Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: CRISPRseek

https://packages.ecosyste.ms/registries/bioconductor.org/packages/CRISPRseek

Design of target-specific guide RNAs in CRISPR-Cas9, genome-editing systems
1 version
Latest release: about 1 year ago
3 dependent packages
25,244 downloads total

Papers Mentioning CRISPRseek 18

10.3389/fonc.2020.584404

In silico Method in CRISPR/Cas System: An Expedite and Powerful Booster
Cited by: 6
Author(s): Yuwei Zhang, Guofang Zhao, Fatma Ahmed, Tianfei Yi, Shiyun Hu, Ting Cai, Qi Liao
Software Mentions: 11
Published: about 4 years ago

10.7150/jgen.41196

crispRdesignR: A Versatile Guide RNA Design Package in R for CRISPR/Cas9 Applications
Cited by: 2
Author(s): Dylan Beeber, Frédéric J. J. Chain
Software Mentions: 9
Published: almost 5 years ago

10.26508/lsa.202000757

multicrispr: gRNA design for prime editing and parallel targeting of thousands of targets
Cited by: 16
Author(s): Aditya Bhagwat, Johannes Graumann, René Wiegandt, Mette Bentsen, Jordan M. Welker, Carsten Kuenne, Jens Preussner, Thomas Braun, Mario Looso
Software Mentions: 9
Published: about 4 years ago

10.1186/s12864-017-3746-y

GUIDEseq: a bioconductor package to analyze GUIDE-Seq datasets for CRISPR-Cas nucleases
Cited by: 29
Author(s): Lihua Julie Zhu, Michael C. Lawrence, Ankit Gupta, Hervé Pagès, Alper Küçükural, Manuel Garber, Scot A. Wolfe
Software Mentions: 8
Published: over 7 years ago

10.1371/journal.pone.0181943

CRISPRpred: A flexible and efficient tool for sgRNAs on-target activity prediction in CRISPR/Cas9 systems
Cited by: 63
Author(s): Md. Khaledur Rahman, Mahfuzur Rahman
Software Mentions: 7
Published: over 7 years ago

10.3390/cells9051288

Computational Tools and Resources Supporting CRISPR-Cas Experiments
Cited by: 34
Author(s): Paweł Śledziński, Mateusz Nowaczyk, Marta Olejniczak
Software Mentions: 5
Published: over 4 years ago

10.1186/s13059-018-1515-0

All-in-one adeno-associated virus delivery and genome editing by Neisseria meningitidis Cas9 in vivo
Cited by: 85
Author(s): Raed Ibraheim, Chun‐Qing Song, Aamir Mir, Nadia Amrani, Wen Xue, Erik J. Sontheimer
Software Mentions: 4
Published: about 6 years ago

10.1371/journal.pone.0108424

CRISPRseek: A Bioconductor Package to Identify Target-Specific Guide RNAs for CRISPR-Cas9 Genome-Editing Systems
Cited by: 156
Author(s): Lihua Julie Zhu, Benjamin Holmes, Neil Aronin, Michael Brodsky
Software Mentions: 4
Published: about 10 years ago

10.1186/s13059-018-1591-1

NmeCas9 is an intrinsically high-fidelity genome-editing platform
Cited by: 93
Author(s): Nadia Amrani, Xin D. Gao, Pengpeng Liu, Alireza Edraki, Aamir Mir, Raed Ibraheim, Ankit Gupta, Kyoyu Sasaki, Tong Wu, Paul D. Donohoue, Alexander Settle, Alexandra M. Lied, Kyle McGovern, Christopher R. Fuller, P. Simmons Cameron, Thomas G. Fazzio, Lihua Julie Zhu, Scot A. Wolfe, Erik J. Sontheimer
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13059-015-0784-0

WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system
Cited by: 248
Author(s): Nathan Wong, Wei Jun Liu, Xiaowei Wang
Software Mentions: 3
Published: about 9 years ago

10.3390/ijms22020512

Chromatin Manipulation and Editing: Challenges, New Technologies and Their Use in Plants
Cited by: 8
Author(s): Kateryna Fal, Denisa Tomkova, Gilles Vachon, Marie‐Edith Chabouté, Alexandre Berr, Cristel C. Carles
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0119372

CRISPR MultiTargeter: A Web Tool to Find Common and Unique CRISPR Single Guide RNA Targets in a Set of Similar Sequences
Cited by: 119
Author(s): Sergey V. Prykhozhij, Vinothkumar Rajan, Daniel Gaston, Jason N. Berman
Software Mentions: 2
Published: over 9 years ago

10.1186/s13059-015-0823-x

Resources for the design of CRISPR gene editing experiments
Cited by: 85
Author(s): Daniel B. Graham, David E. Root
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12915-018-0545-0

FlashFry: a fast and flexible tool for large-scale CRISPR target design
Cited by: 80
Author(s): Aaron McKenna, Jay Shendure
Software Mentions: 2
Published: over 6 years ago

10.3390/molecules26072053

Synergizing Off-Target Predictions for In Silico Insights of CENH3 Knockout in Cannabis through CRISPR/Cas
Cited by: 24
Author(s): Mohsen Hesami, Mohsen Yoosefzadeh-Najafabadi, Kristian Adamek, Davoud Torkamaneh, Andrew Maxwell Phineas Jones
Software Mentions: 1
Published: over 3 years ago