CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentation Article Swipe
Asif Ali Vadakkethil
,
Sonali Panda
,
A. K. Mitra
,
Manaswini Dash
,
Mirza Jaynul Baig
,
U. B. Angadi
,
Dinesh Babu Uthaya Kumar
,
Sarika Jaiswal
,
Mir Asif Iquebal
,
Kutubuddin A. Molla
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1093/bib/bbaf575
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1093/bib/bbaf575
Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)–CRISPR associated protein (CRISPR-Cas) has emerged and evolved as a revolutionary genome editing technology, transforming research across diverse biological disciplines. Over the past decade, this technology has unveiled numerous opportunities for precise genome manipulation. However, the processes of discovering Cas proteins, repurposing them as editing tools, selecting appropriate candidate tool from the CRISPR-toolbox, designing experiments, and analyzing data are often complex and require careful consideration. To support researchers at every stage of CRISPR experimentation, a wide array of web resources has been developed. In this article, we provide a comprehensive overview of standalone and web-based tools that assist in the identification of CRISPR-Cas systems and the design of guide RNAs (gRNAs). We also highlight tools for evaluating gRNA efficiency, predicting CRISPR-Cas9 mutation profiles, as well as tools for base editing and prime editing, and the analysis and visualization of experimental results. Additionally, we introduce CRISPR–Gateway for Accessing Tools and Resources (CRISPR-GATE), an all-inclusive web repository that consolidates publicly available tools for genome editing research. This repository offers a categorized and user-friendly interface, allowing researchers to quickly access relevant tools based on their specific needs. CRISPR-GATE aims to streamline the search for CRISPR resources, facilitating both education and accelerating innovation. The web repository can be accessed from https://crispr-gate.daasbioinfromaticsteam.in/.
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Metadata
- Type
- review
- Language
- en
- Landing Page
- https://doi.org/10.1093/bib/bbaf575
- OA Status
- gold
- References
- 311
- OpenAlex ID
- https://openalex.org/W4415773044
All OpenAlex metadata
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- OpenAlex ID
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https://openalex.org/W4415773044Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/bib/bbaf575Digital Object Identifier
- Title
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CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentationWork title
- Type
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reviewOpenAlex work type
- Language
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enPrimary language
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2025Year of publication
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2025-08-31Full publication date if available
- Authors
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Asif Ali Vadakkethil, Sonali Panda, A. K. Mitra, Manaswini Dash, Mirza Jaynul Baig, U. B. Angadi, Dinesh Babu Uthaya Kumar, Sarika Jaiswal, Mir Asif Iquebal, Kutubuddin A. MollaList of authors in order
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https://doi.org/10.1093/bib/bbaf575Publisher landing page
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://doi.org/10.1093/bib/bbaf575Direct OA link when available
- Cited by
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0Total citation count in OpenAlex
- References (count)
-
311Number of works referenced by this work
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| abstract_inverted_index.diverse | 24 |
| abstract_inverted_index.editing | 19, 51, 136, 169 |
| abstract_inverted_index.emerged | 12 |
| abstract_inverted_index.evolved | 14 |
| abstract_inverted_index.precise | 38 |
| abstract_inverted_index.protein | 9 |
| abstract_inverted_index.provide | 94 |
| abstract_inverted_index.quickly | 182 |
| abstract_inverted_index.require | 69 |
| abstract_inverted_index.support | 73 |
| abstract_inverted_index.systems | 110 |
| abstract_inverted_index.(gRNAs). | 117 |
| abstract_inverted_index.Abstract | 0 |
| abstract_inverted_index.However, | 41 |
| abstract_inverted_index.accessed | 211 |
| abstract_inverted_index.allowing | 179 |
| abstract_inverted_index.analysis | 142 |
| abstract_inverted_index.article, | 92 |
| abstract_inverted_index.editing, | 139 |
| abstract_inverted_index.mutation | 128 |
| abstract_inverted_index.numerous | 35 |
| abstract_inverted_index.overview | 97 |
| abstract_inverted_index.publicly | 164 |
| abstract_inverted_index.relevant | 184 |
| abstract_inverted_index.research | 22 |
| abstract_inverted_index.results. | 147 |
| abstract_inverted_index.specific | 189 |
| abstract_inverted_index.unveiled | 34 |
| abstract_inverted_index.Accessing | 153 |
| abstract_inverted_index.Clustered | 1 |
| abstract_inverted_index.Regularly | 2 |
| abstract_inverted_index.Resources | 156 |
| abstract_inverted_index.analyzing | 63 |
| abstract_inverted_index.available | 165 |
| abstract_inverted_index.candidate | 55 |
| abstract_inverted_index.designing | 60 |
| abstract_inverted_index.education | 202 |
| abstract_inverted_index.highlight | 120 |
| abstract_inverted_index.introduce | 150 |
| abstract_inverted_index.processes | 43 |
| abstract_inverted_index.profiles, | 129 |
| abstract_inverted_index.proteins, | 47 |
| abstract_inverted_index.research. | 170 |
| abstract_inverted_index.resources | 86 |
| abstract_inverted_index.selecting | 53 |
| abstract_inverted_index.web-based | 101 |
| abstract_inverted_index.CRISPR-Cas | 109 |
| abstract_inverted_index.associated | 8 |
| abstract_inverted_index.biological | 25 |
| abstract_inverted_index.developed. | 89 |
| abstract_inverted_index.evaluating | 123 |
| abstract_inverted_index.interface, | 178 |
| abstract_inverted_index.predicting | 126 |
| abstract_inverted_index.repository | 161, 172, 208 |
| abstract_inverted_index.resources, | 199 |
| abstract_inverted_index.standalone | 99 |
| abstract_inverted_index.streamline | 194 |
| abstract_inverted_index.technology | 32 |
| abstract_inverted_index.CRISPR-Cas9 | 127 |
| abstract_inverted_index.CRISPR-GATE | 191 |
| abstract_inverted_index.Interspaced | 3 |
| abstract_inverted_index.Palindromic | 5 |
| abstract_inverted_index.appropriate | 54 |
| abstract_inverted_index.categorized | 175 |
| abstract_inverted_index.discovering | 45 |
| abstract_inverted_index.efficiency, | 125 |
| abstract_inverted_index.innovation. | 205 |
| abstract_inverted_index.repurposing | 48 |
| abstract_inverted_index.researchers | 74, 180 |
| abstract_inverted_index.technology, | 20 |
| abstract_inverted_index.(CRISPR-Cas) | 10 |
| abstract_inverted_index.accelerating | 204 |
| abstract_inverted_index.consolidates | 163 |
| abstract_inverted_index.disciplines. | 26 |
| abstract_inverted_index.experimental | 146 |
| abstract_inverted_index.experiments, | 61 |
| abstract_inverted_index.facilitating | 200 |
| abstract_inverted_index.transforming | 21 |
| abstract_inverted_index.Additionally, | 148 |
| abstract_inverted_index.all-inclusive | 159 |
| abstract_inverted_index.comprehensive | 96 |
| abstract_inverted_index.manipulation. | 40 |
| abstract_inverted_index.opportunities | 36 |
| abstract_inverted_index.revolutionary | 17 |
| abstract_inverted_index.user-friendly | 177 |
| abstract_inverted_index.visualization | 144 |
| abstract_inverted_index.(CRISPR-GATE), | 157 |
| abstract_inverted_index.consideration. | 71 |
| abstract_inverted_index.identification | 107 |
| abstract_inverted_index.CRISPR-toolbox, | 59 |
| abstract_inverted_index.CRISPR–Gateway | 151 |
| abstract_inverted_index.experimentation, | 80 |
| abstract_inverted_index.(CRISPR)–CRISPR | 7 |
| abstract_inverted_index.https://crispr-gate.daasbioinfromaticsteam.in/. | 213 |
| cited_by_percentile_year | |
| countries_distinct_count | 3 |
| institutions_distinct_count | 10 |
| citation_normalized_percentile |