Publications

46 Results (Filters Applied)

Sanjana Lab x

Trends in Genetics. 2023 Nov 20.

Next-generation forward genetic screens: uniting high-throughput perturbations with single-cell analysis.

John A Morris, Jennifer S Sun, Neville E Sanjana

The American Journal of Human Genetics. 2023 Oct. 5.

Heterozygous deletion of the autism-associated gene CHD8 impairs synaptic function through widespread changes in gene expression and chromatin compaction.

Xi Shi, Congyi Lu, Alba Corman, Alexandra Nikish, Yang Zhou, Randy J. Platt, Ivan Iossifov, Feng Zhang, Jen Q. Pan, Neville E. Sanjana

Nature Biotechnology. 2023 July 3.

Prediction of on-target and off-target activity of CRISPR-Cas13d guide RNAs using deep learning.

Hans-Hermann Wessels, Andrew Stirn, Alejandro Méndez-Mancilla, Eric J. Kim, Sydney K. Hart, David A. Knowles & Neville E. Sanjana

Science. 2023 May 19.

Discovery of target genes and pathways at GWAS loci by pooled single-cell CRISPR screens.

John A Morris, Christina Caragine, Zharko Daniloski, Júlia Domingo, Timothy Barry, Lu Lu, Kyrie Davis, Marcello Ziosi, Dafni A Glinos, Stephanie Hao, Eleni P Mimitou, Peter Smibert, Kathryn Roeder, Eugene Katsevich, Tuuli Lappalainen, Neville E Sanjana

Science. 2023 May 4.

Discovery of target genes and pathways at GWAS loci by pooled single-cell CRISPR screens.

John A. Morris, Christina Caragine, Zharko Daniloski, Júlia Domingo, Timothy Barry, Lu Lu, Kyrie Davis, Marcello Ziosi, Dafni A. Glinos, Stephanie Hao, Eleni P. Mimitou, Peter Smiber, Kathryn Roeder, Eugene Katsevich, Tuuli Lappalainen, Neville E. Sanjana

Nature Methods 2022 Dec. 22.

Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq.

Hans-Hermann Wessels, Alejandro Méndez-Mancilla, Yuhan Hao, Efthymia Papalexi, William M. Mauck III, Lu Lu, John A. Morris, Eleni P. Mimitou, Peter Smibert, Neville E. Sanjana & Rahul Satija

ACS Synthetic Biology. 2022 Nov. 15.

Expanding the Scope of Bacterial CRISPR Activation with PAM-Flexible dCas9 Variants.

Cholpisit Kiattisewee, Ava V Karanjia, Mateusz Legut, Zharko Daniloski, Samantha E Koplik, Joely Nelson, Benjamin P Kleinstiver, Neville E Sanjana, James M Carothers, Jesse G Zalatan

Methods in Molecular Biology. 2022 Sept. 11.

Ligand Identification for Orphan MHC-Agnostic T-Cell Receptors by Whole Genome CRISPR–Cas9 Screening.

Michael D. Crowther, Mateusz Legut & Andrew K. Sewell

Nature Communications. 2022 Aug. 5.

Recurrent somatic mutations as predictors of immunotherapy response.

Zoran Z. Gajic, Aditya Deshpande, Mateusz Legut, Marcin Imieliński & Neville E. Sanjana

Cell Reports. 2022 Aug. 02.

Cancer genes disfavoring T cell immunity identified via integrated systems approach.

Kishton RJ, Patel SJ, Decker AE, Vodnala SK, Cam M, Yamamoto TN, Patel Y, Sukumar M, Yu Z, Ji M, Henning AN, Gurusamy D, Palmer DC, Stefanescu RA, Girvin AT, Lo W, Pasetto A, Malekzadeh P, Deniger DC, Wood KC, Sanjana NE, Restifo NP

Nature. 2022 March 16.

A genome-scale screen for synthetic drivers of T cell proliferation.

Mateusz Legut, Zoran Gajic, Maria Guarino, Zharko Daniloski, Jahan A. Rahman, Xinhe Xue, Congyi Lu, Lu Lu, Eleni P. Mimitou, Stephanie Hao, Teresa Davoli, Catherine Diefenbach, Peter Smibert & Neville E. Sanjana

Cell Reports. 2022 March 15.

The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by repressing pro-differentiation genes.

Görkem Garipler, Congyi Lu, Alexis Morrissey, Lorena S. Lopez-Zepeda, Yingzhen Pei, Simon E. Vidal, Ana Paula Zen, Petisco Fiore, Begüm Aydin, Matthias Stadtfeld, Uwe Ohler, Shaun Mahony, Neville E. Sanjana, Esteban O. Mazzoni

Nature Reviews Cancer. 2022 Feb. 22.

CRISPR in cancer biology and therapy.

Alyna Katti, Bianca J Diaz, Christina M Caragine, Neville E Sanjana, Lukas E Dow

iScience. 2021 Oct. 29.

Automated design of CRISPR prime editors for thousands of human pathogenic variants.

John A Morris, Jahan A Rahman, Xinyi Guo, Neville E Sanjana

Cell Genomics. 2021 Sept. 3.

Transcriptome-wide Cas13 guide RNA design for model organisms and viral RNA pathogens.

Xinyi Guo, Hans-Hermann Wessels, Alejandro Méndez-Mancilla, Daniel Haro, Neville E. Sanjana

Genome Biology. 2021 Aug. 23.

Integrative approach identifies SLC6A20 and CXCR6 as putative causal genes for the COVID-19 GWAS signal in the 3p21.31 locus.

, Zharko Daniloski, , Benjamin R. tenOever, Neville E. Sanjana, Tuuli Lappalainen

Nature Reviews Molecular Cell Biology. 2021 Aug. 11.

Voices of the new generation: open science is good for science (and for you).

Sanjana NE.

Cell Chemical Biology. 2021 Aug 2.

Chemically modified guide RNAs enhance CRISPR-Cas13 knockdown in human cells.

Alejandro Méndez-Mancilla, Hans-Hermann Wessels, Mateusz Legut, Anastasia Kadina, Megumi Mabuchi, John Walker, G. Brett Robb, Kevin Holden, Neville E Sanjana

PRE-PRINT PUBLICATIONS

bioRxiv. 2023 Oct. 20.

LKB1 suppresses growth and promotes the internalization of EGFR through the PIKFYVE lipid kinase.

John Ferrarone, Jerin Thomas, Arun Unni, Yuxiang Zheng, Michal Nagiec, Eric Gardner, Oksana Mashadova, Kate Li, Nikos Koundouros, Antonino Montalbano, Meer Mustafa, Lewis Cantley, John Blenis, Neville Sanjana, Harold Varmus

bioRxiv. 2023 Sept. 12.

Cas13d-mediated isoform-specific RNA knockdown with a unified computational and experimental toolbox.

Megan D Schertzer, Andrew Stirn, Keren Isaev, Laura Pereira, Anjali Das, Claire Harbison, Stella H Park, Hans-Hermann Wessels, Neville E Sanjana, David A Knowles

bioRxiv. 2023 June 14.

RAVER1 interconnects lethal EMT and miR/RISC activity by the control of alternative splicing.

Alice Wedler, Nadine Bley, Markus Glass, Simon Müller, Laura Schian, Kingsley Benjamin Obika, Marcell Lederer, Claudia Misiak, Tommy Fuchs, Marcel Koehn, Roland Jacob, Tony Gutschner, Christian Ihling, Andrea Sinz, Stefan Huettelmaier

bioRxiv. 2022 Aug. 29.

Genome-wide CRISPR/Cas9 Screens Reveal Shared and Bespoke Mechanisms of Resistance to SHP2 inhibition.

Wei Wei, Mitchell J. Geer, Xinyi Guo, Igor Dolgalev, Neville E. Sanjana, Benjamin G. Neel

bioRxiv. 2022 Feb. 2.

Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq.

Hans-Hermann Wessels, Alejandro Mendez-Mancilla, Efthymia Papalexi, William M Mauck, Lu Lu, John A Morris, Eleni P Mimitou, Peter Smibert, Neville E Sanjana, Rahul Satija

bioRxiv. 2021 Apr. 8

Discovery of target genes and pathways of blood trait loci using pooled CRISPR screens and single cell RNA sequencing.

John A Morris, Zharko Daniloski, Júlia Domingo, Timothy Barry, Marcello Ziosi, Dafni A Glinos, Stephanie Hao, Eleni Mimitou, Peter Smibert, Kathryn Roeder, Eugene Katsevich, Tuuli Lappalainen, Neville E Sanjana

bioRxiv. 2021 Jan. 14.

An Effector Index to Predict Causal Genes at GWAS Loci

Vincenzo Forgetta, Lai Jiang, Nicholas A Vulpescu, Megan S Hogan, Siyuan Chen, John A Morris, Stepan Grinek, Christian Benner, Dong-Keun Jang, Quy Hoang, Noel Burtt, Jason A Flannick, Mark I Mccarthy, Eric Fauman, Celia MT Greenwood, Matthew T Maurano, J Brent Richards

bioRxiv. 2020 Nov. 23.

The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by pausing POL II at pro-differentiation genes.

Görkem Garipler, Congyi Lu, Alexis Morrissey, Lorena S. Lopez-Zepeda, Simon E. Vidal, Begüm Aydin, Matthias Stadtfeld, Uwe Ohler, Shaun Mahony, Neville E. Sanjana, Esteban O. Mazzoni

bioRxiv. 2020 August 19.

CRISPR-Decryptr reveals cis-regulatory elements from noncoding perturbation screens.

Anders West Rasmussen, Tarmo Äijö, Mariano Ignacio Gabitto, Nick Carriero, Neville Sanjana, Jane Skok, Richard Bonneau

bioRxiv. 2019 Nov. 18.

Genome-wide profiling of druggable active tumor defense mechanisms to enhance cancer immunotherapy

, , Suman K Vodnala, Amy K Decker, Yogin Patel, Madhusudhanan Sukumar, , Zhiya Yu, Michelle Ji, Amanda N Henning, Devikala Gurusamy, Douglas C Palmer, Winifred Lo, , Parisa Malekzadeh, Drew C Deniger, Kris C Wood, Neville E. Sanjana, Nicholas P Restifo

Faculty Labs

NYGC Labs

Publications

Next-generation forward genetic screens: uniting high-throughput perturbations with single-cell analysis.

Heterozygous deletion of the autism-associated gene CHD8 impairs synaptic function through widespread changes in gene expression and chromatin compaction.

Prediction of on-target and off-target activity of CRISPR-Cas13d guide RNAs using deep learning.

Discovery of target genes and pathways at GWAS loci by pooled single-cell CRISPR screens.

Discovery of target genes and pathways at GWAS loci by pooled single-cell CRISPR screens.

Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq.

Expanding the Scope of Bacterial CRISPR Activation with PAM-Flexible dCas9 Variants.

Ligand Identification for Orphan MHC-Agnostic T-Cell Receptors by Whole Genome CRISPR–Cas9 Screening.

Recurrent somatic mutations as predictors of immunotherapy response.

Cancer genes disfavoring T cell immunity identified via integrated systems approach.

A genome-scale screen for synthetic drivers of T cell proliferation.

The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by repressing pro-differentiation genes.

CRISPR in cancer biology and therapy.

Automated design of CRISPR prime editors for thousands of human pathogenic variants.

Transcriptome-wide Cas13 guide RNA design for model organisms and viral RNA pathogens.

Integrative approach identifies SLC6A20 and CXCR6 as putative causal genes for the COVID-19 GWAS signal in the 3p21.31 locus.

Voices of the new generation: open science is good for science (and for you).

Chemically modified guide RNAs enhance CRISPR-Cas13 knockdown in human cells.