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List of works by Jonathan Weissman

11 Construction of single-ring and two-ring hybrid versions of bacterial chaperonin GroEL

scientific article published on 01 January 1998

2004 Irving Sigal Young Investigator Award

scientific article

A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria

scientific article

A Critical Role for Amino-Terminal Glutamine/Asparagine Repeats in the Formation and Propagation of a Yeast Prion ⬇️

scientific article published on June 26, 1998

A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response

scientific article

A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation

scientific article

A Stress Response that Monitors and Regulates mRNA Structure Is Central to Cold Shock Adaptation.

scientific article

A comprehensive strategy enabling high-resolution functional analysis of the yeast genome.

scientific article

A developmentally regulated translational control pathway establishes the meiotic chromosome segregation pattern

scientific article published on October 2013

A general lack of compensation for gene dosage in yeast

scientific article

A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing

scientific article

A high-coverage shRNA screen identifies TMEM129 as an E3 ligase involved in ER-associated protein degradation

scientific article

A luminal surveillance complex that selects misfolded glycoproteins for ER-associated degradation

scientific article

A mitochondrial-focused genetic interaction map reveals a scaffold-like complex required for inner membrane organization in mitochondria

scientific article

A molecular caliper mechanism for determining very long-chain fatty acid length

scientific article

A pause sequence enriched at translation start sites drives transcription dynamics in vivo

scientific article

A protein-tagging system for signal amplification in gene expression and fluorescence imaging

scientific article

A ribosome-bound quality control complex triggers degradation of nascent peptides and signals translation stress

scientific article

A scalable strategy for high-throughput GFP tagging of endogenous human proteins

scientific article

A strategy for extracting and analyzing large-scale quantitative epistatic interaction data

scientific article

A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility

scientific article

Activity motifs reveal principles of timing in transcriptional control of the yeast metabolic network

scientific article

Amyloid structure: conformational diversity and consequences ⬇️

scientific article

An ER-mitochondria tethering complex revealed by a synthetic biology screen

scientific article

An efficient protein transformation protocol for introducing prions into yeast

scientific article published in January 2006

Analysis of Dom34 and its function in no-go decay

scientific article

Aneuploid yeast strains exhibit defects in cell growth and passage through START

scientific article published on 6 March 2013

Assembly of a phased diploid Candida albicans genome facilitates allele-specific measurements and provides a simple model for repeat and indel structure

scientific article published on January 2013

Automated identification of pathways from quantitative genetic interaction data

scientific article

Backup without redundancy: genetic interactions reveal the cost of duplicate gene loss

scientific article published on 27 March 2007

Biotechnology. A prudent path forward for genomic engineering and germline gene modification

scientific article

CAT-tailing as a fail-safe mechanism for efficient degradation of stalled nascent polypeptides

scientific article published in July 2017

CCR4/NOT complex associates with the proteasome and regulates histone methylation

scholarly article

CRISPR Approaches to Small Molecule Target Identification

scientific article published on 20 December 2017

CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs

scientific article

CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes

scientific article

CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells

scientific article

Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation

scientific article published on 23 December 2014

Ceapins block the unfolded protein response sensor ATF6α by inducing a neomorphic inter-organelle tether

scientific article published on 31 May 2019

Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae

scientific article published on February 2012

Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing

scientific article published on 30 March 2020

Combined CRISPRi/a-Based Chemical Genetic Screens Reveal that Rigosertib Is a Microtubule-Destabilizing Agent

scientific article published on October 2017

Combined chemical-genetic approach identifies cytosolic HSP70 dependence in rhabdomyosarcoma

scientific article

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation.

scientific article

Conformational variations in an infectious protein determine prion strain differences

scientific article published in March 2004

Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.

scientific article published on 25 September 2008

Construction, verification and experimental use of two epitope-tagged collections of budding yeast strains

scientific article published on January 2005

Correction: Global cellular response to chemotherapy-induced apoptosis.

scientific article published on 7 November 2013

Correction: Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster.

scientific article published on 6 May 2014

Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex

scientific article

Cycloheximide can distort measurements of mRNA levels and translation efficiency.

scientific article published in June 2019

DMS-MaPseq for genome-wide or targeted RNA structure probing in vivo

scientific article

Decay of endoplasmic reticulum-localized mRNAs during the unfolded protein response.

scientific article published on July 2006

Decoding human cytomegalovirus

scientific article

Defining the physiological role of SRP in protein-targeting efficiency and specificity.

scientific article published on 18 January 2018

Differences in prion strain conformations result from non-native interactions in a nucleus

scientific article published on 17 January 2010

Differential scales of protein quality control

scientific article published on March 2014

Directed evolution of substrate-optimized GroEL/S chaperonins

article

Dissection and design of yeast prions

scientific article

Domain architecture of protein-disulfide isomerase facilitates its dual role as an oxidase and an isomerase in Ero1p-mediated disulfide formation.

scientific article

Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System

article

Dynamic translation regulation in Caulobacter cell cycle control

scientific article published on 17 October 2016

Eliminating Ultracentrifugation in the Deep Sequencing of Ribosome-Protected mRNA Fragments Using Polysomes and Monosomes

Emerging principles of conformation-based prion inheritance

scientific article published on January 2004

Engineering ER-stress dependent non-conventional mRNA splicing.

scientific article published on 9 July 2018

Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds

scientific article

Ero1p: A Novel and Ubiquitous Protein with an Essential Role in Oxidative Protein Folding in the Endoplasmic Reticulum ⬇️

scientific article published on January 1, 1998

Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile

scientific article

Exploration of the topological requirements of ERAD identifies Yos9p as a lectin sensor of misfolded glycoproteins in the ER lumen

scientific article

Exploring genetic interaction manifolds constructed from rich single-cell phenotypes

scientific article published on 08 August 2019

Extensive and coordinated control of allele-specific expression by both transcription and translation in Candida albicans

scientific article

Fitness effects of CRISPR/Cas9-targeting of long noncoding RNA genes

scientific article published on 24 February 2020

From information to knowledge: new technologies for defining gene function

scientific article published on October 2009

Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map

scientific article (publication date: 12 April 2007)

Functional genomics platform for pooled screening and generation of mammalian genetic interaction maps

scientific article

Functional organization of the S. cerevisiae phosphorylation network

scientific article

Functional repurposing revealed by comparing S. pombe and S. cerevisiae genetic interactions

scientific article (publication date: 8 June 2012)

Ganglion-specific splicing of TRPV1 underlies infrared sensation in vampire bats

scientific article

Generation of prion transmission barriers by mutational control of amyloid conformations

scientific article published in August 2003

Genetic influences on translation in yeast

scientific article

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation

scientific article

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

scientific article

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

scientific article published on 15 December 2013

Global analysis of protein expression in yeast

scientific article (publication date: 16 October 2003)

Global analysis of protein localization in budding yeast

scientific article

Global cellular response to chemotherapy-induced apoptosis

scientific article published on 29 October 2013

Global landscape of protein complexes in the yeast Saccharomyces cerevisiae

scientific article

GroEL-GroES-mediated protein folding requires an intact central cavity ⬇️

scientific article published on October 13, 1998

H3K4 trimethylation by Set1 promotes efficient termination by the Nrd1-Nab3-Sen1 pathway

scientific article

High-resolution view of the yeast meiotic program revealed by ribosome profiling

scientific article

High-throughput genetic interaction mapping in the fission yeast Schizosaccharomyces pombe

scientific article

High-throughput, quantitative analyses of genetic interactions in E. coli

scientific article

Htm1p-Pdi1p is a folding-sensitive mannosidase that marks N-glycoproteins for ER-associated protein degradation

scientific article published on 28 June 2016

Identification of a transporter complex responsible for the cytosolic entry of nitrogen-containing bisphosphonates.

scientific article

Identification of yeast proteins necessary for cell-surface function of a potassium channel

scientific article

Immunogenetics. Dynamic profiling of the protein life cycle in response to pathogens

scientific article published on 12 February 2015

In vivo monitoring of the prion replication cycle reveals a critical role for Sis1 in delivering substrates to Hsp104

scientific article

Integrated platform for genome-wide screening and construction of high-density genetic interaction maps in mammalian cells

scientific article

J domain co-chaperone specificity defines the role of BiP during protein translocation

scientific article

Journal club. A biochemist looks at how DNA sequencing can reveal more than just sequences

scientific article published in October 2009

KSHV 2.0: a comprehensive annotation of the Kaposi's sarcoma-associated herpesvirus genome using next-generation sequencing reveals novel genomic and functional features

scientific article published on 16 January 2014

LOCAL TRANSLATION. Response to Comment on "Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling".

scientific article

Life span extension by glucose restriction is abrogated by methionine supplementation: Cross-talk between glucose and methionine and implication of methionine as a key regulator of life span

scientific article published on 05 August 2020

Ligand-binding domains of nuclear receptors facilitate tight control of split CRISPR activity

scientific article

Lipid Homeostasis Is Maintained by Dual Targeting of the Mitochondrial PE Biosynthesis Enzyme to the ER.

scientific article published on 26 December 2017

MTCH2 is a mitochondrial outer membrane protein insertase

scientific article published on 21 October 2022

Mammalian microRNAs predominantly act to decrease target mRNA levels

scientific article (publication date: 12 August 2010)

Many things from one

scientific article published in Nature

Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq

scientific article published in 2022

Mapping the genetic landscape of DNA double-strand break repair

scientific article published in 2021

Mec1/Tel1 phosphorylation of the INO80 chromatin remodeling complex influences DNA damage checkpoint responses

scientific article

Mechanism of cross-species prion transmission: an infectious conformation compatible with two highly divergent yeast prion proteins

scientific article published in April 2005

Mechanism of prion propagation: amyloid growth occurs by monomer addition

scientific article

Membranes in balance: mechanisms of sphingolipid homeostasis

scientific article

Misfolded proteins induce aggregation of the lectin Yos9.

scientific article

Model-guided optogenetic study of PKA signaling in budding yeast

scientific article

Molecular basis of infrared detection by snakes

scientific article

Molecular chaperones and protein quality control

scientific article (publication date: 5 May 2006)

Msn2 coordinates a stoichiometric gene expression program

scientific article published on 7 November 2013

Nascent transcript sequencing visualizes transcription at nucleotide resolution

scientific article

Native elongating transcript sequencing (NET-seq).

scientific article

New factors for protein transport identified by a genome-wide CRISPRi screen in mammalian cells

scientific article published on 05 September 2019

Next-generation NAMPT inhibitors identified by sequential high-throughput phenotypic chemical and functional genomic screens

scientific article

Noise rules

scientific article published in Nature

Nucleosomes impede Cas9 access to DNA in vivo and in vitro

scientific article published on 17 March 2016

OpenCell: Endogenous tagging for the cartography of human cellular organization

scientific article published on 11 March 2022

Operon mRNAs are organized into ORF-centric structures that predict translation efficiency.

scientific article published on 31 January 2017

Origins and kinetic consequences of diversity in Sup35 yeast prion fibers

scientific article

Orm family proteins mediate sphingolipid homeostasis

scientific article

Oxidative protein folding in eukaryotes: mechanisms and consequences

scientific article

Paradoxical resistance of multiple myeloma to proteasome inhibitors by decreased levels of 19S proteasomal subunits

scientific article

Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens

scientific article

Pervasive functional translation of noncanonical human open reading frames

scientific article published on 01 March 2020

Pharmacological dimerization and activation of the exchange factor eIF2B antagonizes the integrated stress response

scientific article published on 15 April 2015

Plastid: nucleotide-resolution analysis of next-generation sequencing and genomics data

scientific article

Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling

scientific article published on 6 November 2014

Protein kinase Ypk1 phosphorylates regulatory proteins Orm1 and Orm2 to control sphingolipid homeostasis in Saccharomyces cerevisiae

scientific article

Protein synthesis. Rqc2p and 60S ribosomal subunits mediate mRNA-independent elongation of nascent chains

scientific article

Proto-genes and de novo gene birth

scientific article

Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources

scientific article

Radically different amyloid conformations dictate the seeding specificity of a chimeric Sup35 prion

scientific article

Rapid creation and quantitative monitoring of high coverage shRNA libraries

scientific article published on 17 May 2009

Regulated Ire1-dependent decay of messenger RNAs in mammalian cells

scientific article published on 03 August 2009

Regulation of mRNA translation during mitosis

scientific article

Reprogramming human T cell function and specificity with non-viral genome targeting

Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins

scientific article published on 27 June 2013

Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster

scientific article (publication date: 3 December 2013)

Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes

scientific article

Ribosome profiling reveals the what, when, where and how of protein synthesis

scientific article

Road to Ruin: Targeting Proteins for Degradation in the Endoplasmic Reticulum ⬇️

scientific article published on November 25, 2011

Selective ribosome profiling as a tool for studying the interaction of chaperones and targeting factors with nascent polypeptide chains and ribosomes

scientific article

Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo

scientific article

Single-cell analysis of long non-coding RNAs in the developing human neocortex

scientific article

Small-molecule aggregates inhibit amyloid polymerization

scientific article published on 27 January 2008

Special Issue: The Molecular and Cellular Mechanisms of Amyloidosis

scientific article published in August 2012

Strain conformation, primary structure and the propagation of the yeast prion [PSI+].

scientific article

Structural and mechanistic basis of the EMC-dependent biogenesis of distinct transmembrane clients

scientific article published on 25 November 2020

Systematic screen of Schizosaccharomyces pombe deletion collection uncovers parallel evolution of the phosphate signal transduction pathway in yeasts

scientific article

Systems biology: Reverse engineering the cell

scientific article published in August 2008

Targeting RAS-driven human cancer cells with antibodies to upregulated and essential cell-surface proteins

scientific article

Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling

scientific article

Targeting the AAA ATPase p97 as an Approach to Treat Cancer through Disruption of Protein Homeostasis

scientific article

The Contribution of Systematic Approaches to Characterizing the Proteins and Functions of the Endoplasmic Reticulum ⬇️

scientific article published on March 1, 2013

The ER membrane protein complex interacts cotranslationally to enable biogenesis of multipass membrane proteins.

scientific article published on 29 May 2018

The ER membrane protein complex is required to ensure correct topology and stable expression of flavivirus polyproteins

scientific article published on 13 September 2019

The Epistemology of Cell Biology ⬇️

scientific article published on November 15, 2010

The FAD- and O(2)-dependent reaction cycle of Ero1-mediated oxidative protein folding in the endoplasmic reticulum

scientific article published in November 2002

The GET complex mediates insertion of tail-anchored proteins into the ER membrane

scientific article

The Human Cell Atlas

scientific article

The Human Cell Atlas

The Human Cell Atlas White Paper ⬇️

journal article from 'arXiv:1810.05192 [q-bio]' published in 2018

The SND proteins constitute an alternative targeting route to the endoplasmic reticulum

scientific article

The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria

scientific article

The coding and noncoding architecture of the Caulobacter crescentus genome

scientific article

The helicase Ded1p controls use of near-cognate translation initiation codons in 5' UTRs

scientific article published in Nature

The mTOR Complex Controls HIV Latency ⬇️

scientific article

The physical basis of how prion conformations determine strain phenotypes

scientific article published on 28 June 2006

The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments

scientific article

The structural basis of yeast prion strain variants

scientific article published on 2 September 2007

The translational landscape of mTOR signalling steers cancer initiation and metastasis

scientific article published on 22 February 2012

The utility of prions

scientific article

Therapy-Induced Evolution of Human Lung Cancer Revealed by Single-Cell RNA Sequencing

scientific article published on 07 August 2020

Titrating gene expression using libraries of systematically attenuated CRISPR guide RNAs

scientific article published on 13 January 2020

Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae

scientific article (publication date: March 2007)

Translation from unconventional 5' start sites drives tumour initiation

scientific article

Uniform nomenclature for the mitochondrial contact site and cristae organizing system

scientific article published on March 2014

Unraveling the mechanism of cell death induced by chemical fibrils

scientific article

Validation of the Hsp70-Bag3 protein-protein interaction as a potential therapeutic target in cancer

scientific article

[KIL-d] Protein Element Confers Antiviral Activity via Catastrophic Viral Mutagenesis

scientific article

rRNA:mRNA pairing alters the length and the symmetry of mRNA-protected fragments in ribosome profiling experiments

scientific article published on 19 April 2013

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