CRISPR-Cas9: a new and promising player in gene therapy
Open accessAbstract
First introduced into mammalian organisms in 2013, the RNA-guided genome editing tool CRISPR-Cas9 (clustered regularly interspaced short palindromic repeats/CRISPR-associated nuclease 9) offers several advantages over conventional ones, such as simple-to-design, easy-to-use and multiplexing (capable of editing multiple genes simultaneously). Consequently, it has become a cost-effective and convenient tool for various genome editing purposes including gene therapy studies. In cell lines or animal models, CRISPR-Cas9 can be applied for therapeutic purposes in several ways. It can correct the causal mutations in monogenic disorders and thus rescue the disease phenotypes, which currently represents the most translatable field in CRISPR-Cas9-mediated gene therapy. CRISPR-Cas9 can also engineer pathogen genome such as HIV for therapeutic purposes, or induce protective or therapeutic mutations in host tissues. Moreover, CRISPR-Cas9 has shown potentials in cancer gene therapy such as deactivating oncogenic virus and inducing oncosuppressor expressions. Herein, we review the research on CRISPR-mediated gene therapy, discuss its advantages, limitations and possible solutions, and propose directions for future research, with an emphasis on the opportunities and challenges of CRISPR-Cas9 in cancer gene therapy.
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Written from the paper’s full text.
TL;DR
This review argues that CRISPR-Cas9, first introduced into mammalian cells in 2013, is a simple, multiplexable genome-editing tool with therapeutic potential in infectious diseases, monogenic disorders, and cancer. It concludes that clinical translation still requires reliable off-target profiling, higher editing efficiency, and improved HDR rates.
Key findings
- CRISPR-Cas9 offers advantages over ZFN/TALEN and RNAi, including simple sgRNA redesign, multiplexing, and ability to induce gain- and loss-of-function mutations; it has been used to correct monogenic disease mutations, engineer pathogen genomes, induce protective mutations, and target cancer-associated viruses or oncogenic pathways.
- In a mouse cataract model caused by a *Crygc* mutation, CRISPR-Cas9 germline editing produced 10 modified offspring out of 22 live offspring (45.45% editing efficiency): all 4 HDR-edited mice were cataract-free, while of 6 NHEJ-edited mice, 2 were cataract-free and 4 remained cataractous.
- In adult mice with hereditary tyrosinemia, hydrodynamic tail-vein delivery of CRISPR-Cas9 plus a homologous donor corrected 0.25% of liver cells initially and 33.5% at 33 days postinjection, sufficient to rescue the disease phenotype.
- In cancer models, CRISPR-Cas9 targeting HPV16 E6/E7 in SiHa cervical carcinoma cells inhibited proliferation in vitro and in xenografts; in EBV-positive Burkitt’s lymphoma cells it inhibited proliferation and reduced viral load; an AND-gate system achieved bladder-cancer-specific expression of p21, E-cadherin, or Bax.
Methods
- Narrative review of CRISPR-Cas9 mechanisms, merits, and gene therapy applications, with emphasis on cancer gene therapy.
- Synthesizes published studies in cell lines and animal models, including mouse models of Duchenne muscular dystrophy, cataract, hereditary tyrosinemia, and cancer, as well as human stem cell/iPSC studies.
- No systematic search strategy, meta-analysis, or new experimental data are reported; the paper is a qualitative literature synthesis.
Limitations
- The paper states that off-target effects must be accurately profiled and controlled; current silicon prediction and in vitro selection identify only part of off-target cleavage, and Cas9 binding can be uncoupled from cleavage, requiring more unbiased genome-wide methods.
- The paper states that editing efficiency and HDR rate remain major challenges; cancer gene therapy requires high edit efficiency beyond current CRISPR-Cas9 technology, and delivery is limited by factors such as AAV cargo capacity.
- Evident from the text: as a narrative review, it lacks a systematic search or quantitative synthesis and does not provide new experimental validation; germline modification is noted as currently not applicable to humans.
Model-written summary. Check it against the paper before relying on it.
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Claims the paper makes
0 of 81 cited sources checked · 0 supported · 0 flagged
- Findingcitation
Liu et al used CRISPR-Cas9-mediated bladder cancer cell-specific genome editing using an AND logic gate.
“An example of therapeutic genome manipulations comes from study by Liu et al 47 in which CRISPR-Cas9-mediated bladder cancer cell-specific genome editing using an AND logic gate (figure 2).”
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- Findingcitation
In a mouse model of DMD, CRISPR-Cas9-mediated germline editing gave rise to genetically mosaic offspring with 2-100% somatic cells carrying the corrected culprit gene.
“In a mouse model of Duchenne muscular dystrophy (DMD), an inherited X-linked monogenic disease, CRISPR-Cas9-mediated gene editing in the germline gave rise to genetically mosaic offsprings with 2-100% somatic cells carrying the corrected version of the culprit gene.29”
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- Findingcitation
Seeger and Sohn showed that in HepG2 cells expressing HBV, introduction of a cccDNA-targeting CRISPR-Cas9 system resulted in decreased hepatitis B core antigen expression and mutated cccDNAs.
“Recently, a study by Seeger and Sohn 28 showed that in HepG2 cells expressing HBV, the introduction of cccDNA-targeting CRISPR-Cas9 system resulted in both decreased hepatitis B core antigen expression and mutated cccDNAs”
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- Findingcitation
The dCas9-effector strategy has been applied in a genome-wide screening study in which gain-of-function mutations in melanoma cells that confer drug resistance were identified.
“This dCas9-effector strategy has already been applied in genome wide screening study in which gain-of-function mutations in melanoma cells that confer drug resistance were identified.46”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [46] Konermann, 2015, Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex, Nature source
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- Findingcitation
Of 22 live offspring, 10 underwent culprit gene modifications (45.45%) either by HDR (n=4) or by NHEJ (n=6).
“Of the 22 live offsprings, 10 underwent culprit gene modifications (the editing efficiency is 45.45%) either by HDR (n=4) (figure 1C left) or by NHEJ (n=6) (figure 1C right).”
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- Findingcitation
In a mouse Crygc cataract model, germline manipulation with CRISPR-Cas9 corrected both the mutant gene and cataract phenotype in part of the offspring.
“In such a mouse model, germline-manipulation with CRISPR-Cas9 system was capable of correcting both the mutant gene and cataract phenotype in part of offsprings.”
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- Findingcitation
Pups generated by preselected SSCs were unexceptionally cataract free.
“The pups generated by these preselected SSCs were unexceptionally cataract free.”
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- Findingcitation
Mutation in CCR5 leading to cell-resistance to HIV-1 infection was achieved in iPSCs with CRISPR-Cas9.
“For example, mutation in CCR5 (CC chemokine receptor 5) gene that leads to cell-resistance to HIV-1 infection was achieved in iPSCs with CRISPR-Cas9.37”
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- Findingcitation
All four offspring undergoing HDR were free of cataract due to HDR-mediated gene corrections.
“As expected, all of the four offsprings undergoing HDR were free of cataract due to HDR-mediated gene corrections.”
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- Findingcitation
Another independent study harnessed CRISPR-Cas9 to mutate the HIV-1 LTR U3 region and gained similar results.
“Recently, another independent study harnessed CRISPR-Cas9 to mutate HIV-1 LTR U3 region and gained similar results.27”
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- Findingcitation
Zhen et al reported that transfection of Cas9 and sgRNAs targeting HPV16 E6 or E7 into HPV-16-positive cervical carcinoma cell lines SiHa resulted in inhibition of cancer cell proliferation in vitro and in a xenograft mouse model.
“Zhen et al 41 reported that the transfection of Cas9 and sgRNAs targeting HPV16 E6 or E7 into HPV-16-positive cervical carcinoma cell lines SiHa resulted in the inhibition of cancer cell proliferation both in vitro and in xenograft mouse model.”
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- Findingcitation
CRISPR-Cas9 has been used to recapitulate cancer-associated genomic alterations in vitro and in vivo.
“For example, CRISPR-Cas9 has been used to recapitulate cancer-associated genomic alterations both in vitro and in vivo, [22][23][24][25]”
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- Findingcitation
In one experimental mouse, 17% gene corrections resulted in 47-60% rescued muscle cells.
“for example, 17% gene corrections resulted in 47-60% rescued muscle cells in one of the experimental mouse”
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- Findingcitation
Silicon methods can only identify part of off-target cleavage.
“However, silicon methods can only identify part of the off-target cleavage.48”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [48] Tsai, 2015, GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases, Nat Biotechnol source
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- Interpretationcitation
CRISPR-Cas9 can induce protective or therapeutic mutations in host tissues.
“or induce protective or therapeutic mutations in host tissues”
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- Premisecitation
dCas9 can be repurposed as a site-specific DNA-binding domain transporting various functional domains to the target locus.
“dCas9 can be repurposed as a site-specific DNA-binding domain transporting various functional domains to the target locus”
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- Premisecitation
CRISPR-Cas9 genome editing tool is adapted from the microbial adaptive immune defense system.
“CRISPR-Cas9 genome editing tool is adapted from microbial adaptive immune defense system”
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- Premisecitation
CRISPR-Cas9 was first introduced into mammalian organisms or cells in 2013.
“First introduced into mammalian organisms in 2013”
- Also stated in: § MECHANISMS AND MERITS OF CRISPR-CAS9 IN GENOME EDITING · plain
“First applied in mammalian cells in 2013, 13 14”
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- Also stated in: § MECHANISMS AND MERITS OF CRISPR-CAS9 IN GENOME EDITING · plain
- Interpretationreasoning
Correction of monogenic disorders currently represents the most translatable field in CRISPR-Cas9-mediated gene therapy.
“which currently represents the most translatable field in CRISPR-Cas9mediated gene therapy”
- Also stated in: § Monogenetic disorder is caused by single gene defects. · plain
“Currently, the correction of monogenic disorders represents the most translatable field in CRISPR-Cas9-mediated gene therapy.”
Quote in the paperSubstantial claim - Also stated in: § Monogenetic disorder is caused by single gene defects. · plain
- Interpretationcitation
CRISPR-Cas9 has shown potential in cancer gene therapy such as deactivating oncogenic virus and inducing oncosuppressor expressions.
“Moreover, CRISPR-Cas9 has shown potentials in cancer gene therapy such as deactivating oncogenic virus and inducing oncosuppressor expressions.”
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- Interpretationcitation
CRISPR-Cas9 can engineer pathogen genomes such as HIV for therapeutic purposes.
“CRISPR-Cas9 can also engineer pathogen genome such as HIV for therapeutic purposes”
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- Interpretationreasoning
This method is more translatable to human therapeutics because it does not involve embryo manipulations.
“This method is more translatable to human therapeutics because it does not involve embryo manipulations.”
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- Interpretationcitation
In monogenic disorders resulting from gene duplications or autosomal dominant haplosufficient disorders, CRISPR-Cas9 holds therapeutic potential given its ability in gene deletion and inactivation.
“In monogenic disorders that are resulted from gene duplications (eg, Friedreich's ataxia), or in autosomal dominant disorders in which the affected genes are haplosufficient, CRISPR-Cas9 also holds therapeutic potential given its ability in gene deletion 23 and inactivation.24 25”
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- Premisecitation
Ex vivo cultured colon organoids were successfully transplanted into mice colons and formed functionally and histologically normal crypts.
“The clinical translatability of this study gets support from previous study 34 in which ex vivo cultured colon organoids were successfully transplanted into mice colons and formed functionally and histologically normal crypts.”
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- Interpretationcitation
In non-genetic or polyetiological diseases, CRISPR-Cas9 is a potential participant by inducing therapeutic or protective mutations in somatic tissues.
“In the treatment of non-genetic or polyetiological diseases, CRISPR-Cas9 is also a potential participant by inducing therapeutic or protective mutations in somatic tissues.”
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- Interpretationcitation
CRISPR-Cas9 can mediate somatic gene corrections in adult animals, bypassing embryo manipulations.
“CRISPR-Cas9 technology can also mediate somatic gene corrections in adult animals, bypassing embryo manipulations.”
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- Interpretationcitation
These results highlighted the importance of HDR in reliable gene corrections.
“These results highlighted the importance of HDR in reliable gene corrections.”
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- Interpretationcitation
Zygote manipulation can only rescue part of the offspring in an unpredictable manner.
“However, as demonstrated in this study, zygote manipulation can only rescue part of the offsprings in an unpredictable manner.”
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- Premisecitation
dCas9 can bind to DNA elements and suppress their transcriptional activities, a process called CRISPRi.
“Catalytically inactivated dCas9, for example, can bind to DNA elements and suppress their transcriptional activities, a process called CRISPRi.43 44”
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- Interpretationcitation
Gene correction imposes a growth advantage.
“indicating a growth advantage imposed by the gene correction.”
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- Interpretationcitation
CRISPR-Cas9-mediated inactivation or clearance of oncogenic virus provides a promising and cost-effective option for prevention and treatment of virus-associated cancers.
“Therefore, CRISPR-Cas9-mediated inactivation or clearance of oncogenic virus provides a promising and cost-effective option for the prevention and treatment of virus-associated cancers.”
Quote in the paperSubstantial claim0 of 1 sources checked- cites 41 42
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- Premisecitation
Longer homologous arms and single-stranded oligonucleotide DNA templates, compared with double-strand DNA templates, can increase HDR rate.
“The authors also demonstrated that longer homologous arm and single-stranded oligonucleotide DNA template (compared with double-strand DNA templates) can increase HDR rate.”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [63] Lin S , Staahl B , Alla RK , Doudna JA . Enhanced homology-directed human genome engineering by controlled timing of CRISPR/Cas9 delivery. Elife 2014;4. doi:10.7554/eLife.04766 source
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- Premisecitation
Cell-penetrating peptide-mediated delivery of Cas9 and sgRNAs achieves a higher on-to-off-target activity ratio than plasmid-mediated delivery.
“Cell-penetrate-peptide-mediated delivery was reported to achieve higher on-to off-target activity ratio compared with plasmid-mediated delivery.53”
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- Interpretationreasoning
Current CRISPR-Cas9 technologies are still beyond the reach of the high editing efficiency required for cancer gene therapy.
“As stated above, cancer gene therapy necessitates high editing efficiency, which is still beyond the reach of current CRISPR-Cas9 technologies.”
Quote in the paperSubstantial claim- Rests on an assumption: Cancer gene therapy necessitates high editing efficiency.
- Premisecitation
CRISPR-Cas9 and DNA donor delivered via protein-capped adenoviral vector resulted in higher HDR rate than via integrase-defective lentiviral vector or non-viral vector templates.
“In a study by Holkers et al, 64 CRISPR-Cas9 and DNA donor delivered via protein-capped adenoviral vector resulted in higher HDR rate versus via integrase-defective lentiviral vector or non-viral vector templates.”
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- Interpretationnone given
CRISPR-Cas9-based (epi)genome manipulation therapies in cancer are hampered by the requirement of high editing efficiency.
“As stated above, CRISPR-Cas9 based (epi)genome manipulation therapies in cancer are hampered by heterogeneity in oncogenic mutation profiles and the requirement of pretty high editing efficiency.”
Quote in the paperNot a substantial claim- Rests on an assumption: Cancer gene therapy necessitates high editing efficiency.
- Premisecitation
Adoptive T-cell therapy, in which genetically engineered T cells are re-infused into patients, has shown survival-improving effects in clinical trials.
“Adoptive T-cell therapy, for example, in which genetically engineered T cells were re-infused back into patients, has shown survival improving effects in clinical trials.69”
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- Premisecitation
Paired nicking by a Cas9 nickase at two target sites on opposite strands can significantly increase target specificity because off-target single nicks are faithfully repaired.
“form of Cas9 that generates single-stranded break rather than DSB) to generate paired nicks on the two strands of target sequence can significantly increase target specificity because off-target single nicks are faithfully repaired.51”
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- Interpretationcitation
Effective (epi)genome manipulation therapy in cancer requires fairly high edit efficiency because unedited cells retain unreduced malignancy, possess selective advantages over corrected cells and proliferate quickly.
“Second, unlike in monogenic diseases that can be rescued at an initial gene correction efficiency as low as 0.25%, 32 effective (epi) genome manipulation therapy in cancer requires fairly high edit efficiency because the unedited cells retain unreduced malignancy, possess selective advantages over the 'corrected' cells and proliferate quickly, rendering gene therapy ineffective shortly.”
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- Rests on an assumption: Unedited malignant cells retain unreduced malignancy, possess selective advantages over corrected cells and proliferate quickly.
- Interpretationnone given
CRISPR-Cas9 has shown therapeutic potential in cell lines or animal models for infectious diseases, monogenic diseases and cancer.
“It has shown therapeutic potentials in cell lines or animal models for infectious diseases, monogenic diseases and cancer.”
Quote in the paperNot a substantial claim - Premisecitation
The double-nicking strategy can increase target-site specificity by about 1500 times.
“It is estimated that this double nicks strategy can increase target-site specificity by about 1500 times.15”
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- Interpretationreasoning
Inactivation or clearance of oncogenic virus with CRISPR-Cas9 is limited to virus-associated cancer types.
“Inactivation or clearance of oncogenic virus with CRISPR-Cas9 is a feasible option but this strategy is limited to virus-associated cancer types and has limited therapeutic efficacy because on initiation, cancer can progress, at least partially, independently of the underlying viral infection.”
Quote in the paperSubstantial claim - Premisecitation
Delivery of purified recombinant Cas9 protein instead of Cas9 gene into a human cell line can achieve an editing efficiency as high as 79%.
“The delivery of purified recombinant Cas9 protein instead of Cas9 gene into human cell line, on the other hand, can achieve an editing efficiency as high as 79%.60”
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- Premisecitation
Fusing FokI nuclease to dCas9 generates a dimeric RNA-guided FokI nuclease with improved specificity compared with the wild-type CRISPR-Cas system.
“Tsai et al 54 reported that fusing FokI nuclease to dCas9 generates a dimeric RNA-guided FokI nuclease that has an improved specificity compared with wild-type CRISPR-Cas system.”
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- Interpretationcitation
Such high edit efficiency is still beyond the reach of current CRISPR-Cas9 technology.
“However, such a high edit efficiency is still beyond the reach of current CRISPR-Cas9 technology.30 32”
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- Premisecitation
Timed delivery of Cas9 protein and sgRNA complexes into human cells via cell cycle synchronisation can achieve an HDR rate up to 38%.
“Via cell cycle synchronisation techniques, Lin and colleagues 63 conducted timed delivery of Cas9 protein and sgRNA complexes into human cells and gained HDR rate up to 38%.”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [63] Lin S , Staahl B , Alla RK , Doudna JA . Enhanced homology-directed human genome engineering by controlled timing of CRISPR/Cas9 delivery. Elife 2014;4. doi:10.7554/eLife.04766 source
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- Premisecitation
Cell cycle phase dominates the choice between NHEJ and HDR, with HDR taking place mainly in S and G2 phases due to the availability of sister chromatids as templates.
“Cell cycle phase dominates the choice between NHEJ and HDR, with HDR taking place mainly in S and G2 phases due to the availability of sister chromatids as templates.61”
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- Premisecitation
The nature of the donor DNA influences HDR rate.
“Nature of the donor DNA also influences HDR rate.61 62”
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- Interpretationreasoning
Inactivation or clearance of oncogenic virus with CRISPR-Cas9 has limited therapeutic efficacy because after initiation cancer can progress at least partially independently of the underlying viral infection.
“Inactivation or clearance of oncogenic virus with CRISPR-Cas9 is a feasible option but this strategy is limited to virus-associated cancer types and has limited therapeutic efficacy because on initiation, cancer can progress, at least partially, independently of the underlying viral infection.”
Quote in the paperSubstantial claim - Premisecitation
Both the structure and composition of the guide RNA can affect the frequency of off-target effects.
“First, both the structure and composition of the guide RNA can affect the frequency of off-target effects.50”
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- Interpretationcitation
Delivery vector is an influential factor of HDR rate.
“Delivery vector is another influential factor of HDR rate.”
Quote in the paperNot a substantial claim - Premisecitation
sgRNAs truncated by 2-3 nt reduce off-target effects.
“Third, sgRNA truncated by 2-3 nt are reported to reduce the off-target effects possibly because shorter sgRNA sequence has a decreased mismatch tolerance.52”
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- May combine two claims. 32
- Classified as probably not a substantial claim. 8
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FindingcitationIn a Burkitt's lymphoma cell line with latent EBV infection, CRISPR-Cas9 treatment inhibited cell proliferation and reduced viral load.
“Similarly, in a Burkitt's lymphoma cell line with latent EBV infection, CRISPR-Cas9 treatment inhibited cell proliferation and reduced viral load.42”
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FindingcitationA recent clinical trial showed autologous reintroduction of CD4 T cells whose CCR5 gene was inactivated in vitro by ZFN was safe and led to decreased viral load.
“Interestingly, a recent clinical trial 38 showed that autologous reintroduction of CD4T cells whose CCR5 gene was inactivated in vitro by ZFN was safe and lead to decreased viral load”
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FindingcitationYin et al delivered CRISPR-Cas9 and a donor template into adult mice with hereditary tyrosinemia via tail-vein hydrodynamic injection, resulting in gene corrections in 0.25% of liver cells initially and 33.5% at 33 days, sufficient to rescue the disease phenotype.
“Yin et al, 32 for example, delivered CRISPR-Cas9 agents and a homologous donor template (in order to increase HDR rate) into adult mice with hereditary tyrosinemia via tail-vein hydrodynamic injection, resulting in gene corrections in 0.25% of liver cells initially, and in 33.5% of liver cells 33 days postinjection ( possibly due to selective advantages imposed by the correction), which was suffic”
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FindingcitationIn human intestinal stem cells from cystic fibrosis patients, CFTR was rectified by homologous recombination during CRISPR-Cas9 genome editing while pluripotency was retained.
“In human intestinal stem cells collected from patients with cystic fibrosis, the culprit gene cystic fibrosis transmembrane conductance regulator was rectified by homologous recombination during CRISPR-Cas9 genome editing while the pluripotency was retained as demonstrated by formations of organ-like expansions in cell culture.33”
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FindingcitationIn mice liver, CRISPR-Cas9 induced loss-of-function mutation at the PCSK9 gene locus, leading to elevated hepatic LDL receptor level and dropped plasma cholesterol level.
“In mice liver, CRISPR-Cas9 was reported to successfully induce loss-of-function mutation at PCSK9 gene locus, leading to elevated hepatic LDL receptor level and dropped plasma cholesterol level”
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FindingcitationOf six offspring undergoing NHEJ, two were free of cataract due to coincidental frameshift restoration, while four remained cataract phenotype.
“Interestingly, however, of the six offsprings undergoing NHEJ, two were also free of cataract thanks to coincidental frameshift restoration resulting from NHEJ-induced indel mutations, while the rest four remained cataract phenotype.30”
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FindingreasoningIn bladder cancer cells, Cas9 and sgRNAs were both expressed, mutating the LacI gene and abrogating its suppression on the effector gene, leading to bladder cancer cell-specific expression of the effector.
“In bladder cancer cells, Cas9 and sgRNAs were both expressed, mutating LacI gene and abrogating its suppression on the effector gene, leading to bladder cancer cell-specific expression of the effector (figure 2C, right).”
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FindingcitationEbina et al reported that CRISPR-Cas9 can mutate the HIV-1 LTR in vitro, resulting in removal of integrated proviral DNA from part of host cells and a significant drop in virus expression.
“Ebina et al 26 reported that CRISPR-Cas9 can mutate long terminal repeat (LTR) sequence of HIV-1 in vitro, resulting in removal of the integrated proviral DNA from the part of the host cells and a significant drop in virus expression.”
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FindingcitationWith CRISPR-Cas9, gene corrections have been successfully conducted in iPSCs derived from β-thalassemia patients and DMD patients.
“With CRISPR-Cas9, gene corrections have been successfully conducted in iPSCs derived from β-thalassemia patients 35 and DMD patients, 36”
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FindingcitationWu et al corrected Crygc in mouse spermatogonial stem cells with CRISPR-Cas9 and picked SSC lines carrying the corrected gene without undesired genome perturbations.
“To gain 100% rescue efficiency, Wu et al 31 corrected the culprit gene Crygc in mouse spermatogonial stem cells (SSCs) with CRISPR-Cas9, and then picked out SSC lines that carried the corrected gene without undesired genome perturbations.”
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FindingcitationIn the Liu et al study, effector genes p21, E-cadherin and Bax led to cancer-specific growth inhibition, migration suppression and apoptosis, respectively.
“In this study, the effector genes were p21, E-cadherin and Bax (BCL2-associated X), leading to cancer-specific growth inhibition, migration suppression and apoptosis, respectively.”
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PremisecitationOn presence of a PAM on the opposite strand, sgRNA directs Cas9 to the target site by base-pairing, resulting in site-specific DNA double-strand breaks repaired by HDR if homologous sequences are available or otherwise by NHEJ.
“On the presence of a protospacer-adjacent motif (PAM) on the opposite strand, sgRNA directs Cas9 to the target site by base-pairing, resulting in Cas9-generated sitespecific DNA double-strand breaks (DSBs) that are subsequently repaired by homologous directed repair (HDR) if the homologous sequences are available or otherwise by non-homologous endjoining (NHEJ).13 14 15”
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PremisecitationTALEN can be re-engineered to target and cleave mutant mitochondrial DNA in patient-derived cells, whereas mitochondrial genome-targeting CRISPR-Cas9 remains to be explored.
“And moreover, TALEN can be re-engineered to target and cleave mutant mitochondrial DNA in patient-derived cells, 21 whereas mitochondrial genometargeting CRISPR-Cas9 remains an area to be explored.”
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Interpretationnone givenCRISPR-Cas9 can correct causal mutations in monogenic disorders and rescue disease phenotypes.
“It can correct the causal mutations in monogenic disorders and thus rescue the disease phenotypes”
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InterpretationcitationWith CRISPR-Cas9, targeting a new site requires only design of a complementary sgRNA, which is simpler than de novo synthesis of a bulky guiding protein as in ZFN- or TALEN-based tools.
“First, with CRISPR-Cas9, to target a new site requires only the design of a complementary sgRNA (the nuclease Cas9 remains the same in all cases), which is much simpler than the de novo synthesis of a bulky guiding protein as in ZFN-or TALEN-based tools.”
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InterpretationcitationCRISPR-Cas9 offers several advantages over conventional genome editing tools, including simple design, ease of use, and multiplexing.
“offers several advantages over conventional ones, such as simple-to-design, easy-to-use and multiplexing”
Quote in the paperSubstantial claim0 of 1 sources checked- cites 13 15
Not checked in the free run.
May combine two claims.
PremisecitationCas9 can be reprogrammed into nickase by inactivating either RuvC or HNH, or into catalytically inactive dCas9 by inactivating both.
“Additionally, Cas9 can be reprogrammed into nickase (nCas9) by inactivating either RuvC or HNH, 16 or into catalytically inactive Cas9 (termed dead Cas9, or dCas9) by inactivating both of them”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites 16 17
Not checked in the free run.
May combine two claims.
PremisecitationTALEN generally produce less off-target effects relative to CRISPR-Cas9, partially due to the heterodimeric construction of FokI nuclease in TALEN.
“Second, TALEN are generally reported to produce less off-target effects in relative to CRISPR-Cas9, 19 20 partially by virtue of the heterodimeric construction of FokI nuclease in TALEN.”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites 19 20
Not checked in the free run.
May combine two claims.
PremisecitationThe core components of CRISPR-Cas9 are a nuclease Cas9 comprising RuvC and HNH domains and a single guide RNA derived from crRNA and tracrRNA.
“the core components of CRISPR-Cas9 are a nuclease Cas9 comprising two catalytic active domains RuvC and HNH, and a single guide RNA (sgRNA) that is derived from CRISPR RNA (crRNA) and transacting CRISPR RNA.15”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [15] source
Not checked in the free run.
May combine two claims.
PremisecitationTALEN can target more genome sites than CRISPR-Cas9 because CRISPR targets are restricted by PAM and a guanine at the 5' end whereas TALEN only requires thymine at the 5' end.
“First, the targets of CRISPR-Cas9 are restricted by the presence of PAM sequence and a guanine at the 5 0 end 11, whereas the only restriction of TALEN targets is the presence of thymine at the 5 0 end, 18 which means that TALEN can target more genome sites than CRISPR-Cas9.”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites 11 18
Not checked in the free run.
May combine two claims.
PremisecitationHDR leads to precise gene correction or replacement whereas NHEJ is error prone and may induce small insert or delete mutations.
“HDR leads to precise gene correction or replacement whereas NHEJ is error prone and may induce small insert or delete (indel) mutations”
Quote in the paperSubstantial claim0 of 1 sources checked- cites 13 14 15
Not checked in the free run.
May combine two claims.
InterpretationcitationdCas9 can be fused to epigenetic modifiers; under sgRNA guidance, dCas9 and the modifiers access target sites and exert epigenetic regulations, a process termed epigenome editing that is a potential tool for anticancer modalities.
“Moreover, dCas9 can be harnessed as a site-specific DNA binding domain and fused to epigenetic modifiers.Under the guidance of sgRNAs, dCas9 and the modifiers get access to the target sites and exert epigenetic regulations, 16 45 46 a process termed epigenome editing, which is also a potential tool for anticancer modalities.”
Quote in the paperSubstantial claim0 of 1 sources checked- cites 16 45 46
Not checked in the free run.
Probably not a substantial claim: may not pass S4 (based).
Interpretationnone givenMonogenic disorders are more amenable to gene therapies than polygenic diseases such as cancer.
“Compared with polygenic diseases such as cancer, monogenic disorders are more amenable to gene therapies.”
Quote in the paperNot a substantial claimProbably not a substantial claim: may not pass S4 (based).
InterpretationreasoningCRISPR-Cas9 possesses inherent advantages in engineering and disabling pathogen genomes to treat infectious diseases because it is derived from the microbial adaptive immune defense system.
“CRISPR-Cas9 is derived from microbial adaptive immune defense system, and thus possesses inherent advantages in engineering and disabling pathogen genomes to treat infectious diseases.”
Quote in the paperNot a substantial claimMay combine two claims.
InterpretationcitationCRISPR-Cas9 can correct genetic mutations as demonstrated in monogenic diseases and modulate epigenetic states.
“CRISPR-Cas9 can correct genetic mutations as demonstrated in monogenic diseases, [30][31][32][33][34][35][36] and modulate epigenetic states.16 43-46”
Quote in the paperSubstantial claim0 of 2 sources checked- cites [30][31][32][33][34][35][36]
Not checked in the free run.
- cites 16 43-46
Not checked in the free run.
May combine two claims.
InterpretationreasoningCRISPR-Cas9 can induce both gain- and loss-of-function mutations and suffers from less off-target effects than RNAi because it derives from prokaryote and has less crosstalk with eukaryotic components.
“CRISPR-Cas9 system, on the contrary, can induce both gain-and loss-of-function mutations, and suffers from less off-target effects for that CRISPR-Cas9 derives from prokaryote and hence has less crosstalk with eukaryotic components than RNAi pathway does.”
Quote in the paperNot a substantial claim- Rests on an assumption: RNAi effects are temporary, non-specific and limited to knocking down transcribed genes.
Probably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationDeinococcus radiodurans can repair its genome from hundreds of short DNA fragments resulting from exogenous damages.
“Moreover, previous study showed that bacterium Deinococcus radiodurans can repair its genome form hundreds of short DNA fragments resulting from exogenous damages.”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [65] source
Not checked in the free run.
May combine two claims.
PremisecitationCell-penetrating peptide-mediated delivery of CRISPR-Cas9 into cells increases editing efficiency, but the optimal editing efficiency remains under 20% in vitro.
“Though cell-penetrating peptidemediated delivery of CRISPR-Cas9 into cells was reported to increase editing efficiency, the optimal editing efficiency was still under 20% in vitro.59”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites [59] source
Not checked in the free run.
Probably not a substantial claim: may not pass S4 (based).
Interpretationnone givenCRISPR-Cas9-based (epi)genome manipulation therapies in cancer are hampered by heterogeneity in oncogenic mutation profiles.
“As stated above, CRISPR-Cas9 based (epi)genome manipulation therapies in cancer are hampered by heterogeneity in oncogenic mutation profiles and the requirement of pretty high editing efficiency.”
Quote in the paperNot a substantial claimMay combine two claims.
PremisecitationModification of host cells to enhance anticancer immune responses or increase resistance to chemo- and radiotoxicity is a current hot spot in cancer gene therapy.
“Currently, another hot spot in cancer gene therapy is the modifications of the host cells to enhance anticancer immune responses, 68 or to increase resistance to chemo-and radiotoxicity. 3”
Quote in the paperNot a substantial claim0 of 2 sources checkedProbably not a substantial claim: may not pass S3 (load-bearing).
PremisecitationAAV vectors are commonly used gene delivery tools for gene therapy research and clinical trials because of their efficiency and safety.
“Adeno-associated virus (AAV) vectors are commonly used gene delivery tools for gene therapy research and clinical trials because of their efficiency and safety. 1 57 58”
Quote in the paperNot a substantial claim0 of 1 sources checked- cites 1 57 58
Not checked in the free run.
May combine two claims.
PremisecitationCRISPR-Cas9 has been applied in T cell modification and immune modulation.
“Given that CRISPR-Cas9 has been applied in T cell modification 70 and immune modulation, 70 71”
Quote in the paperSubstantial claim0 of 2 sources checked- cites [70] source
Not checked in the free run.
- cites 70 71
Not checked in the free run.
Classified as probably not a substantial claim.
InterpretationreasoningBecause CRISPR-Cas9 causes permanent genome alterations, its off-target effects must be accurately profiled and controlled when applied in gene therapy.
“Because CRISPR-Cas9 causes permanent genome alterations, its off-target effects must be accurately profiled and controlled when applied in gene therapy.”
Quote in the paperSubstantial claimProbably not a substantial claim: may not pass S4 (based).
Interpretationnone givenThe RNA-guided genome editing tool CRISPR-Cas9 offers several advantages over protein-guided counterparts and RNAi techniques.
“In conclusion, the RNA-guided genome editing tool CRISPR-Cas9 offers several advantages over protein guided counterparts and RNAi techniques.”
Quote in the paperNot a substantial claimMay combine two claims.
PremisecitationAmong mice genetically edited by CRISPR-Cas9, all HDR-mediated editing corrected causative gene defects and rescued disease phenotype, while only a small part of NHEJ-mediated editing had the corrective effect.
“As shown in the study by Wu et al 30 among mice genetically edited by CRISPR-Cas9, all HDR-mediated editing corrected the causative gene defects and rescued disease phenotype while only a small part of NHEJ-mediated editing had the corrective effect.”
Quote in the paperSubstantial claim0 of 1 sources checked- cites [30] source
Not checked in the free run.
May combine two claims.
InterpretationreasoningBefore CRISPR-Cas9 is translatable to the clinic, several challenges must be overcome, including reliably profiling and controlling off-target effects, increasing editing efficiency, and improving HDR rate.
“Before it is translatable to the clinic to benefit patients, several challenges must be overcome, such as ways to reliably profile and control the off-target effects, ways to increase editing efficiency and ways to improve HDR rate.”
Quote in the paperSubstantial claimMay combine two claims.
InterpretationcitationIncreasing HDR rate can improve the efficiency and reliability of CRISPR-Cas9-mediated gene therapy while decreasing genomic toxic effects.
“Therefore, increasing HDR rate can improve the efficiency and reliability of CRISPR-Cas9-mediated gene therapy while decrease genomic toxic effects concurrently.”
Quote in the paperSubstantial claim- Rests on an assumption: The DSBs produced by CRISPR-Cas9 are subsequently processed by NHEJ or HDR.
- Rests on an assumption: In many cases, HDR results in desired gene modifications while NHEJ gives rise to undesired indels that cause uncontrollable gene disruptions.
Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.
PremisecitationMany oncolytic viruses have been tested in clinical trials, with one licensed in China.
“Many oncolytic viruses have been tested in clinical trials, 66 with one of them licensed in China.67”
Quote in the paperNot a substantial claim0 of 2 sources checkedMay combine two claims.
PremisecitationDNA binding and cleavage by Cas9 are in some cases uncoupled; Cas9 can bind but not cleave partially complementary sequences and exert epigenomic regulatory effects, which is unpredictable by silicon methods relying on base pairing.
“And moreover, DNA binding and cleavage by Cas9 are in some cases uncoupled, that is, Cas9 can bind to but not cleave DNA sequences that are partially complementary to sgRNA 49 and exert epigenomic regulatory effects, 43 44 which is unpredictable by silicon methods relying on base pairing.”
Quote in the paperSubstantial claim0 of 2 sources checked- cites [49] source
Not checked in the free run.
- cites 43 44
Not checked in the free run.
The paper relies on this without support.
RNAi effects are temporary, non-specific and limited to knocking down transcribed genes.
“However, the effects of RNAi are temporary, non-specific and limited to knocking down transcribed genes.”
The paper relies on this without support.
Cancer is a polygenic and heterogeneous disease.
“First, cancer is a polygenic and heterogeneous disease.”
The paper relies on this without support.
Unedited malignant cells retain unreduced malignancy, possess selective advantages over corrected cells and proliferate quickly.
“the unedited cells retain unreduced malignancy, possess selective advantages over the 'corrected' cells and proliferate quickly”
The paper relies on this without support.
The commonly used Cas9 gene derived from Streptococcus pyogenes is too big to transduce with wild-type AAV due to its limited genetic cargo.
“However, the commonly used Cas9 gene derived from Streptococcus pyogenes is too big to transduce with wildtype AAV due to its limited genetic cargo.”
The paper relies on this without support.
The DSBs produced by CRISPR-Cas9 are subsequently processed by NHEJ or HDR.
“The DSBs produced by CRISPR-Cas9 are subsequently processed by NHEJ or HDR.”
The paper relies on this without support.
In many cases, HDR results in desired gene modifications while NHEJ gives rise to undesired indels that cause uncontrollable gene disruptions.
“In many cases, HDR results in desired gene modifications while NHEJ gives rise to undesired indels that cause uncontrollable gene disruptions.”
The paper relies on this without support.
Compared with monogenetic diseases, studies on CRISPR-mediated gene therapy in polygenic and polyetiologic diseases lag behind.
“with monogenetic diseases, studies on CRISPR-mediated gene therapy in polygenic and polyetiologic diseases lag behind.”
The paper relies on this without support.
Some viruses can be genetically engineered to specifically infect and replicate in cancer cells, killing them through virus-mediated cytotoxicity or enhanced anticancer immune response.
“Some virus can be genetically engineered to specifically infect and replicate in cancer cells, killing them through virusmediated cytotoxicity or enhanced anticancer immune response.”
The paper relies on this without support.
Cancer gene therapy necessitates high editing efficiency.
“As stated above, cancer gene therapy necessitates high editing efficiency, which is still beyond the reach of current CRISPR-Cas9 technologies.”
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
CRISPR/Cas9 system has shown potentials in polygenetic diseases, such as cancer, by inhibiting oncogene expression or deactivating oncogenic virus.
“In addition, CRISPR/Cas9 system has shown potentials in polygenetic diseases, such as cancer, by inhibiting oncogene expression or deactivating oncogenic virus [52–55].”
From Non-viral delivery systems for CRISPR/Cas9-based genome editing: challenges and opportunities (2018) · cites this paper as [52]
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TALEN or Cas9 – Rapid, Efficient and Specific Choices for Genome Modifications
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Flagged first, then by citations
Research works printed but not linked: 1
- http://www.wiley.com//legacy/wileychi/genmed/clinical/
Cited by
Sorted by citations
Stem cell programs in cancer initiation, progression, and therapy resistance
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Non-viral delivery systems for CRISPR/Cas9-based genome editing: challenges and opportunities
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- Authors
- Xiao-Jie, L., Hui-Ying, X., Zun-Ping, K., Jin-Lian, C., & Li-Juan, J.
- Affiliations
- Department of Gastroenterology, Shanghai East Hospital, Tongji University School of Medicine, Shanghai, China
- The Reproductive Center, Jiangsu Huai'an Maternity and Children Hospital, Huai'an, China
- Department of Cardiology, The Fifth People's Hospital of Shanghai, Fudan University, Shanghai, China
- Department of Gastroenterology, Shanghai Sixth People's Hospital (South), Shanghai Jiaotong University School of Medicine, Shanghai, China
- Department of Rehabilitation, The Second People's Hospital of Huai'an, Huai'an, China
- Venue
- Journal of Medical Genetics
- Publisher
- BMJ
- Published
- 2015-02-24
- Volume
- 52
- Issue
- 5
- Pages
- 289-296
- ISSN
- 0022-2593 (ISSN-L)
- 1468-6244
- OpenAlex
- W2140455763
- Semantic Scholar
- 413c6dd5b848724f59fb0a72d879f29c60e250ed
- Cited by
- 200
- References
- 70
- Citations by year
- 2026: 8 · 2025: 13 · 2024: 16 · 2023: 15 · 2022: 18 · 2021: 29 · 2020: 25 · 2019: 21 · 2018: 15 · 2017: 8 · 2016: 20 · 2015: 12
- FWCI
- 1.76
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Journal of Medical Genetics (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Virus-based gene therapy research
- Health Sciences › Medicine › Oncology › CAR-T cell therapy research
- Keywords
- CRISPR/Cas9, gene therapy, genome editing, monogenic disorders, cancer gene therapy, oncosuppressor genes, multiplex genome editing, RNA-guided nucleases
- MeSH terms
- Animals, Cell Line, Humans, Genetic Therapy, Genome, RNA Editing, Gene Transfer Techniques, Models, Animal, Clustered Regularly Interspaced Short Palindromic Repeats
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Claims read by deepseek-v4.1-flash under definition version 3 (extract-v3) on 2026-10-10.
Classified by jev-1.13-20260917 (gold-guideline-v0.2) on 2026-10-10.
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