Evidence map›Paper›PMID 42009650›Full record

ArticleNature communications2026

Subcellular mRNA localization patterns across tissues resolved with spatial transcriptomics.

Roy Novoselsky, Ofra Golani, Tal Barkai, Merav Kedmi, Inna Goliand, Michal Fine, Ilan Kent, Ido Nachmany, Shalev Itzkovitz

Abstract read
In one paragraph

Article in Nature communications, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Differential mRNA localization of karyopherin-β2 homologs inbioRxiv : the preprint server for biology · 2026
    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

9 authors.

Roy Novoselsky *Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.ORCID http://orcid.org/0000-0002-4464-0179
Ofra Golani *Department of Life Sciences Core Facilities, Weizmann Institute of Science, Rehovot, Israel.ORCID http://orcid.org/0000-0002-9793-236X
Tal BarkaiDepartment of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.
Merav KedmiDepartment of Life Sciences Core Facilities, Weizmann Institute of Science, Rehovot, Israel.
Inna GoliandDepartment of Life Sciences Core Facilities, Weizmann Institute of Science, Rehovot, Israel.
Michal FineDepartment of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel.
Ilan KentGray Faculty of Medical and Health Sciences, Tel Aviv University, Tel Aviv, Israel.ORCID http://orcid.org/0000-0001-7886-0092
Ido NachmanyGray Faculty of Medical and Health Sciences, Tel Aviv University, Tel Aviv, Israel.
Shalev ItzkovitzDepartment of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel. shalev.itzkovitz@weizmann.ac.il.ORCID http://orcid.org/0000-0003-0685-2522

Funding

EC | EU Framework Programme for Research and Innovation H2020 | H2020 Priority Excellent Science | H2020 European Research Council (H2020 Excellent Science - European Research Council) 768956Israel Science Foundation (ISF) 3663/21Israel Science Foundation (ISF) 908/21
6 · The paper itself

Abstract

Subcellular RNA localization, including nuclear retention and apical-basal compartmentalization in polarized epithelia plays a central role in post-transcriptional regulation. However, methods for high-throughput mapping of mRNA localization within intact tissue sections remain limited. Here, we apply high-resolution spatial transcriptomics to systematically resolve intracellular mRNA localization across diverse mammalian tissues. We introduce a computational approach that leverages image-derived features to extract subcellular information from spatial data and quantifies transcript localization patterns. Using this framework, we map apical-basal mRNA localization and nuclear retention in gastrointestinal epithelia and in liver hepatocytes. Our analyses reveal conserved and tissue-specific localization signatures. This approach broadens the scope of spatial transcriptomics by enabling routine investigation of intracellular RNA distributions in both healthy and diseased tissues.

Indexed as

RNA, MessengerTranscriptomeAnimalsCell NucleusHepatocytesHumansLiverMiceOrgan SpecificitySpatial TranscriptomicsRNA, Messenger

Identifiers

PMID42009650
PMCPMC13284241

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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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 Socratic graph.