Evidence map›Paper›PMID 38706861›Full record

ArticleiScience2024

Enhanced cell segmentation with limited training datasets using cycle generative adversarial networks.

Abolfazl Zargari, Benjamin R Topacio, Najmeh Mashhadi, S Ali Shariati

Abstract read
In one paragraph

Article in iScience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

  1. Article
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

4 authors.

Abolfazl ZargariDepartment of Electrical and Computer Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA.
Benjamin R TopacioDepartment of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA.
Najmeh MashhadiDepartment of Computer Science and Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA.
S Ali ShariatiDepartment of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA.

Funding

IRACDA at UCSC and CSUMBK12GM139185 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI FORSBERG, CAMILLA, HINCK, LINDSAY E · 2020 to 2024
$4.1M
Molecular feedback between cell division cycle and differentiation in pluripotent stem cellsR35GM147395 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI Ali Shariati · 2022 to 2026
$1.9M
Determining feedback mechanisms between cell cycle and cell fate in pluripotent cellsR00GM126027 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI SHARIATI, ALI · 2020 to 2022
$747k
Determining feedback mechanisms between cell cycle and cell fate in pluripotent cellsK99GM126027 · NIGMS · STANFORD UNIVERSITY · PI SHARIATI, ALI · 2018 to 2019
$109k
NIGMS NIH HHS K12 GM139185NIGMS NIH HHS K99 GM126027NIGMS NIH HHS R00 GM126027NIGMS NIH HHS R35 GM147395
6 · The paper itself

Abstract

Deep learning is transforming bioimage analysis, but its application in single-cell segmentation is limited by the lack of large, diverse annotated datasets. We addressed this by introducing a CycleGAN-based architecture, cGAN-Seg, that enhances the training of cell segmentation models with limited annotated datasets. During training, cGAN-Seg generates annotated synthetic phase-contrast or fluorescent images with morphological details and nuances closely mimicking real images. This increases the variability seen by the segmentation model, enhancing the authenticity of synthetic samples and thereby improving predictive accuracy and generalization. Experimental results show that cGAN-Seg significantly improves the performance of widely used segmentation models over conventional training techniques. Our approach has the potential to accelerate the development of foundation models for microscopy image analysis, indicating its significance in advancing bioimage analysis with efficient training methodologies.

Indexed as

BioinformaticsCell biologyMachine learning

Identifiers

PMID38706861
PMCPMC11068845

What OpenQuestion holds

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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 OpenQuestion graph.