Evidence map›Paper›PMID 33904395›Full record

ArticleeLife2021

CRISPR-based functional genomics in human dendritic cells.

Marco Jost, Amy N Jacobson, Jeffrey A Hussmann, Giana Cirolia, Michael A Fischbach, Jonathan S Weissman

Open access · goldAbstract readComparative Study
In one paragraph

Article in eLife, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
1.6field-weighted citation impact, top 16% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed, 27 citations in OpenAlex.

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  15. A new era in functional genomics screens.Nature reviews. Genetics · 2022
    Review
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 3 institutions in 1 country.

Marco Jost *Department of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, United States.ORCID 0000-0002-1369-4908
Amy N Jacobson *Department of Bioengineering, Stanford University, Stanford, United States.
Jeffrey A HussmannDepartment of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, United States.
Giana CiroliaChan Zuckerberg Biohub, San Francisco, United States.
Michael A FischbachDepartment of Bioengineering, Stanford University, Stanford, United States.
Jonathan S WeissmanDepartment of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, United States.ORCID 0000-0003-2445-670X
QB3 · USChan Zuckerberg Initiative (United States) · USStanford University · US

Funding

Center for Genomic Editing and Recording: Development and Application of Next-Generation Genome and Epigenome Editing Methods to Advance the Study and Treatment of Human DiseaseRM1HG009490 · NHGRI · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI Brittany S. Adamson, Martin Joseph Ankrah Aryee · 2017 to 2026
$22.7M
UCSF Project 1U54CA224081 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Jack Roth · 2017 to 2026
$12.9M
A complete map of the top 100 molecules from the gut microbiomeDP1DK113598 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FISCHBACH, MICHAEL ANDREW · 2016 to 2020
$5.5M
The Cancer Target Discovery and Development Network at UCSFU01CA217882 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BANDYOPADHYAY, SOURAV, BIVONA, TREVER G · 2017 to 2021
$5.2M
Identification and characterization of natural products from the human microbiotaR01DK110174 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FISCHBACH, MICHAEL ANDREW · 2016 to 2019
$1.4M
Deciphering the logic of glycolipid signaling at the host-microbiome interfaceK99GM130964 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI JOST, MARCO · 2019 to 2020
$200k
Howard Hughes Medical InstituteNCI NIH HHS U01 CA217882NCI NIH HHS U54 CA224081NHGRI NIH HHS RM1 HG009490NIDDK NIH HHS DP1 DK113598NIGMS NIH HHS K99 GM130964
6 · The paper itself

Abstract

Dendritic cells (DCs) regulate processes ranging from antitumor and antiviral immunity to host-microbe communication at mucosal surfaces. It remains difficult, however, to genetically manipulate human DCs, limiting our ability to probe how DCs elicit specific immune responses. Here, we develop a CRISPR-Cas9 genome editing method for human monocyte-derived DCs (moDCs) that mediates knockouts with a median efficiency of >94% across >300 genes. Using this method, we perform genetic screens in moDCs, identifying mechanisms by which DCs tune responses to lipopolysaccharides from the human microbiome. In addition, we reveal donor-specific responses to lipopolysaccharides, underscoring the importance of assessing immune phenotypes in donor-derived cells, and identify candidate genes that control this specificity, highlighting the potential of our method to pinpoint determinants of inter-individual variation in immunity. Our work sets the stage for a systematic dissection of the immune signaling at the host-microbiome interface and for targeted engineering of DCs for neoantigen vaccination.

Indexed as

Clustered Regularly Interspaced Short Palindromic RepeatsCRISPR-Cas SystemsGene EditingGenomicsBacteroides thetaiotaomicronCells, CulturedCRISPR-Associated Protein 9CytokinesDendritic CellsGene Expression RegulationHumansImmunity, InnateLipopolysaccharidesPhenotypeSignal TransductionToll-Like Receptor 4CRISPR-Associated Protein 9CytokinesLipopolysaccharidesTLR4 protein, humanToll-Like Receptor 4bacteroides thetaiotaomicronCRISPRdendritic cellsfunctional genomicshumanimmunologyinfectious diseaseinflammationinter-individual variationmicrobiology

Identifiers

PMID33904395
PMCPMC8104964
OpenAlexW3158217884

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.