Evidence map›Paper›PMID 38781216›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2024

CRISPRi screens identify the lncRNA,

Haley Halasz, Eric Malekos, Sergio Covarrubias, Samira Yitiz, Christy Montano, Lisa Sudek, Sol Katzman, S John Liu, Max A Horlbeck, Leila Namvar and 2 more

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
–field-weighted citation impact
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

14 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Ebola virus exploits host lncRNAbioRxiv : the preprint server for biology · 2026
    Article
  5. Clinical translation of epigenome editing technologies.Current opinion in biomedical engineering · 2026
    Article
  6. The long noncoding RNAFrontiers in immunology · 2026
    Article
  7. Review
  8. CRISPRi Screen Identifies a Novel Growth Suppressor lncRNA,bioRxiv : the preprint server for biology · 2025
    Article
  9. Review
  10. Article
  11. Review
  12. Article
  13. Review
  14. Article
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

12 authors.

Haley Halasz *Department of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.
Eric Malekos *Department of Biomolecular Engineering, University of California Santa Cruz, CA 95064.
Sergio Covarrubias *Department of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.
Samira YitizDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.
Christy MontanoDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.
Lisa SudekDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.
Sol KatzmanDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.ORCID 0000-0002-1787-1246
S John LiuDepartment of Radiation Oncology, University of California, San Francisco, CA 94158.
Max A HorlbeckDepartment of Radiation Oncology, University of California, San Francisco, CA 94158.ORCID 0000-0002-3875-871X
Leila NamvarDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.ORCID 0009-0007-9307-2052
Jonathan S WeissmanWhitehead Institute for Biomedical Research, Massachusetts Institute of Technology, Cambridge, MA 02142.
Susan CarpenterDepartment of Molecular, Cell and Developmental Biology, University of California Santa Cruz, CA 95064.ORCID 0000-0002-5600-5404

Funding

Training Program in Molecular, Cell, and Developmental BiologyT32GM133391 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI Needhi Bhalla · 2019 to 2026
$3.0M
High throughput functional characterization of lncRNAs in macrophage biologyR35GM137801 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI CARPENTER, SUSAN · 2020 to 2024
$2.2M
Identification and characterization of small open reading frames translated during inflammationF31AI179201 · NIAID · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI MALEKOS, ERIC · 2023 to 2025
$134k
HHS | NIH | National Institute of Allergy and Infectious Diseases (NIAID) F31AI179201HHS | NIH | National Institute of General Medical Sciences (NIGMS) R35GM137801NIAID NIH HHS F31 AI179201NIGMS NIH HHS R35 GM137801NIGMS NIH HHS T32 GM133391
6 · The paper itself

Abstract

Long noncoding RNAs (lncRNAs) account for the largest portion of RNA from the transcriptome, yet most of their functions remain unknown. Here, we performed two independent high-throughput CRISPRi screens to understand the role of lncRNAs in monocyte function and differentiation. The first was a reporter-based screen to identify lncRNAs that regulate TLR4-NFkB signaling in human monocytes and the second screen identified lncRNAs involved in monocyte to macrophage differentiation. We successfully identified numerous noncoding and protein-coding genes that can positively or negatively regulate inflammation and differentiation. To understand the functional roles of lncRNAs in both processes, we chose to further study the lncRNA

Indexed as

Cell DifferentiationInflammationMacrophagesMonocytesRNA, Long NoncodingSignal TransductionCRISPR-Cas SystemsGene Expression RegulationHumansNF-kappa BProto-Oncogene ProteinsProto-Oncogene Protein Spi-1Toll-Like Receptor 4Trans-ActivatorsNF-kappa BProto-Oncogene ProteinsProto-Oncogene Protein Spi-1RNA, Long NoncodingTLR4 protein, humanToll-Like Receptor 4Trans-ActivatorsCRISPRiinflammationlong noncoding RNAmacrophageshort encoded peptide

Identifiers

PMID38781216
PMCPMC11145268

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.