Evidence map›Paper›PMID 38076932›Full record

ArticlebioRxiv : the preprint server for biology2023

Simultaneous CRISPR screening and spatial transcriptomics reveals intracellular, intercellular, and functional transcriptional circuits.

Loϊc Binan, Serwah Danquah, Vera Valakh, Brooke Simonton, Jon Bezney, Ralda Nehme, Brian Cleary, Samouil L Farhi

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Loϊc BinanSpatial Technology Platform, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.ORCID 0000-0002-3886-5873
Serwah DanquahSpatial Technology Platform, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Vera ValakhSpatial Technology Platform, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Brooke SimontonPresent address: The Ken & Ruth Davee Department of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL, USA. (Klarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA, USA).
Jon BezneyPresent address: Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA. (Klarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA, USA).
Ralda NehmeSpatial Technology Platform, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.ORCID 0000-0001-7215-3311
Brian ClearyFaculty of Computing and Data Sciences, Boston University, Boston, MA, USA; Department of Biology, Boston University, Boston, MA, USA; Department of Biomedical Engineering, Boston University, Boston, MA, USA; Program in Bioinformatics, Boston University, Boston, MA, USA; Biological Design Center, Boston University, Boston, MA, USA.
Samouil L FarhiSpatial Technology Platform, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.ORCID 0000-0003-1359-4568

Funding

Unraveling the Genetic Programs Engaged in ASD Neurons Through Coupled Transcriptomic and Phenotypic ReadoutsR01MH128366 · NIMH · BROAD INSTITUTE, INC. · PI Samouil Farhi, Ralda Nehme · 2022 to 2026
$3.7M
Scaling up spatial RNA profiling with compressed sensingRF1MH121289 · NIMH · BROAD INSTITUTE, INC. · PI CHEN, FEI, ELDAR, YONINA · 2019 to 2019
$1.6M
NIMH NIH HHS R01 MH128366NIMH NIH HHS RF1 MH121289
6 · The paper itself

Abstract

Pooled optical screens have enabled the study of cellular interactions, morphology, or dynamics at massive scale, but have not yet leveraged the power of highly-plexed single-cell resolved transcriptomic readouts to inform molecular pathways. Here, we present Perturb-FISH, which bridges these approaches by combining imaging spatial transcriptomics with parallel optical detection of

Identifiers

PMID38076932
PMCPMC10705493

What OpenQuestion holds

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Registered trials

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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.