Literature DB >> 36266475

Contribution of CRISPRable DNA to human complex traits.

Ranran Zhai1,2, Chenqing Zheng1, Zhijian Yang1,2, Ting Li1,2, Jiantao Chen1,2, Xia Shen3,4,5,6.   

Abstract

CRISPR-Cas is a powerful genome editing tool for various species and human cell lines, widely used in many research areas including studying the mechanisms, targets, and gene therapies of human diseases. Recent developments have even allowed high-throughput genetic screening using the CRISPR system. However, due to the practical and ethical limitations in human gene editing research, little is known about whether CRISPR-editable DNA segments could influence human complex traits or diseases. Here, we investigated the human genomic regions condensed with different CRISPR Cas enzymes' protospacer-adjacent motifs (PAMs). We found that Cas enzymes with GC-rich PAMs could interfere more with the genomic regions that harbor enriched heritability for human complex traits and diseases. The results linked GC content across the genome to the functional genomic elements in the heritability enrichment of human complex traits. We provide a genetic overview of the effects of high-throughput genome editing on human complex traits.
© 2022. The Author(s).

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Year:  2022        PMID: 36266475      PMCID: PMC9585070          DOI: 10.1038/s42003-022-03969-7

Source DB:  PubMed          Journal:  Commun Biol        ISSN: 2399-3642


  49 in total

1.  KDM6A point mutations cause Kabuki syndrome.

Authors:  Noriko Miyake; Seiji Mizuno; Nobuhiko Okamoto; Hirofumi Ohashi; Masaaki Shiina; Kazuhiro Ogata; Yoshinori Tsurusaki; Mitsuko Nakashima; Hirotomo Saitsu; Norio Niikawa; Naomichi Matsumoto
Journal:  Hum Mutat       Date:  2012-10-17       Impact factor: 4.878

2.  Genome-wide analysis reveals specificities of Cpf1 endonucleases in human cells.

Authors:  Daesik Kim; Jungeun Kim; Junho K Hur; Kyung Wook Been; Sun-Heui Yoon; Jin-Soo Kim
Journal:  Nat Biotechnol       Date:  2016-06-06       Impact factor: 54.908

3.  High-resolution interrogation of functional elements in the noncoding genome.

Authors:  Neville E Sanjana; Jason Wright; Kaijie Zheng; Ophir Shalem; Pierre Fontanillas; Julia Joung; Christine Cheng; Aviv Regev; Feng Zhang
Journal:  Science       Date:  2016-09-30       Impact factor: 47.728

Review 4.  Dissecting the genetics of complex traits using summary association statistics.

Authors:  Bogdan Pasaniuc; Alkes L Price
Journal:  Nat Rev Genet       Date:  2016-11-14       Impact factor: 53.242

5.  Engineered CRISPR-Cas9 nuclease with expanded targeting space.

Authors:  Hiroshi Nishimasu; Xi Shi; Soh Ishiguro; Linyi Gao; Seiichi Hirano; Sae Okazaki; Taichi Noda; Omar O Abudayyeh; Jonathan S Gootenberg; Hideto Mori; Seiya Oura; Benjamin Holmes; Mamoru Tanaka; Motoaki Seki; Hisato Hirano; Hiroyuki Aburatani; Ryuichiro Ishitani; Masahito Ikawa; Nozomu Yachie; Feng Zhang; Osamu Nureki
Journal:  Science       Date:  2018-08-30       Impact factor: 47.728

6.  Unconstrained genome targeting with near-PAMless engineered CRISPR-Cas9 variants.

Authors:  Russell T Walton; Kathleen A Christie; Madelynn N Whittaker; Benjamin P Kleinstiver
Journal:  Science       Date:  2020-03-26       Impact factor: 47.728

7.  Orthogonal Cas9 proteins for RNA-guided gene regulation and editing.

Authors:  Kevin M Esvelt; Prashant Mali; Jonathan L Braff; Mark Moosburner; Stephanie J Yaung; George M Church
Journal:  Nat Methods       Date:  2013-09-29       Impact factor: 28.547

8.  Nrl knockdown by AAV-delivered CRISPR/Cas9 prevents retinal degeneration in mice.

Authors:  Wenhan Yu; Suddhasil Mookherjee; Vijender Chaitankar; Suja Hiriyanna; Jung-Woong Kim; Matthew Brooks; Yasaman Ataeijannati; Xun Sun; Lijin Dong; Tiansen Li; Anand Swaroop; Zhijian Wu
Journal:  Nat Commun       Date:  2017-03-14       Impact factor: 14.919

9.  Evolved Cas9 variants with broad PAM compatibility and high DNA specificity.

Authors:  Johnny H Hu; Shannon M Miller; Maarten H Geurts; Weixin Tang; Liwei Chen; Ning Sun; Christina M Zeina; Xue Gao; Holly A Rees; Zhi Lin; David R Liu
Journal:  Nature       Date:  2018-02-28       Impact factor: 49.962

10.  Search-and-replace genome editing without double-strand breaks or donor DNA.

Authors:  Andrew V Anzalone; Peyton B Randolph; Jessie R Davis; Alexander A Sousa; Luke W Koblan; Jonathan M Levy; Peter J Chen; Christopher Wilson; Gregory A Newby; Aditya Raguram; David R Liu
Journal:  Nature       Date:  2019-10-21       Impact factor: 69.504

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  1 in total

1.  Contribution of CRISPRable DNA to human complex traits.

Authors:  Ranran Zhai; Chenqing Zheng; Zhijian Yang; Ting Li; Jiantao Chen; Xia Shen
Journal:  Commun Biol       Date:  2022-10-20
  1 in total

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