Resistance:Chloramphenicol
Defining Citation: PMID:41980963
Comments: Contains CcdB Dropout Cassette. Take care to grow on a resistant strain for plasmid amplification. For ease of use when constructing oligo libraries for RAMPhaGE Libraries, please find the corresponding RAMPhaGE Oligo Tool Colab Notebook: https://colab.research.google.com/github/Niopek-Lab/POGO_PANCE/blob/main/scripts/RAMPhaGE_Oligo_Tool.ipynb.
Please visit https://doi.org/10.1101/2025.06.12.659331 for bioRxiv preprint.
Proper citation: RRID:Addgene_242157 Copy
Vector Backbone Description: Vector Backbone:CROPseq-Guide-Puro; Vector Types:Mammalian Expression, Lentiviral, CRISPR; Bacterial Resistance:Ampicillin
Comments: Please visit https://docs.brocklab.com/clonmapper for an updated use protocol. Please visit https://doi.org/10.1101/2024.12.11.627873 for bioRxiv preprint.
Proper citation: RRID:Addgene_242159 Copy
Species: Synthetic
Genetic Insert: UNS1-P6d-U3d-lacI-t12m-UNS3-Ptac-U3d-TurboRFP-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238401 Copy
Species: Synthetic
Genetic Insert: UNS1-P4d-U3d-LacI-t12m-UNS3-Ptac-U3d-TurboRFP-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238402 Copy
Species: Synthetic
Genetic Insert: UNS1-P6d-U3d-C7d-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin and Streptomycin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238407 Copy
Species: Eggerthella lenta
Genetic Insert: (–)-Eldh2
Vector Backbone Description: Vector Backbone:pXD68Kan2; Vector Types:Bacterial Expression; Bacterial Resistance:Kanamycin
Defining Citation: PMID:39993729
Proper citation: RRID:Addgene_233878 Copy
Species: Homo sapiens
Genetic Insert: LYSET
Vector Backbone Description: Backbone Size:8765; Vector Backbone:pRRL; Vector Types:Mammalian Expression, Lentiviral; Bacterial Resistance:Ampicillin
Defining Citation: PMID:36074822
Proper citation: RRID:Addgene_246082 Copy
Species: Gordonibacter sp. 28C
Genetic Insert: Gs Vadh
Vector Backbone Description: Vector Backbone:pXD68Kan2; Vector Types:Bacterial Expression; Bacterial Resistance:Kanamycin
Defining Citation: PMID:39993729
Proper citation: RRID:Addgene_233872 Copy
Species: Synthetic
Genetic Insert: UNS1-P2m-U3d-lux-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40998411
Comments: Please note: This plasmid contains an E279stop mutation in LuxD. It is not known how this mutation impacts plasmid function. Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238404 Copy
Vector Backbone Description: Vector Backbone:CROPseq-Guide-Puro; Vector Types:Mammalian Expression, Lentiviral, CRISPR; Bacterial Resistance:Ampicillin
Comments: Please visit https://docs.brocklab.com/clonmapper for an updated use protocol. Please visit https://doi.org/10.1101/2024.12.11.627873 for bioRxiv preprint.
Proper citation: RRID:Addgene_242160 Copy
Species: Eggerthella lenta
Genetic Insert: Dadh (ΔElen_0475)
Vector Backbone Description: Vector Backbone:pXD68Kan2; Vector Types:Bacterial Expression; Bacterial Resistance:Kanamycin
Defining Citation: PMID:39993729
Proper citation: RRID:Addgene_225320 Copy
Species: Synthetic
Genetic Insert: ccdb
Vector Backbone Description: Vector Backbone:pET29; Vector Types:Bacterial Expression; Bacterial Resistance:Kanamycin
Comments: Please visit https://doi.org/10.1101/2025.08.05.668824 for bioRxiv preprint.
Proper citation: RRID:Addgene_247422 Copy
Species: Synthetic
Genetic Insert: SYFP2
Vector Backbone Description: Vector Backbone:pAAV2; Vector Types:AAV; Bacterial Resistance:Ampicillin
Proper citation: RRID:Addgene_243066 Copy
Species: Synthetic
Genetic Insert: UNS1-P2m-U4d-TurboRFP-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin and Kanamycin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238394 Copy
Species: Synthetic
Genetic Insert: UNS1-P2m-U1d-TurboRFP-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin and Kanamycin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238392 Copy
Species: Mus musculus
Genetic Insert: Miro1
Vector Backbone Description: Vector Backbone:PiggyBac; Vector Types:Mammalian Expression; Bacterial Resistance:Ampicillin
Defining Citation: PMID:40899994
Comments: Please visit https://doi.org/10.1101/2024.10.22.619706 for bioRxiv preprint.
Proper citation: RRID:Addgene_228741 Copy
Species: Synthetic
Genetic Insert: UNS1-P4m-U3d-TurboRFP-t0-UNSX
Vector Backbone Description: Vector Backbone:EML002; Vector Types:Bacterial Expression; Bacterial Resistance:Ampicillin and Kanamycin
Defining Citation: PMID:40998411
Comments: Please visit https://doi.org/10.1101/2025.06.09.658710 for bioRxiv preprint.
Proper citation: RRID:Addgene_238389 Copy
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