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Sojung Kim
Chungbuk National University
Cas9Molecular biologyGeneticsBiologyCRISPR
27Publications
11H-index
3,948Citations
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Publications 24
Newest
#1Sojung KimH-Index: 11
#2Taeyoung KooH-Index: 15
Last. Jin-Soo Kim (SNU: Seoul National University)H-Index: 58
view all 8 authors...
: Here, we report that CRISPR guide RNAs (gRNAs) with a 5'-triphosphate group (5'-ppp gRNAs) produced via in vitro transcription trigger RNA-sensing innate immune responses in human and murine cells, leading to cytotoxicity. 5'-ppp gRNAs in the cytosol are recognized by DDX58, which in turn activates type I interferon responses, causing up to ∼80% cell death. We show that the triphosphate group can be removed by a phosphatase in vitro and that the resulting 5'-hydroxyl gRNAs in complex with Cas9...
56 CitationsSource
#1Sojung KimH-Index: 11
#2Taegeun Bae (UST: Korea University of Science and Technology)H-Index: 3
Last. Jin-Soo Kim (UST: Korea University of Science and Technology)H-Index: 58
view all 4 authors...
We report that engineered Cas9 variants with improved specificity—eCas9-1.1 and Cas9-HF1—are often poorly active in human cells, when complexed with single guide RNAs (sgRNAs) with a mismatch at the 5’ terminus, relative to target DNA sequences. Because the nucleotide at the 5’ end of sgRNAs, expressed under the control of the commonly-used U6 promoter, is fixed to a guanine, these attenuated Cas9 variants are not useful at many target sites. By using sgRNAs with matched 5’ nucleotides, produced...
41 CitationsSource
#1Kyung-Ok UhmH-Index: 2
#2Gue Youn GoH-Index: 2
Last. Soo Kyung KooH-Index: 16
view all 9 authors...
Abstract We generated human induced pluripotent stem cells (KSCBi002-B and KSCBi002-B-1) from the dermal fibroblasts of a donor using a modified RNA-based gene delivery method. According to GTG-banding analysis, the generated KSCBi002-B line has a cytogenetic abnormality (46,XY, t(1;4)(q21;q25)) that is distinct from that of the donor, whereas KSCBi002-B-1 has a normal karyotype (46,XY). These cell lines can be useful as a model for characterizing the hiPSCs generated by a non-viral and non-inte...
1 CitationsSource
#1Kyung-Ok UhmH-Index: 2
#2Sojung KimH-Index: 11
Last. Soo Kyung KooH-Index: 16
view all 9 authors...
Abstract We generated human induced pluripotent stem cells (hiPSCs) from dermal fibroblasts using a Sendai virus (SeV)-based gene delivery method. The generated hiPSC line, KSCBi002-A, has a normal karyotype (46,XY). The pluripotency and differentiation capacity were characterized by comparison with those of a human embryonic stem cell line. This cell line is registered and available from the National Stem Cell Bank, Korea National Institute of Health.
3 CitationsSource
#1Sojung Kim (CBNU: Chungbuk National University)H-Index: 11
#2Omer Habib (SNU: Seoul National University)H-Index: 3
Last. Jung-Hyun KimH-Index: 45
view all 6 authors...
Kelch-like ECH-associated protein 1 (keap1) is a cysteine-rich protein that interacts with transcription factor Nrf2 in a redox-sensitive manner, leading to the degradation of Nrf2 (Kim et al., 2014a). Disruption of Keap1 results in the induction of Nrf2-related signaling pathways involving the expression of a set of anti-oxidant and anti-inflammatory genes. We generated biallelic mutants of the Keap1 gene using a CRISPR-Cas9 genome editing method in the H9 human embryonic stem cell (hESC). The ...
4 CitationsSource
#1Sojung Kim (CBNU: Chungbuk National University)H-Index: 11
#2Jiwon JungH-Index: 13
Last. Jung-Hyun KimH-Index: 45
view all 6 authors...
BACKGROUND: Embryonic stem cells (ESCs) can be expanded infinitely in vitro and have the potential to differentiate into hematopoietic stem cells (HSCs); thus, they are considered a useful source of cells for HSC production. Although several technical in vitro methods for engineering HSCs from pluripotent stem cells have been developed, clinical application of HSCs engineered from pluripotent stem cells is restricted because of the possibility of xenogeneic contamination resulting from the use o...
4 CitationsSource
#1Sojung Kim (CBNU: Chungbuk National University)H-Index: 11
#2Omer Habib (SNU: Seoul National University)H-Index: 3
Last. Jung-Hyun KimH-Index: 45
view all 6 authors...
Bag1 transcribes a multifunctional protein that participates in many important biological processes such as cell apoptosis, proliferation, differentiation and embryo development. Despite numerous published studies, the role of Bag1 in the context of embryonic stem (ES) cells, has not been explored. To investigate the function of Bag1 in ES cells, we generated mutant Bag1−/− ES cells using the CRISPR/Cas9 system. We established that the Bag1 double knockout ES cell line maintained their pluripote...
11 CitationsSource
#1Daesik Kim (SNU: Seoul National University)H-Index: 17
#2Sojung Kim (SNU: Seoul National University)H-Index: 11
Last. Jin-Soo Kim (SNU: Seoul National University)H-Index: 58
view all 5 authors...
We present multiplex Digenome-seq to profile genome-wide specificities of up to 11 CRISPR-Cas9 nucleases simultaneously, saving time and reducing cost. Cell-free human genomic DNA was digested using multiple sgRNAs combined with the Cas9 protein and then subjected to whole-genome sequencing. In vitro cleavage patterns, characteristic of on- and off-target sites, were computationally identified across the genome using a new DNA cleavage scoring system. We found that many false-positive, bulge-typ...
101 CitationsSource
#1Jia Liu (ShanghaiTech University)H-Index: 13
#2Thomas GajH-Index: 25
Last. Carlos F. Barbas (Scripps Research Institute)H-Index: 103
view all 9 authors...
In this protocol, the authors describe methods for the direct delivery of ZFN, TALEN and Cas9 nuclease proteins into cells for efficient and targeted genome editing.
74 CitationsSource
#1Sojung Kim (SNU: Seoul National University)H-Index: 11
#2Daesik Kim (SNU: Seoul National University)H-Index: 17
Last. Jin-Soo Kim (SNU: Seoul National University)H-Index: 58
view all 5 authors...
RNA-guided engineered nucleases (RGENs) derived from the prokaryotic adaptive immune system known as CRISPR (clustered, regularly interspaced, short palindromic repeat)/Cas (CRISPR-associated) enable genome editing in human cell lines, animals, and plants, but are limited by off-target effects and unwanted integration of DNA segments derived from plasmids encoding Cas9 and guide RNA at both on-target and off-target sites in the genome. Here, we deliver purified recombinant Cas9 protein and guide...
823 CitationsSource
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