The DOI matches its Crossref record; 36 of the 37 references it cites were found in a registry or an index.
CCTop: An Intuitive, Flexible and Reliable CRISPR/Cas9 Target Prediction Tool
Open accessAbstract
Engineering of the CRISPR/Cas9 system has opened a plethora of new opportunities for site-directed mutagenesis and targeted genome modification. Fundamental to this is a stretch of twenty nucleotides at the 5' end of a guide RNA that provides specificity to the bound Cas9 endonuclease. Since a sequence of twenty nucleotides can occur multiple times in a given genome and some mismatches seem to be accepted by the CRISPR/Cas9 complex, an efficient and reliable in silico selection and evaluation of the targeting site is key prerequisite for the experimental success. Here we present the CRISPR/Cas9 target online predictor (CCTop, http://crispr.cos.uni-heidelberg.de) to overcome limitations of already available tools. CCTop provides an intuitive user interface with reasonable default parameters that can easily be tuned by the user. From a given query sequence, CCTop identifies and ranks all candidate sgRNA target sites according to their off-target quality and displays full documentation. CCTop was experimentally validated for gene inactivation, non-homologous end-joining as well as homology directed repair. Thus, CCTop provides the bench biologist with a tool for the rapid and efficient identification of high quality target sites.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
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?
The cited source says what the claim attributes to it.
In the citing paper
“CCTop and CROP-IT generate scores based on the distances of the mismatches to the PAM (Singh et al., 2015; Stemmer et al., 2015).”
From Off-target effects in CRISPR/Cas9 gene editing (2023) · cites this paper as Stemmer et al., 2015
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Fiji: an open-source platform for biological-image analysis
Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., Preibisch, S., Rueden, C., Saalfeld, S., Schmid, B., et al. (2012) · Nature Methods · doi:10.1038/nmeth.2019 · Cited by 66,890
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.
Langmead, B., Trapnell, C., Pop, M., & Salzberg, S. L. (2009) · Genome Biology · doi:10.1186/gb-2009-10-3-r25 · Cited by 21,849
A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity
Jinek, M., Chylinski, K., Fonfara, I., Hauer, M., Doudna, J. A., & Charpentier, E. (2012) · Science · doi:10.1126/science.1225829 · Cited by 17,116
Multiplex Genome Engineering Using CRISPR/Cas Systems
Cong, L., Ran, F. A., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P. D., Wu, X., Jiang, W., Marraffini, L. A., et al. (2013) · Science · doi:10.1126/science.1231143 · Cited by 15,339
The Human Genome Browser at UCSC
Kent, W. J., Sugnet, C. W., Furey, T. S., Roskin, K. M., Pringle, T. H., Zahler, A. M., & Haussler, A. D. (2002) · Genome Research · doi:10.1101/gr.229102 · Cited by 10,400
RNA-Guided Human Genome Engineering via Cas9
Mali, P., Yang, L., Esvelt, K. M., Aach, J., Guell, M., DiCarlo, J. E., Norville, J. E., & Church, G. M. (2013) · Science · doi:10.1126/science.1232033 · Cited by 9,210
DNA targeting specificity of RNA-guided Cas9 nucleases
Hsu, P. D., Scott, D. A., Weinstein, J. A., Ran, F. A., Konermann, S., Agarwala, V., Li, Y., Fine, E. J., Wu, X., Shalem, O., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2647 · Cited by 4,741
Efficient genome editing in zebrafish using a CRISPR-Cas system
Hwang, W. Y., Fu, Y., Reyon, D., Maeder, M. L., Tsai, S. Q., Sander, J. D., Peterson, R. T., Yeh, J.-R. J., & Joung, J. K. (2013) · Nature Biotechnology · doi:10.1038/nbt.2501 · Cited by 2,937
Genome editing with engineered zinc finger nucleases
Urnov, F. D., Rebar, E. J., Holmes, M. C., Zhang, H. S., & Gregory, P. D. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2842 · Cited by 2,285
A TALE nuclease architecture for efficient genome editing
Miller, J. C., Tan, S., Qiao, G., Barlow, K. A., Wang, J., Xia, D. F., Meng, X., Paschon, D. E., Leung, E., Hinkley, S. J., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.1755 · Cited by 2,098
Flagged first, then by citations
1 of the 37 references couldn’t be matched to a known paper.
Cited by
Sorted by citations
Items 301–400 of 1,000
The Wnt/β-Catenin Pathway is Activated as a Novel Nucleolar Stress Response
Dannheisig, D. P., Bächle, J., Tasic, J., Keil, M., & Pfister, A. S. (2020) · Journal of Molecular Biology · doi:10.1016/j.jmb.2020.11.018 · Cited by 32
Lee, R. H., Kawano, T., Grover, S. P., Bharathi, V., Martinez, D. R., Cowley, D. O., Mackman, N., Bergmeier, W., & Antoniak, S. (2021) · Journal of Thrombosis and Haemostasis · doi:10.1111/jth.15569 · Cited by 31
High-throughput methods for genome editing: the more the better
Huang, Y., Shang, M., Liu, T., & Wang, K. (2022) · PLANT PHYSIOLOGY · doi:10.1093/plphys/kiac017 · Cited by 32
Corneal gene therapy: Structural and mechanistic understanding
Kumar, R., Sinha, N. R., & Mohan, R. R. (2023) · The Ocular Surface · doi:10.1016/j.jtos.2023.05.007 · Cited by 31
CRISPRi functional genomics in bacteria and its application to medical and industrial research
Enright, A. L., Heelan, W. J., Ward, R. D., & Peters, J. M. (2024) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00170-22 · Cited by 32
Temporal BMP4 effects on mouse embryonic and extraembryonic development
Hadas, R., Rubinstein, H., Mittnenzweig, M., Mayshar, Y., Ben-Yair, R., Cheng, S., Aguilera-Castrejon, A., Reines, N., Orenbuch, A.-H., Lifshitz, A., et al. (2024) · Nature · doi:10.1038/s41586-024-07937-5 · Cited by 32
The Rise of CRISPR/Cas for Genome Editing in Stem Cells
Shui, B., Hernández-Matías, L., Guo, Y., & Peng, Y. (2016) · Stem Cells International · doi:10.1155/2016/8140168 · Cited by 33
Wang, N., Yin, Z., Zhao, Y., Wang, J., Pei, Y., Ji, P., Daly, P., Li, Z., Dou, D., & Wei, L. (2022) · New Phytologist · doi:10.1111/nph.18509 · Cited by 30
Wang, W., Zhang, F., Guo, K., Xu, J., Zhao, P., & Xia, Q. (2023) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2023.124793 · Cited by 30
Lyu, Q., Dhagia, V., Han, Y. M., Guo, B., Wines-Samuelson, M., Christie, C. K., Yin, Q., Slivano, O. J., Herring, B. P., Long, X., et al. (2018) · Arteriosclerosis Thrombosis and Vascular Biology · doi:10.1161/atvbaha.118.311171 · Cited by 30
Przybilla, M. J., Ou, L., Tăbăran, F., Jiang, X., Sidhu, R., Kell, P. J., Ory, D. S., O’Sullivan, M. G., & Whitley, C. B. (2018) · Molecular Genetics and Metabolism · doi:10.1016/j.ymgme.2018.11.002 · Cited by 30
Machine learning in the estimation of CRISPR-Cas9 cleavage sites for plant system
Das, J., Kumar, S., Mishra, D. C., Chaturvedi, K. K., Paul, R. K., & Kairi, A. (2023) · Frontiers in Genetics · doi:10.3389/fgene.2022.1085332 · Cited by 30
Specificity of CRISPR-Cas9 Editing in Exagamglogene Autotemcel
Yen, A., Zappala, Z., Fine, R. S., Majarian, T. D., Sripakdeevong, P., & Altshuler, D. (2024) · New England Journal of Medicine · doi:10.1056/nejmc2313119 · Cited by 30
From Code to Life: The AI‐Driven Revolution in Genome Editing
Li, Z., Khan, W. U., Bai, G., Chao, D., Wang, J., Zhang, Y., Wang, C., Zhang, H., Wang, W., Luo, M., et al. (2025) · Advanced Science · doi:10.1002/advs.202417029 · Cited by 31
Naert, T., Nieuwenhuysen, T. V., & Vleminckx, K. (2017) · genesis · doi:10.1002/dvg.23005 · Cited by 28
Marker-free genome editing in Ustilago trichophora with the CRISPR-Cas9 technology
Huck, S., Bock, J., Girardello, J., Gauert, M., & Pul, Ü. (2018) · RNA Biology · doi:10.1080/15476286.2018.1493329 · Cited by 30
Advancements in CRISPR/Cas9 technology—Focusing on cancer therapeutics and beyond
Mirza, Z., & Karim, S. (2019) · Seminars in Cell and Developmental Biology · doi:10.1016/j.semcdb.2019.05.026 · Cited by 29
Kueh, A. J., Eccles, S., Tang, L., Garnham, A. L., May, R. E., Herold, M. J., Smyth, G. K., Voss, A. K., & Thomas, T. (2019) · Molecular and Cellular Biology · doi:10.1128/mcb.00506-19 · Cited by 29
A complex regulatory landscape involved in the development of mammalian external genitals
Amândio, A. R., Lopez‐Delisle, L., Bolt, C. C., Mascrez, B., & Duboule, D. (2020) · eLife · doi:10.7554/elife.52962 · Cited by 26
Gene Editing in Trypanosomatids: Tips and Tricks in the CRISPR-Cas9 Era
Yagoubat, A., Corrales, R. M., Bastien, P., Lévêque, M. F., & Sterkers, Y. (2020) · Trends in Parasitology · doi:10.1016/j.pt.2020.06.005 · Cited by 29
Current widely-used web-based tools for CRISPR nucleases, base editors, and prime editors
Hwang, G., Song, B., & Bae, S. (2021) · Gene and Genome Editing · doi:10.1016/j.ggedit.2021.100004 · Cited by 28
Letelier, J., Naranjo, S., Sospedra, I., Martínez‐Morales, J. R., López-Rı́os, J., Shubin, N. H., & Gómez-Skármeta, J. L. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2100575118 · Cited by 29
Application of CRISPR/Cas9 in Rapeseed for Gene Function Research and Genetic Improvement
Tian, Q. C., Li, B., Feng, Y., Zhao, W., Huang, J., & Chao, H. (2022) · Agronomy · doi:10.3390/agronomy12040824 · Cited by 33
Siles, L., Ruiz-Nogales, S., Navinés-Ferrer, A., Méndez-Vendrell, P., & Pomares, E. (2023) · Molecular Therapy - Nucleic Acids · doi:10.1016/j.omtn.2023.02.032 · Cited by 29
CRISPys: Optimal sgRNA Design for Editing Multiple Members of a Gene Family Using the CRISPR System
Hyams, G., Abadi, S., Lahav, S., Avni, A., Halperin, E., Shani, E., & Mayrose, I. (2018) · Journal of Molecular Biology · doi:10.1016/j.jmb.2018.03.019 · Cited by 31
An Overview of Genome‐Engineering Methods
Sushmita, S., Kaur, G., Upadhyay, S. K., & Verma, P. C. (2021) · doi:10.1002/9781119672425.ch1 · Cited by 29
Koch, S., Pohl, C., Siontas, O., Cortesão, M., Mota, A., Runzheimer, K., Jung, S., Rebrošová, K., Šiler, M., Moeller, R., et al. (2023) · Frontiers in Microbiology · doi:10.3389/fmicb.2023.1233740 · Cited by 28
CRISPR/Cas9-mediated Genomic Editing of Cluap1/IFT38 Reveals a New Role in Actin Arrangement
Beyer, T., Bolz, S., Junger, K., Horn, N., Moniruzzaman, M., Wissinger, Y., Ueffing, M., & Boldt, K. (2018) · Molecular & Cellular Proteomics · doi:10.1074/mcp.ra117.000487 · Cited by 27
Itoh, M., Kawagoe, S., Tamai, K., Nakagawa, H., Asahina, A., & Okano, H. J. (2020) · Journal of Dermatological Science · doi:10.1016/j.jdermsci.2020.04.004 · Cited by 30
Martin, A., Wolcott, N. S., & O’Connell, L. A. (2020) · Journal of Experimental Biology · doi:10.1242/jeb.208793 · Cited by 28
Control of Viral Infection by Natural Killer Cell Inhibitory Receptors
Parikh, B. A., Bern, M. D., Piersma, S. J., Yang, L., Beckman, D. L., Poursine‐Laurent, J., Plougastel-Douglas, B., & Yokoyama, W. M. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.107969 · Cited by 28
Nguyen, C. X., Dohnalkova, A. C., Hancock, C. N., Kirk, K. R., Stacey, G. S., & Stacey, M. G. (2021) · The Plant Genome · doi:10.1002/tpg2.20172 · Cited by 28
Aberrant promoter methylation contributes to LRIG1 silencing in basal/triple-negative breast cancer
Umeh-Garcia, M. C., O’Geen, H., Simion, C., Gephart, M. H., Segal, D. J., & Sweeney, C. A. (2022) · British Journal of Cancer · doi:10.1038/s41416-022-01812-8 · Cited by 28
Homology-directed repair of an MYBPC3 gene mutation in a rat model of hypertrophic cardiomyopathy
Nie, J., Han, Y., Jin, Z., Hang, W., Shu, H., Zheng, W., Ni, L., & Wang, D. W. (2023) · Gene Therapy · doi:10.1038/s41434-023-00384-3 · Cited by 28
Tsingos, E., Höckendorf, B., Sütterlin, T., Kirchmaier, S., Grabe, N., Centanin, L., & Wittbrodt, J. (2019) · eLife · doi:10.7554/elife.42646 · Cited by 28
Self-citationLischik, C. Q., Adelmann, L., & Wittbrodt, J. (2019) · PLoS ONE · doi:10.1371/journal.pone.0212956 · Cited by 27
Self-citationRabinowitz, R., Almog, S., Darnell, R., & Offen, D. (2020) · Frontiers in Genetics · doi:10.3389/fgene.2020.00851 · Cited by 29
SYCP1 head-to-head assembly is required for chromosome synapsis in mouse meiosis
Billmyre, K. K., Kesler, E. A., Tsuchiya, D., Corbin, T. J., Weaver, K. J., Moran, A., Yu, Z., Adams, L., Delventhal, K. M., Durnin, M., et al. (2023) · Science Advances · doi:10.1126/sciadv.adi1562 · Cited by 27
Kovalev, M. A., Mamaeva, N. Y., Kristovskiy, N. V., Feskin, P. G., Vinnikov, R. S., Oleinikov, P. D., Sosnovtseva, A. O., Yakovlev, V. A., Glukhov, G. S., & Shaytan, A. К. (2025) · International Journal of Molecular Sciences · doi:10.3390/ijms26136371 · Cited by 29
Cai, B., Sun, S., Li, Z., Zhang, X., Ke, Y., Yang, J., & Li, X. (2018) · Human Genetics · doi:10.1007/s00439-018-1933-9 · Cited by 27
Kelkar, A., Zhu, Y., Groth, T., Stolfa, G., Stablewski, A. B., Singhi, N., Nemeth, M. J., & Neelamegham, S. (2019) · Molecular Therapy · doi:10.1016/j.ymthe.2019.09.006 · Cited by 27
Schmidt, F. J., Zimmermann, M. M., Wiedmann, D. R., Lichtenauer, S., Grundmann, L., Muth, J. R., Twyman, R. M., Prüfer, D., & Noll, G. A. (2020) · Frontiers in Plant Science · doi:10.3389/fpls.2019.01666 · Cited by 24
Bar-seq strategies for the LeishGEdit toolbox
Beneke, T., & Gluenz, E. (2020) · Molecular and Biochemical Parasitology · doi:10.1016/j.molbiopara.2020.111295 · Cited by 26
Marx, N., Dhiman, H., Schmieder, V., Freire, C. M., Ly, N. N., Klanert, G., & Borth, N. (2021) · Metabolic Engineering · doi:10.1016/j.ymben.2021.04.014 · Cited by 26
Targeted-Deletion of a Tiny Sequence via Prime Editing to Restore SMN Expression
Zhou, M., Tang, S., Duan, N., Xie, M., Li, Z., Feng, M., Wu, L., Hu, Z., & Liang, D. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23147941 · Cited by 28
Sun, X., Li, X., Wang, Y., Xu, J., Jiang, S., & Zhang, Y. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23147755 · Cited by 27
Tadala, L., Langenbach, D., Dannborg, M., Cervantes-Rivera, R., Sharma, A., Vieth, K., Rieckmann, L. M., Wanders, A., Cisneros, D. A., & Puhar, A. (2022) · Cell Reports · doi:10.1016/j.celrep.2022.111173 · Cited by 28
General guidelines for CRISPR/Cas-based genome editing in plants
Aksoy, E., Yıldırım, K., Kavas, M., Kayıhan, C., Yerlikaya, B. A., Çalik, I., Küçük, İ. S., & Demirel, U. (2022) · Molecular Biology Reports · doi:10.1007/s11033-022-07773-8 · Cited by 28
Primary cilia promote the differentiation of human neurons through the WNT signaling pathway
Coschiera, A., Yoshihara, M., Lauter, G., Ezer, S., Pucci, M., Li, H., Kavšek, A., Riedel, C. G., Kere, J., & Swoboda, P. (2024) · BMC Biology · doi:10.1186/s12915-024-01845-w · Cited by 26
Wang, P., Siao, W., Zhao, X., Arora, D., Wang, R., Eeckhout, D., Leene, J. V., Kumar, R., Houbaert, A., Winne, N. D., et al. (2023) · Nature Plants · doi:10.1038/s41477-022-01328-2 · Cited by 26
In vivo targeted single-nucleotide editing in zebrafish
Tanaka, S., Yoshioka, S., Nishida, K., Hosokawa, H., Kakizuka, A., & Maegawa, S. (2018) · Scientific Reports · doi:10.1038/s41598-018-29794-9 · Cited by 25
CRISPR/Cas9-Edited Rice: A New Frontier for Sustainable Agriculture
Mehta, S., Lal, S. K., Sahu, K. P., Venkatapuram, A. K., Kumar, M., Sheri, V., Panditi, V., Vishwakarma, C., Yadav, R., Jameel, M. R., et al. (2020) · Springer eBooks · doi:10.1007/978-981-15-1322-0_23 · Cited by 27
Kobia, F., Preuße, K., Dai, Q., Weaver, N. C., Hass, M. R., Chaturvedi, P., Stein, S. J., Pear, W. S., Yuan, Z., Kovall, R. A., et al. (2020) · PLoS Biology · doi:10.1371/journal.pbio.3000850 · Cited by 26
CRISPR-Cas9 sgRNA design and outcome assessment: Bioinformatics tools and aquaculture applications
Luo, M., Wang, J., Dong, Z., Wang, C., & Lu, G. (2021) · Aquaculture and Fisheries · doi:10.1016/j.aaf.2021.10.002 · Cited by 28
CRISPR/Cas9 System: A Potential Tool for Genetic Improvement in Floricultural Crops
Sirohi, U., Kumar, M., Sharma, V. R., Teotia, S., Singh, D., Chaudhary, V., Priya, & Yadav, M. K. (2022) · Molecular Biotechnology · doi:10.1007/s12033-022-00523-y · Cited by 28
Simultaneously induced mutations in eIF4E genes by CRISPR/Cas9 enhance PVY resistance in tobacco
Le, N. T., Tran, H. T., Bui, T. P., Nguyen, G. T., Nguyen, D. V., Ta, D. T., Trinh, D. D., Molnár, A., Pham, N. B., Hà, C. H., et al. (2022) · Scientific Reports · doi:10.1038/s41598-022-18923-0 · Cited by 26
Veldhuizen, J., Mann, H. F., Karamanova, N., Horn, W. D. V., Migrino, R. Q., Brafman, D. A., & Nikkhah, M. (2022) · Science Advances · doi:10.1126/sciadv.abq6720 · Cited by 26
CRISPR/Cas9-Based Genome Editing of Transcription Factor Genes in Marchantia polymorpha
Sugano, S. S., & Nishihama, R. (2018) · Methods in molecular biology · doi:10.1007/978-1-4939-8657-6_7 · Cited by 24
Cho, H., Yoo, M., Pongkulapa, T., Rabie, H., Muotri, A. R., Yin, P. T., Choi, J., & Lee, K. (2024) · Advanced Science · doi:10.1002/advs.202306432 · Cited by 29
Revolutionizing Tomato Cultivation: CRISPR/Cas9 Mediated Biotic Stress Resistance
Shawky, A., Hatawsh, A., Al-Saadi, N. H., Farzan, R. A., Eltawy, N., Francis, M., Abousamra, S., Ismail, Y. Y., Attia, K. A., Fakhouri, A. S., et al. (2024) · Plants · doi:10.3390/plants13162269 · Cited by 26
RETRACTED: CRISPR/Cas9: A revolutionary genome editing tool for human cancers treatment
Akram, F., Haq, I. U., Sahreen, S., Nasir, N., Naseem, W., Imitaz, M., & Aqeel, A. (2022) · Technology in Cancer Research & Treatment · doi:10.1177/15330338221132078 · Cited by 25
RetractedTransformer-based anti-noise models for CRISPR-Cas9 off-target activities prediction
Guan, Z., & Jiang, Z. (2023) · Briefings in Bioinformatics · doi:10.1093/bib/bbad127 · Cited by 27
Barrera‐Rojas, C. H., Vicente, M. H., Brito, D. A. P., Silva, E. M., Lopez, A. M., Ferigolo, L. F., do Carmo, R. M., Silva, C., Silva, G. F. F. E., Correa, J. P. O., et al. (2023) · Journal of Experimental Botany · doi:10.1093/jxb/erad238 · Cited by 26
Progressive reduction of nuclear receptor Nr4a1 mediates age‐dependent cognitive decline
Chen, J., Zhang, Z., Liu, Y., Huang, L., Liu, Y., Yang, D., Bao, X., Liu, P., Ge, Y., Li, Q., et al. (2024) · Alzheimer s & Dementia · doi:10.1002/alz.13819 · Cited by 24
Cao, H., Cui, R., Guo, H., Xia, Q., Zhang, J., Liu, W., & Yang, Z. (2025) · Nature Communications · doi:10.1038/s41467-025-60426-9 · Cited by 24
Recent Advances in CRISPR/Cas9-Based Genome Editing Tools for Cardiac Diseases
Schreurs, J., Sacchetto, C., Colpaert, R. M. W., Vitiello, L., Rampazzo, A., & Calore, M. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms222010985 · Cited by 25
Norouzi, M., Nazarain-Firouzabadi, F., Ismaili, A., Ahmadvand, R., & Poormazaheri, H. (2024) · Frontiers in Plant Science · doi:10.3389/fpls.2023.1278127 · Cited by 24
Periwal, V. (2016) · Briefings in Bioinformatics · doi:10.1093/bib/bbw052 · Cited by 25
Virus-Mediated Genome Editing in Plants Using the CRISPR/Cas9 System
Mahas, A., Ali, Z., Tashkandi, M., & Mahfouz, M. M. (2019) · Methods in molecular biology · doi:10.1007/978-1-4939-8991-1_23 · Cited by 24
Aljanahi, A. A., Lazzarotto, C. R., Chen, S., Shin, T., Cordes, S., Fan, X., Jabara, I., Zhou, Y., Young, D. J., Lee, B., et al. (2021) · Molecular Therapy · doi:10.1016/j.ymthe.2021.06.016 · Cited by 27
CRISPR-derived genome editing therapies: Progress from bench to bedside
Rees, H. A., Minella, A. C., Burnett, C. A., Komor, A. C., & Gaudelli, N. M. (2021) · Molecular Therapy · doi:10.1016/j.ymthe.2021.09.027 · Cited by 25
Tips, Tricks, and Potential Pitfalls of CRISPR Genome Editing in Saccharomyces cerevisiae
Antony, J. S., Hinz, J. M., & Wyrick, J. J. (2022) · Frontiers in Bioengineering and Biotechnology · doi:10.3389/fbioe.2022.924914 · Cited by 24
CRISPR genome editing using computational approaches: A survey
Alipanahi, R., Safari, L., & Khanteymoori, A. (2023) · Frontiers in Bioinformatics · doi:10.3389/fbinf.2022.1001131 · Cited by 23
Li, G., Liu, X., Huang, S., Zeng, Y., Yang, G., Lu, Z., Zhang, Y., Ma, X., Wang, L., Huang, X., et al. (2019) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2019.05.021 · Cited by 23
Newman, A., Starrs, L. M., & Burgio, G. (2020) · BioEssays · doi:10.1002/bies.202000047 · Cited by 26
Jiang, X., Schaeffer, L., Patni, D., Russo, T., Lee, C.-Z., Aguilar, C., Marques, C., Jansen‐West, K. R., Hruška-Plocháň, M., Ray-Soni, A., et al. (2026) · Science · doi:10.1126/science.adv2600 · Cited by 22
Serikawa, T., Eberle, J., & Kurreck, J. (2017) · FEBS Letters · doi:10.1002/1873-3468.12855 · Cited by 23
Anderson, W., Thorpe, J., Long, S. A., & Rawlings, D. J. (2019) · The Journal of Immunology · doi:10.4049/jimmunol.1900848 · Cited by 25
Prediction of sgRNA Off-Target Activity in CRISPR/Cas9 Gene Editing Using Graph Convolution Network
Vinodkumar, P. K., Ozcinar, C., & Anbarjafari, G. (2021) · Entropy · doi:10.3390/e23050608 · Cited by 22
Jin, K., Zhang, B., Jin, Q., Cai, Z., Wei, L., Wang, X., Zheng, Y., Huang, B., Zhang, M., Qi, Y., et al. (2021) · Frontiers in Marine Science · doi:10.3389/fmars.2021.763470 · Cited by 22
Breau, K. A., Ok, M. T., Gomez-Martinez, I., Burclaff, J., Kohn, N. P., & Magness, S. T. (2022) · Stem Cell Reports · doi:10.1016/j.stemcr.2022.04.005 · Cited by 22
Zhang, Y., Yin, Z., Pi, L., Wang, N., Wang, J., Peng, H. F., & Dou, D. (2023) · Journal of Integrative Plant Biology · doi:10.1111/jipb.13458 · Cited by 22
Ishizaki, T., Ueda, Y., Takai, T., Maruyama, K., & Tsujimoto, Y. (2023) · Plant Science · doi:10.1016/j.plantsci.2023.111627 · Cited by 22
Essentiality of Nfatc1 short isoform in osteoclast differentiation and its self-regulation
Omata, Y., Tachibana, H., Aizaki, Y., Mimura, T., & Sato, K. (2023) · Scientific Reports · doi:10.1038/s41598-023-45909-3 · Cited by 23
CRISPR/Cas9-mediated knockout of c-REL in HeLa cells results in profound defects of the cell cycle
Slotta, C., Schlüter, T., Ruiz-Perera, L. M., Kadhim, H. M., Tertel, T., Henkel, E., Hübner, W., Greiner, J. F. W., Huser, T. R., Kaltschmidt, B., et al. (2017) · PLoS ONE · doi:10.1371/journal.pone.0182373 · Cited by 22
Chen, Y., Liao, B., Lu, Y., Liu, Y., Hsieh, F.-C., Hwang, P., & Hwang, S. L. (2019) · PLoS Genetics · doi:10.1371/journal.pgen.1008058 · Cited by 22
Caroti, F., Ávalos, E. G., Noeske, V., Avalos, P. G., Kromm, D., Wosch, M., Schütz, L., Hufnagel, L., & Lemke, S. (2018) · eLife · doi:10.7554/elife.34616 · Cited by 22
Hameed, A., Mehmood, M. A., Shahid, M., Fatma, S., Khan, A., & Ali, S. (2019) · GM crops & food · doi:10.1080/21645698.2019.1631115 · Cited by 22
The virological model plant, Nicotiana benthamiana expresses a single functional RDR6 homeolog
Ludman, M., & Fátyol, K. (2019) · Virology · doi:10.1016/j.virol.2019.08.017 · Cited by 22
Applications of CRISPR‐Cas9 in gynecological cancer research
Zhang, W., Liu, Y., Zhou, X., Zhao, R., & Wang, H. (2020) · Clinical Genetics · doi:10.1111/cge.13717 · Cited by 23
Canonical BMP Signaling Executes Epithelial-Mesenchymal Transition Downstream of SNAIL1
Frey, P., Devisme, A., Schrempp, M., Andrieux, G., Boerries, M., & Hecht, A. (2020) · Cancers · doi:10.3390/cancers12041019 · Cited by 23
Learning to quantify uncertainty in off-target activity for CRISPR guide RNAs
Özden, F., & Minary, P. (2024) · Nucleic Acids Research · doi:10.1093/nar/gkae759 · Cited by 21
Liedtke, D., Orth, M., Meissler, M., Geuer, S., Knaup, S., Köblitz, I., & Klopocki, E. (2019) · Scientific Reports · doi:10.1038/s41598-019-50055-w · Cited by 21
CRISPR Screening: Molecular Tools for Studying Virus–Host Interactions
Chulanov, V., Kostyusheva, A., Brezgin, S., Ponomareva, N. I., Gegechkori, V., Volchkova, E. V., Николаевич, П. Н., & Kostyushev, D. S. (2021) · Viruses · doi:10.3390/v13112258 · Cited by 21
Nguyen, T. H., Taieb, S. B., Moritaka, M., Liu, R., & Fukuda, S. (2021) · Journal of International Food & Agribusiness Marketing · doi:10.1080/08974438.2021.2011526 · Cited by 21
Genetically engineered zebrafish as models of skeletal development and regeneration
Henke, K., Farmer, D. T., Niu, X., Kraus, J. M., Galloway, J. L., & Youngstrom, D. W. (2022) · Bone · doi:10.1016/j.bone.2022.116611 · Cited by 22
Genetic Databases and Gene Editing Tools for Enhancing Crop Resistance against Abiotic Stress
Joshi, A. B., Yang, S.-Y., Song, H.-G., Min, J., & Lee, J.-H. (2023) · Biology · doi:10.3390/biology12111400 · Cited by 21
Engineering CRISPR/Cas9 therapeutics for cancer precision medicine
Sharma, A. K., & Giri, A. K. (2024) · Frontiers in Genetics · doi:10.3389/fgene.2024.1309175 · Cited by 23
Genome Editing in Penicillium chrysogenum Using Cas9 Ribonucleoprotein Particles
Pohl, C., Mózsik, L., Driessen, A. J. M., Bovenberg, R. A. L., & Nygård, Y. (2018) · Methods in molecular biology · doi:10.1007/978-1-4939-7795-6_12 · Cited by 21
CRISPR Guide RNA Design Guidelines for Efficient Genome Editing
Schindele, P., Wolter, F., & Puchta, H. (2020) · Methods in molecular biology · doi:10.1007/978-1-0716-0712-1_19 · Cited by 25
Metadata
- Authors
- Stemmer, M., Thumberger, T., del Sol Keyer, M., Wittbrodt, J., & Mateo, J. L.
- Affiliations
- Heidelberg University (DE)
- Corresponding author
- Thumberger, Thomas
- Wittbrodt, Joachim
- Mateo, Juan L.
- Venue
- PLoS ONE
- Publisher
- Public Library of Science (PLoS)
- Published
- 2015-04-24
- Volume
- 10
- Issue
- 4
- Pages
- e0124633
- ISSN
- 1932-6203 (ISSN-L)
- PMC
- PMC4409221
- OpenAlex
- W1990149668
- Cited by
- 1,088
- References
- 37
- Citations by year
- 2026: 87 · 2025: 99 · 2024: 106 · 2023: 140 · 2022: 129 · 2021: 114 · 2020: 139 · 2019: 96 · 2018: 72 · 2017: 53 · 2016: 39 · 2015: 13
- FWCI
- 25.61
- Type
- journal article
- Language
- en
- Update notices
- correction (2017-04-20)
- Open access
- gold
- doi.org
- Licence
- Locations
- PLoS ONE (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
- Figshare (submittedVersion, cc-by)
- Funders
- Deutsche Forschungsgemeinschaft (SFB873)
- Universität Heidelberg
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Interference and Gene Delivery
- Keywords
- CRISPR/Cas9, sgRNA design, off-target prediction, genome editing, gene inactivation, non-homologous end joining, homology-directed repair, web-based prediction tool
- MeSH terms
- Animals, Binding Sites, Humans, RNA, Messenger, Software, User-Computer Interface, Reproducibility of Results, Gene Targeting, Computational Biology, Internet, Genomics, CRISPR-Cas Systems, Web Browser
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.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review