BEscreen: a versatile toolkit to design base editing libraries
Base editing enables the high-throughput screening of genetic variants for phenotypic effects. Base editing screens require the design of single guide RNA (sgRNA) libraries to enable either gene- or variant-centric approaches. While computational tools supporting the design of sgRNAs exist, no solut...
Gespeichert in:
| Hauptverfasser: | , , , |
|---|---|
| Dokumenttyp: | Article (Journal) |
| Sprache: | Englisch |
| Veröffentlicht: |
19 May 2025
|
| In: |
Nucleic acids research
Year: 2025, Jahrgang: 53, Heft: W1, Pages: W68-W72 |
| ISSN: | 1362-4962 |
| DOI: | 10.1093/nar/gkaf406 |
| Online-Zugang: | Verlag, kostenfrei, Volltext: https://doi.org/10.1093/nar/gkaf406 Verlag, kostenfrei, Volltext: https://academic.oup.com/nar/article/53/W1/W68/8136462?login=true 
|
| Verfasserangaben: | Philipp G. Schneider, Shuang Liu, Lars Bullinger, Benjamin N. Ostendorf |
MARC
| LEADER | 00000naa a2200000 c 4500 | ||
|---|---|---|---|
| 001 | 1940104637 | ||
| 003 | DE-627 | ||
| 005 | 20251103185319.0 | ||
| 007 | cr uuu---uuuuu | ||
| 008 | 251103s2025 xx |||||o 00| ||eng c | ||
| 024 | 7 | |a 10.1093/nar/gkaf406 |2 doi | |
| 035 | |a (DE-627)1940104637 | ||
| 035 | |a (DE-599)KXP1940104637 | ||
| 040 | |a DE-627 |b ger |c DE-627 |e rda | ||
| 041 | |a eng | ||
| 084 | |a 33 |2 sdnb | ||
| 100 | 1 | |a Schneider, Philipp Gernot |e VerfasserIn |0 (DE-588)1380632579 |0 (DE-627)1940104793 |4 aut | |
| 245 | 1 | 0 | |a BEscreen: a versatile toolkit to design base editing libraries |c Philipp G. Schneider, Shuang Liu, Lars Bullinger, Benjamin N. Ostendorf |
| 264 | 1 | |c 19 May 2025 | |
| 300 | |b Illustrationen | ||
| 300 | |a 5 | ||
| 336 | |a Text |b txt |2 rdacontent | ||
| 337 | |a Computermedien |b c |2 rdamedia | ||
| 338 | |a Online-Ressource |b cr |2 rdacarrier | ||
| 500 | |a Gesehen am 03.11.2025 | ||
| 520 | |a Base editing enables the high-throughput screening of genetic variants for phenotypic effects. Base editing screens require the design of single guide RNA (sgRNA) libraries to enable either gene- or variant-centric approaches. While computational tools supporting the design of sgRNAs exist, no solution offers versatile and scalable library design enabling all major use cases. Here, we introduce BEscreen, a comprehensive base editing guide design tool provided as a web server (bescreen.ostendorflab.org) and as a command line tool. BEscreen provides variant-, gene-, and region-centric modes to accommodate various screening approaches. The variant mode accepts genomic coordinates, amino acid changes, or rsIDs as input. The gene mode designs near-saturation libraries covering the entire coding sequence of given genes or transcripts, and the region mode designs all possible guides for given genomic regions. BEscreen enables selection of guides by biological consequence, it features comprehensive customization of base editor characteristics, and it offers optional annotation using Ensembl’s Variant Effect Predictor. In sum, BEscreen is a highly versatile tool to design base editing screens for a wide range of use cases with seamless scalability from individual variants to large, near-saturation libraries. | ||
| 700 | 1 | |a Liu, Shuang |e VerfasserIn |4 aut | |
| 700 | 1 | |a Bullinger, Lars |d 1971- |e VerfasserIn |0 (DE-588)121697150 |0 (DE-627)081474296 |0 (DE-576)182046206 |4 aut | |
| 700 | 1 | |a Ostendorf, Benjamin Nils |d 1983- |e VerfasserIn |0 (DE-588)105039383X |0 (DE-627)783939531 |0 (DE-576)394089065 |4 aut | |
| 773 | 0 | 8 | |i Enthalten in |t Nucleic acids research |d Oxford : Oxford Univ. Press, 1974 |g 53(2025), W1, Seite W68-W72 |h Online-Ressource |w (DE-627)26813250X |w (DE-600)1472175-2 |w (DE-576)07760878X |x 1362-4962 |7 nnas |a BEscreen: a versatile toolkit to design base editing libraries |
| 773 | 1 | 8 | |g volume:53 |g year:2025 |g number:W1 |g pages:W68-W72 |g extent:5 |a BEscreen: a versatile toolkit to design base editing libraries |
| 856 | 4 | 0 | |u https://doi.org/10.1093/nar/gkaf406 |x Verlag |x Resolving-System |z kostenfrei |3 Volltext |
| 856 | 4 | 0 | |u https://academic.oup.com/nar/article/53/W1/W68/8136462?login=true |x Verlag |z kostenfrei |3 Volltext |
| 951 | |a AR | ||
| 992 | |a 20251103 | ||
| 993 | |a Article | ||
| 994 | |a 2025 | ||
| 998 | |g 121697150 |a Bullinger, Lars |m 121697150:Bullinger, Lars |p 3 | ||
| 999 | |a KXP-PPN1940104637 |e 4795847207 | ||
| BIB | |a Y | ||
| SER | |a journal | ||
| JSO | |a {"recId":"1940104637","id":{"doi":["10.1093/nar/gkaf406"],"eki":["1940104637"]},"title":[{"title_sort":"BEscreen: a versatile toolkit to design base editing libraries","title":"BEscreen: a versatile toolkit to design base editing libraries"}],"note":["Gesehen am 03.11.2025"],"origin":[{"dateIssuedDisp":"19 May 2025","dateIssuedKey":"2025"}],"type":{"media":"Online-Ressource","bibl":"article-journal"},"language":["eng"],"person":[{"roleDisplay":"VerfasserIn","family":"Schneider","given":"Philipp Gernot","display":"Schneider, Philipp Gernot","role":"aut"},{"roleDisplay":"VerfasserIn","family":"Liu","display":"Liu, Shuang","role":"aut","given":"Shuang"},{"given":"Lars","role":"aut","display":"Bullinger, Lars","family":"Bullinger","roleDisplay":"VerfasserIn"},{"roleDisplay":"VerfasserIn","family":"Ostendorf","role":"aut","display":"Ostendorf, Benjamin Nils","given":"Benjamin Nils"}],"physDesc":[{"noteIll":"Illustrationen","extent":"5 S."}],"name":{"displayForm":["Philipp G. Schneider, Shuang Liu, Lars Bullinger, Benjamin N. Ostendorf"]},"relHost":[{"pubHistory":["1.1974 -"],"titleAlt":[{"title":"NAR online"},{"title":"NAR"},{"title":"Database issue"},{"title":"Web server issue"}],"recId":"26813250X","id":{"issn":["1362-4962"],"zdb":["1472175-2"],"eki":["26813250X"]},"title":[{"title":"Nucleic acids research","title_sort":"Nucleic acids research"}],"note":["Gesehen am 15.09.2025","Ungezählte Beil.: Database issue; Web server issue"],"disp":"BEscreen: a versatile toolkit to design base editing librariesNucleic acids research","physDesc":[{"extent":"Online-Ressource"}],"part":{"text":"53(2025), W1, Seite W68-W72","issue":"W1","volume":"53","year":"2025","extent":"5","pages":"W68-W72"},"type":{"bibl":"periodical","media":"Online-Ressource"},"origin":[{"publisher":"Oxford Univ. Press","dateIssuedDisp":"1974-","dateIssuedKey":"1974","publisherPlace":"Oxford"}],"language":["eng"]}]} | ||
| SRT | |a SCHNEIDERPBESCREENAV1920 | ||