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- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Elements cloned into the lentiMPRA vector upstream of a minimal promoter, with barcode located in the 5' UTR of the reporter. Elements test potential HepG2, K562, and WTC11 enhancers and promoters of all protein-coding genes.Lab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the lentiMPRA vector upstream of a minimal promoter, with barcode located in the 5' UTR of the reporter. Elements test HepG2 enhancers and promoters of all protein-coding genes.Elements selection method: synthetic elementsLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA of SHH locus in NIH3T3Elements cloned into the pGL4Z vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the ZRS enhancer.
- MPRA of SHH locus in NIH3T3Elements cloned into the pGL4Z vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the ZRS enhancer.
- MPRA of ZFAND3 locus in MIN6Elements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the ZFAND3 enhancer.
- MPRA in Neuro-2aElements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the ultra conserved element UC88.Lab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA of TERT locus in HEK293TElements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the TERT promoter.
- MPRA of TCF7L2 locus in MIN6Elements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the TCF7L2 enhancer.
- MPRA of SORT1 locus in HepG2Elements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the SORT enhancer, using 3' to 5' direction.
- MPRA of SORT1 locus in HepG2Elements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the SORT1 enhancer.
- MPRA of SORT1 locus in HepG2Elements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the SORT1 enhancer.
- MPRA of RET locus in Neuro-2aElements cloned into the pGL3 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the RET enhancer.
- MPRA of MYC locus in HEK293TElements cloned into the pGL4.23 vector upstream of a minimal promoter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the MYC enhancer around SNP rs6983267.
- MPRA of MSMB locus in HEK293TElements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the MSMB promoter.
- MPRA of LDLR locus in HepG2Elements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the LDLR promoter.
- MPRA of LDLR locus in HepG2Elements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the LDLR promoter.
- MPRA of HNF4A locus in HEK293TElements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the HNF4A promoter.
- MPRA of F9 locus in HepG2Elements cloned into the pGL4.11 vector upstream of the reporter, with barcode located in the 3' UTR of the reporter. Elementas are generated by error-prone PCR of the F9 promoter.
- STARR-seq in activated T-helper 17 cellMus musculus strain C57BL/6NJ activated T-helper 17 cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- STARR-seq in activated CD4-positive, CD25-positive, alpha-beta regulatory T cellMus musculus strain C57BL/6NJ activated CD4-positive, CD25-positive, alpha-beta regulatory T cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- STARR-seq in activated T-helper 17 cellMus musculus strain C57BL/6NJ activated T-helper 17 cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- STARR-seq in activated T-helper 2 cellMus musculus strain C57BL/6NJ activated T-helper 2 cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- STARR-seq in activated T-helper 1 cellMus musculus strain C57BL/6NJ activated T-helper 1 cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- STARR-seq in activated naive CD4-positive, alpha-beta T cellMus musculus strain C57BL/6NJ activated naive CD4-positive, alpha-beta T cell genetically modified (episome) using transient transfectionElements selection method: accessible genome regionsLab: Tim Reddy, DukeProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: DNase hypersensitive sites, histone modifications, synthetic elementsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: DNase hypersensitive sites, histone modifications, synthetic elementsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: DNase hypersensitive sites, histone modifications, synthetic elementsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in mammary epithelial cellHomo sapiens mammary epithelial cell female genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2 genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HEK293Homo sapiens HEK293 genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HEK293Homo sapiens HEK293 genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in HepG2Elements cloned into the lentiMPRA vector upstream of a minimal promoter, with barcode located in the 5' UTR of the reporter. Elements test HepG2 enhancers and promoters of all protein-coding genes.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in Jurkat with PrimeFlow readout of PPIFHomo sapiens Jurkat genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in BJAB with PrimeFlow readout of PPIFHomo sapiens BJAB genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- CRISPRi Flow-FISH screen of PPIF locus in THP-1 with PrimeFlow readout of PPIFHomo sapiens THP-1 genetically modified (insertion) using transduction, using CRISPRi (sgRNA) for PPIF locusElements selection method: DNase hypersensitive sitesLoci: PPIFTiling modality: peak tilingLab: Jesse Engreitz, StanfordProject: ENCODE
- MPRA in HepG2Elements cloned into the pGL4 vector upstream of a minimal promoter. Test of a mix of short, medium, and long elements in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the pGL4 vector upstream of a minimal promoter. Test of the same set of elements in both the forward and reverse orientations in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements and barcodes cloned into the 3' UTR of a reporter in a lentiviral vector, using a mutant integrase to prevent genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements and barcodes cloned into the 3' UTR of a reporter in a lentiviral vector, using a wild type integrase to allow genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned upstream of the reporter's minimal promoter, with barcode located in the 3' UTR of a reporter in a lentiviral vector, using a mutant integrase to prevent genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned upstream of the reporter's minimal promoter, with barcode located in the 3' UTR of a reporter in a lentiviral vector, using a wild type integrase to allow genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned upstream of the reporter's minimal promoter, with barcode located in the 5' UTR of a reporter in a lentiviral vector, using a mutant integrase to prevent genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned upstream of the reporter's minimal promoter, with barcode located in the 5' UTR of a reporter in a lentiviral vector, using a wild type integrase to allow genomic integration. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the ORI (STARR-seq lacking a minimal promoter) vector, with both elements and barcodes cloned into the 3' UTR. Tested in the same batch as ORI_b2, using primers around the full element and barcode to circumvent the possible detection of artifacts emerging from transcription initiation internal to the upstream element.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the ORI (STARR-seq lacking a minimal promoter) vector, with both elements and barcodes cloned into the 3' UTR. Tested in an independent, second batch as ORI, and serves as an internal control to ORI_full.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the ORI (STARR-seq lacking a minimal promoter) vector, with both elements and barcodes cloned into the 3' UTR. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the HSS (STARR-seq) vector, with both elements and barcodes cloned into the 3' UTR. Tested in the same batch as HSS_b2, using primers around the full element and barcode to circumvent the possible detection of artifacts emerging from transcription initiation internal to the upstream element.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the HSS (STARR-seq) vector, with both elements and barcodes cloned into the 3' UTR. Tested in an independent, second batch as HSS, and serves as an internal control to HSS_full.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the HSS (STARR-seq) vector, with both elements and barcodes cloned into the 3' UTR. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- MPRA in HepG2Elements cloned into the pGL4 vector upstream of a minimal promoter. One of nine methods testing element activity in parallel.Elements selection method: DNase hypersensitive sitesLab: Nadav Ahituv, UCSFProject: ENCODE
- CRISPR cutting FACS screen of Sox2 locus in F123 with endogenous protein Sort-seq readout of Sox2Mus musculus F123 genetically modified (insertion) using CRISPR (sgRNA) targeting M. musculus Sox2, (insertion) using transduction, using CRISPR cutting (sgRNA) for Sox2 locusElements selection method: DNase hypersensitive sitesLoci: Sox2Tiling modality: peak tilingLab: Yin Shen, UCSFProject: ENCODE
- CRISPR cutting FACS screen of Esrrb locus in F123 with endogenous protein Sort-seq readout of EsrrbMus musculus F123 genetically modified (insertion) using CRISPR (sgRNA) targeting M. musculus Esrrb, (insertion) using transduction, using CRISPR cutting (sgRNA) for Esrrb locusElements selection method: DNase hypersensitive sitesLoci: EsrrbTiling modality: peak tilingLab: Yin Shen, UCSFProject: ENCODE
- CRISPR cutting FACS screen of Sox2 locus in F123 with endogenous protein Sort-seq readout of Sox2Mus musculus F123 genetically modified (insertion) using CRISPR (sgRNA) targeting M. musculus Sox2, (insertion) using transduction, using CRISPR cutting (sgRNA) for Sox2 locusElements selection method: DNase hypersensitive sitesLoci: Sox2Tiling modality: peak tilingLab: Yin Shen, UCSFProject: ENCODE
- CRISPR cutting FACS screen of Esrrb locus in F123 with endogenous protein Sort-seq readout of EsrrbMus musculus F123 genetically modified (insertion) using CRISPR (sgRNA) targeting M. musculus Esrrb, (insertion) using transduction, using CRISPR cutting (sgRNA) for Esrrb locusElements selection method: DNase hypersensitive sitesLoci: EsrrbTiling modality: peak tilingLab: Yin Shen, UCSFProject: ENCODE
- CRISPR cutting FACS screen of Dppa2 locus in F123 with endogenous protein Sort-seq readout of Dppa2Mus musculus F123 genetically modified (insertion) using CRISPR (sgRNA) targeting M. musculus Dppa2, (insertion) using transduction, using CRISPR cutting (sgRNA) for Dppa2 locusElements selection method: DNase hypersensitive sitesLoci: Dppa2Tiling modality: peak tilingLab: Yin Shen, UCSFProject: ENCODE
- MPRA in HepG2Homo sapiens HepG2, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE
- MPRA in SK-N-SHHomo sapiens SK-N-SH, 24 hours post-nucleic acid delivery time genetically modified (episome) using transient transfectionElements selection method: sequence variantsLab: Ryan Tewhey, JAXProject: ENCODE