Evidence map›Paper›PMID 40871393›Full record

ArticleMicroorganisms2025

Automated Platform for the Analysis of Multi-Plate Growth and Reporter Data.

Avichay Nahami, Dor Kain, Yonatan Cohen, Yuval Kolodkin-Gal, Yohanan Assouline, Avihu H Yona, Ilana Kolodkin-Gal, Yuval Dorfan

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microorganisms, 2025. 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

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

8 authors.

Avichay NahamiFaculty of Electrical and Electronics Engineering, HIT-Holon Institute of Technology, Holon 5810201, Israel.
Dor KainScojen Institute for Synthetic Biology, Dina Recanati School of Medicine, Reichman University, Herzliya 4610101, Israel.
Yonatan CohenFaculty of Electrical and Electronics Engineering, HIT-Holon Institute of Technology, Holon 5810201, Israel.
Yuval Kolodkin-GalScojen Institute for Synthetic Biology, Dina Recanati School of Medicine, Reichman University, Herzliya 4610101, Israel.
Yohanan AssoulineFaculty of Electrical and Electronics Engineering, HIT-Holon Institute of Technology, Holon 5810201, Israel.
Avihu H YonaInstitute of Biochemistry, Food Science and Nutrition, Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot 7610001, Israel.
Ilana Kolodkin-GalScojen Institute for Synthetic Biology, Dina Recanati School of Medicine, Reichman University, Herzliya 4610101, Israel.ORCID 0000-0002-8464-5660
Yuval DorfanFaculty of Electrical and Electronics Engineering, HIT-Holon Institute of Technology, Holon 5810201, Israel.ORCID 0000-0003-3236-0572

Funding

Israel Science Foundation 1124/24
6 · The paper itself

Abstract

Researchers traditionally calculate growth rates using the natural logarithm of optical density (OD), with existing script packages facilitating this process. Automatic plate readers, capable of simultaneously measuring OD across 384 cultures, significantly enhance data collection efficiency. Furthermore, these readers also measure luminescence and fluorescence, providing valuable insights into gene expression. However, current analysis software often struggle with data generated by robotic systems measuring multiple plates, limiting the integration of growth and reporter analyses. This method paper addresses three key challenges: (a) the incompatibility of robotic multi-plate systems with existing analysis software, (b) the integration of growth and reporter analyses, and (c) the development of user-friendly interfaces for non-programmers. To address these challenges, we offer optimized script packages and a relevant case study on matrix expression in response to antibiotics. Our platform facilitates the efficient and integrated analysis of multi-plate growth and reporter data.

Indexed as

automationbacteriologydata visualizationgrowthreporters

Identifiers

PMID40871393
PMCPMC12388276

What OpenQuestion holds

Textmetadata
LicenceCC BY
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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 OpenQuestion graph.