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Straight talk with...Michel Sidibé

Last month, Michel Sidibé assumed his new role as executive director of UNAIDS, the United Nations agency created more than a decade ago to foster global leadership in the response to the AIDS pandemic. Sidibé discussed his new goals as executive director of UNAIDS with Prashant Nair.

Prashant Nair
News01 Feb 2009
Nature Medicine

Volume: 15, P: 130-131
Diminishing benefits of urban living for children and adolescents’ growth and development

The advantage of living in cities compared with rural areas with respect to height and BMI in children and adolescents has generally become smaller globally from 1990 to 2020, except in sub-Saharan Africa.

Anu Mishra
Bin Zhou
Majid Ezzati
ResearchOpen Access29 Mar 2023
Nature

Volume: 615, P: 874-883
An engineered U7 small nuclear RNA scaffold greatly increases ADAR-mediated programmable RNA base editing

The human ADAR enzyme can deaminate additional transcripts for therapeutic A-to-G RNA base editing using an antisense guide RNA. Here, authors engineer a universal guide RNA scaffold from the U7 snRNA, boosting editing efficiency from minimal doses, especially in organs with limited AAV delivery.

Susan M. Byrne
Stephen M. Burleigh
Adrian W. Briggs
ResearchOpen Access26 May 2025
Nature Communications

Volume: 16, P: 1-14
Author Correction: A multilineage screen identifies actionable synthetic lethal interactions in human cancers

Samson H. Fong
Brent M. Kuenzi
Trey Ideker
Amendments and Corrections20 Jan 2025
Nature Genetics

Volume: 57, P: 480
Correction: Corrigendum: Engineering and optimising deaminase fusions for genome editing

Luhan Yang
Adrian W. Briggs
George Church
Amendments and CorrectionsOpen Access09 Oct 2017
Nature Communications

Volume: 8, P: 1
Robust genome and cell engineering via in vitro and in situ circularized RNAs

Two simple and efficient methods for RNA circularization and a complementary Cas9 deimmunization method enhance a broad range of applications in genome and cell engineering.

Michael Tong
Nathan Palmer
Prashant Mali
Research26 Aug 2024
Nature Biomedical Engineering

Volume: 9, P: 109-126
Author Correction: Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy

Ana M. Moreno
Nathan Palmer
Prashant Mali
Amendments and Corrections27 Aug 2019
Nature Biomedical Engineering

Volume: 3, P: 842
Charting and probing the activity of ADARs in human development and cell-fate specification

Adenosine deaminases acting on RNA (ADARs) impact diverse cellular processes. Here the authors chart time-course RNA editing profiles in human organs from fetal to adult stages to shed light on the role of ADARs in cell-fate specification.

Amir Dailamy
Weiqi Lyu
Prashant Mali
ResearchOpen Access13 Nov 2024
Nature Communications

Volume: 15, P: 1-16
A multilineage screen identifies actionable synthetic lethal interactions in human cancers

A framework combining combinatorial CRISPR knockout in breast, lung and oropharyngeal cancer in vitro models with public data identifies synthetic lethal interactions, such as perturbed KDM5C sensitizing cells to PARP7 inhibition.

Samson H. Fong
Brent M. Kuenzi
Trey Ideker
Research18 Nov 2024
Nature Genetics

Volume: 57, P: 154-164
Orthogonal Cas9 proteins for RNA-guided gene regulation and editing

A set of Cas9 endonucleases orthogonal to the Streptococcus pyogenes enzyme is identified. This will enable simultaneous addressing of multiple RNA-guided activities to different genomic target sites with the CRISPR-Cas9 system.

Kevin M Esvelt
Prashant Mali
George M Church
Research29 Sept 2013
Nature Methods

Volume: 10, P: 1116-1121
Efficient in vitro and in vivo RNA editing via recruitment of endogenous ADARs using circular guide RNAs

Circular guide RNAs boost the efficiency of RNA editing with endogenous ADARs.

Dhruva Katrekar
James Yen
Prashant Mali
Research10 Feb 2022
Nature Biotechnology

Volume: 40, P: 938-945
Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy

Orthologous therapeutic proteins can elude the adaptive immune system and allow for effective repeated dosing, as shown for CRISPR gene editing with orthologues of adeno-associated viral capsids and of the Cas9 protein.

Ana M. Moreno
Nathan Palmer
Prashant Mali
Research22 Jul 2019
Nature Biomedical Engineering

Volume: 3, P: 806-816
Barcoding cells using cell-surface programmable DNA-binding domains

Surface expression of zinc-finger proteins coupled with double-stranded DNA probes permits programmable labeling and capture of subsets of cells in heterogenous populations.

Prashant Mali
John Aach
George M Church
Research17 Mar 2013
Nature Methods

Volume: 10, P: 403-406
Insulin-regulated serine and lipid metabolism drive peripheral neuropathy

Serine deficiency can increase small fibre neuropathy in wild-type mice and serine replacement in diabetic mice alleviates diabetic neuropathy, directly linking amino acid metabolism to peripheral nerve disorders.

Michal K. Handzlik
Jivani M. Gengatharan
Christian M. Metallo
ResearchOpen Access25 Jan 2023
Nature

Volume: 614, P: 118-124
Multilocus sequence analysis reveals high genetic diversity in clinical isolates of Burkholderia cepacia complex from India

Vikas Gautam
Prashant P. Patil
Prabhu B. Patil
ResearchOpen Access21 Oct 2016
Scientific Reports

Volume: 6, P: 1-10
A multifunctional AAV–CRISPR–Cas9 and its host response

Packaging split Cas9 into AAVs increases cargo capacity and allows for efficient genome editing and gene activation in vivo. AAV–split-Cas9 activates the host immune system but does not trigger the extensive cellular damage observed with delivery of Cas9 via DNA electroporation.

Wei Leong Chew
Mohammadsharif Tabebordbar
George M Church
Research05 Sept 2016
Nature Methods

Volume: 13, P: 868-874
Engineering and optimising deaminase fusions for genome editing

Precision genome engineering using homology donors and the endogenous DNA break repair machinery and recently CRISPR-Cas9 targeted APOBECs have been demonstrated. Here the authors design zinc-finger and TALE chimeric deaminases and investigate editing efficiency and off-target effects.

Luhan Yang
Adrian W. Briggs
George Church
ResearchOpen Access02 Nov 2016
Nature Communications

Volume: 7, P: 1-12
Rapidly evolving homing CRISPR barcodes

Homing guide RNAs that target Cas9 to their own loci generate diverse barcodes that can trace the lineage of cells.

Reza Kalhor
Prashant Mali
George M Church
Research05 Dec 2016
Nature Methods

Volume: 14, P: 195-200
Mutation corrections in spinal muscular atrophy

Base editors can restore the expression of survival motor neuron protein to therapeutically beneficial levels in animal and cell models of spinal muscular atrophy.

Andrew Portell
Prashant Mali
News & Views21 Dec 2023
Nature Biomedical Engineering

Volume: 8, P: 111-113
Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach

Assessing the activity of >1,000 single guide RNAs (sgRNAs) on >1,000 genetic loci with two Cas9 orthologs provides insight into sgRNA design and epigenetic parameters for optimal activity.

Raj Chari
Prashant Mali
George M Church
Research13 Jul 2015
Nature Methods

Volume: 12, P: 823-826
CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering

A screen in human cells defines the targeting specificities of sgRNA:Cas9 and TAL-based transcriptional activators.

Prashant Mali
John Aach
George M Church
Research01 Aug 2013
Nature Biotechnology

Volume: 31, P: 833-838
In vivo RNA editing of point mutations via RNA-guided adenosine deaminases

RNA-guided adenosine deaminases edit point mutations in in vivo mouse models for Duchenne muscular dystrophy and ornithine transcarbamylase deficiency.

Dhruva Katrekar
Genghao Chen
Prashant Mali
Research08 Feb 2019
Nature Methods

Volume: 16, P: 239-242
Combinatorial CRISPR–Cas9 screens for de novo mapping of genetic interactions

A library of plasmids expressing two gRNAs allows for the mapping of combinatorial genetic interactions with the CRISPR system. Results in cancer cells suggest that cellular context is an important factor for the interaction network.

John Paul Shen
Dongxin Zhao
Prashant Mali
Research20 Mar 2017
Nature Methods

Volume: 14, P: 573-576
Genetic interaction mapping in mammalian cells using CRISPR interference

CRISPR interference screens with pairs of sgRNAs allow for quantitative characterization of genetic interactions.

Dan Du
Assen Roguev
Nevan J Krogan
Research08 May 2017
Nature Methods

Volume: 14, P: 577-580
Isolation, characterization and toxicological potential of Alternaria-mycotoxins (TeA, AOH and AME) in different Alternaria species from various regions of India

Mukesh Meena
Prashant Swapnil
R. S. Upadhyay
ResearchOpen Access18 Aug 2017
Scientific Reports

Volume: 7, P: 1-19
Cas9 as a versatile tool for engineering biology

This Perspective describes current and prospective advances in genome engineering made possible with the CRISPR-Cas9 system.

Prashant Mali
Kevin M Esvelt
George M Church
Reviews27 Sept 2013
Nature Methods

Volume: 10, P: 957-963
Multimodal perturbation analyses of cyclin-dependent kinases reveal a network of synthetic lethalities associated with cell-cycle regulation and transcriptional regulation

Kyle Ford
Brenton P. Munson
Trey Ideker
ResearchOpen Access11 May 2023
Scientific Reports

Volume: 13, P: 1-20
Lineage barcoding in mice with homing CRISPR

This protocol details a developmental barcoding system, using MARC1 mice and homing CRISPR, to generate hundreds of mutant alleles that can reveal information about each cell’s lineage.

Kathleen Leeper
Kian Kalhor
Reza Kalhor
Protocols10 Mar 2021
Nature Protocols

Volume: 16, P: 2088-2108
Sawmill waste derived carbon dots as a fluorescent probe for synthetic dyes in soft drinks

Datta B. Gunjal
Laxman S. Walekar
Govind B. Kolekar
ResearchOpen Access09 Sept 2021
Scientific Reports

Volume: 11, P: 1-9
Oligonucleotide conjugated multi-functional adeno-associated viruses

Dhruva Katrekar
Ana M. Moreno
Prashant Mali
ResearchOpen Access26 Feb 2018
Scientific Reports

Volume: 8, P: 1-8
Efficient human iPS cell derivation by a non-integrating plasmid from blood cells with unique epigenetic and gene expression signatures

Bin-Kuan Chou
Prashant Mali
Linzhao Cheng
ResearchOpen Access18 Jan 2011
Cell Research

Volume: 21, P: 518-529
Promoting human embryonic stem cell renewal or differentiation by modulating Wnt signal and culture conditions

Liuhong Cai
Zhaohui Ye
Linzhao Cheng
Research09 Jan 2007
Cell Research

Volume: 17, P: 62-72

Search

Straight talk with...Michel Sidibé

Diminishing benefits of urban living for children and adolescents’ growth and development

An engineered U7 small nuclear RNA scaffold greatly increases ADAR-mediated programmable RNA base editing

Author Correction: A multilineage screen identifies actionable synthetic lethal interactions in human cancers

Correction: Corrigendum: Engineering and optimising deaminase fusions for genome editing

Robust genome and cell engineering via in vitro and in situ circularized RNAs

Author Correction: Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy

Charting and probing the activity of ADARs in human development and cell-fate specification

A multilineage screen identifies actionable synthetic lethal interactions in human cancers

Orthogonal Cas9 proteins for RNA-guided gene regulation and editing

Efficient in vitro and in vivo RNA editing via recruitment of endogenous ADARs using circular guide RNAs

Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy

Barcoding cells using cell-surface programmable DNA-binding domains

Insulin-regulated serine and lipid metabolism drive peripheral neuropathy

Multilocus sequence analysis reveals high genetic diversity in clinical isolates of Burkholderia cepacia complex from India

A multifunctional AAV–CRISPR–Cas9 and its host response

Engineering and optimising deaminase fusions for genome editing

Rapidly evolving homing CRISPR barcodes

Mutation corrections in spinal muscular atrophy

Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach

CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering

In vivo RNA editing of point mutations via RNA-guided adenosine deaminases

Combinatorial CRISPR–Cas9 screens for de novo mapping of genetic interactions

Genetic interaction mapping in mammalian cells using CRISPR interference

Isolation, characterization and toxicological potential of Alternaria-mycotoxins (TeA, AOH and AME) in different Alternaria species from various regions of India

Cas9 as a versatile tool for engineering biology

Multimodal perturbation analyses of cyclin-dependent kinases reveal a network of synthetic lethalities associated with cell-cycle regulation and transcriptional regulation

Lineage barcoding in mice with homing CRISPR

Sawmill waste derived carbon dots as a fluorescent probe for synthetic dyes in soft drinks

Oligonucleotide conjugated multi-functional adeno-associated viruses

Efficient human iPS cell derivation by a non-integrating plasmid from blood cells with unique epigenetic and gene expression signatures

Promoting human embryonic stem cell renewal or differentiation by modulating Wnt signal and culture conditions

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