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: pypi: CasFinder

https://packages.ecosyste.ms/registries/pypi.org/packages/CasFinder

A small example package
1 version
Latest release: almost 5 years ago
12 downloads last month

Papers Mentioning CasFinder 16

10.1002/advs.201902312

CRISPR/Cas Systems in Genome Editing: Methodologies and Tools for sgRNA Design, Off‐Target Evaluation, and Strategies to Mitigate Off‐Target Effects
Cited by: 136
Author(s): Hakim Manghwar, Bo Li, Xiao Ding, Amjad Hussain, Keith Lindsey, Xianlong Zhang, Shuangxia Jin
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pcbi.1007274

A benchmark of computational CRISPR-Cas9 guide design methods
Cited by: 23
Author(s): Jacob Bradford, Dimitri Perrin
Software Mentions: 3
Published: about 5 years ago

10.3390/ijms17091507

Biased and Unbiased Methods for the Detection of Off-Target Cleavage by CRISPR/Cas9: An Overview
Cited by: 66
Author(s): Francisco Martín, Sabina Sánchez‐Hernández, Alejandra Gutiérrez‐Guerrero, Javier Pinedo-Gomez, Karim Benabdellah
Software Mentions: 2
Published: about 8 years ago

10.1098/rstb.2018.0088

A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR-Cas systems in bacteria
Cited by: 29
Author(s): Aude Bernheim, David Bikard, Marie Touchon, Eduardo P. C. Rocha
Software Mentions: 2
Published: over 5 years ago

10.1186/s13059-018-1459-4

DeepCRISPR: optimized CRISPR guide RNA design by deep learning
Cited by: 258
Author(s): Guohui Chuai, Hanhui Ma, Jifang Yan, Ming Chen, Nanfang Hong, Dongyu Xue, Chi Zhou, Chenyu Zhu, Ke Chen, Bin Duan, Feng Gu, Sheng Qu, De-Shuang Huang, Jia Wei, Qi Liu
Software Mentions: 2
Published: about 6 years ago

10.1038/s41396-020-00860-3

CRISPR-Cas systems restrict horizontal gene transfer in Pseudomonas aeruginosa
Cited by: 46
Author(s): Rachel M. Wheatley, R. Craig MacLean
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pbio.3001061

Versatile CRISPR/Cas9-mediated mosaic analysis by gRNA-induced crossing-over for unmodified genomes
Cited by: 14
Author(s): Sarah E. Allen, Gabriel T Koreman, Ankita Sarkar, Bei Wang, Mariana F. Wolfner, Chun Han
Software Mentions: 1
Published: over 3 years ago

10.1186/s40168-021-01092-z

ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs
Cited by: 3
Author(s): Tatiana Dvorkina, Anton Bankevich, Alexeï Sorokin, Fan Yang, Boahemaa Adu-Oppong, Ryan J. Williams, Keith H. Turner, Pavel A. Pevzner
Software Mentions: 1
Published: about 3 years ago

10.1093/cid/ciz1060

International Spread of Multidrug-Resistant Campylobacter coli in Men Who Have Sex With Men in Washington State and Québec, 2015–2018
Cited by: 17
Author(s): Alexander L. Greninger, Amin Addetia, Kimberly Starr, Robert J. Cybulski, M. Kathryn Stewart, Stephen J. Salipante, Andrew Bryan, Brad T. Cookson, Christiane Gaudreau, Sadjia Békal, Ferric C. Fang
Software Mentions: 1
Published: almost 5 years ago

10.3389/fbioe.2020.00780

Generation of Gene-Knockout Mongolian Gerbils via CRISPR/Cas9 System
Cited by: 6
Author(s): Yan Wang, Peikun Zhao, Zidai Song, Xiaoyan Du, Xueyun Huo, Jing Lü, Xin Liu, Jing Lv, Changlong Li, Meng Guo, Zhenwen Chen
Software Mentions: 1
Published: about 4 years ago

10.3390/genes11010095

Comparative Genomics Analysis of Lactobacillus mucosae from Different Niches
Cited by: 13
Author(s): Yan Jia, Bo Yang, R. Paul Ross, Catherine Stanton, Hao Zhang, Jianxin Zhao
Software Mentions: 1
Published: over 4 years ago

10.1186/s12864-017-4225-1

Whole genome analysis of CRISPR Cas9 sgRNA off-target homologies via an efficient computational algorithm
Cited by: 8
Author(s): Hong Zhou, Michael Zhou, Daisy Li, Joseph Manthey, Ekaterina Lioutikova, Hong Wang, Xiao Zeng
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-017-02918-3

Inhibition of androgen receptor promotes CXC-chemokine receptor 7-mediated prostate cancer cell survival
Cited by: 18
Author(s): James J. Hoy, Georgios Kallifatidis, Diandra K. Smith, Bal L. Lokeshwar
Software Mentions: 1
Published: over 7 years ago

10.1186/s12943-017-0692-x

The lncRNA CASC15 regulates SOX4 expression in RUNX1-rearranged acute leukemia
Cited by: 100
Author(s): Thilini R. Fernando, Jorge R. Contreras, Matteo Zampini, Norma I. Rodríguez-Malavé, Michael O. Alberti, Jaime Anguiano, Tiffany Tran, Jayanth Kumar Palanichamy, Jasmine Gajeton, Nolan Ung, Cody J. Aros, Ella V. Waters, David Casero, Giuseppe Basso, Martina Pigazzi, Dinesh S. Rao
Software Mentions: 1
Published: about 7 years ago

10.3390/vetsci8070122

Impact of CRISPR-Cas9-Based Genome Engineering in Farm Animals
Cited by: 13
Author(s): Parul Singh, Syed Azmal Ali
Software Mentions: 1
Published: about 3 years ago

10.1038/s41598-019-52400-5

CRISPR interference to interrogate genes that control biofilm formation in Pseudomonas fluorescens
Cited by: 27
Author(s): Marie‐Françoise Noirot‐Gros, Sara Forrester, Grace Malato, Peter E. Larsen, Philippe Naveilhan
Software Mentions: 1
Published: almost 5 years ago