ArticleNature protocols2019
High-throughput detection and tracking of cells and intracellular spots in mother machine experiments.
Article in Nature protocols, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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.
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.
Who cites it
29 citing papers in PubMed.
- Amplification of computational power by the multiplication of bacteria exploring microfluidic networks encoding mathematical problems.Microsystems & nanoengineering · 2026Article
- Periplasmic detoxification of urate hydroperoxide underpinsbioRxiv : the preprint server for biology · 2026Article
- Suppression of bacterial cell death underlies the antagonistic interaction between ciprofloxacin and tetracycline.Molecular systems biology · 2026Article
- Spontaneous TisB toxin expression modulatesFEMS microbes · 2026Article
- Agentic Lab: An Agentic-physical AI system for cell and organoid experimentation and manufacturing.bioRxiv : the preprint server for biology · 2025Article
- In vivo single-molecule imaging of RecB reveals efficient repair of DNA damage in Escherichia coli.Nucleic acids research · 2025Article
- Single-cell data reveal heterogeneity of investment in ribosomes across a bacterial population.Nature communications · 2025Article
- A Single-Cell Interrogation System from Scratch: Microfluidics and Deep Learning.The journal of physical chemistry. B · 2024Article
- The master regulator OxyR orchestrates bacterial oxidative stress response genes in space and time.Cell systems · 2024Article
- Toxin-mediated depletion of NAD and NADP drives persister formation in a human pathogen.The EMBO journal · 2024Article
- Single-cell level LasR-mediated quorum sensing response of Pseudomonas aeruginosa to pulses of signal molecules.Scientific reports · 2024Article
- Near-infrared co-illumination of fluorescent proteins reduces photobleaching and phototoxicity.Nature biotechnology · 2024Article
- Time-Resolved Killing of Individual Bacterial Cells by a Polycationic Antimicrobial Polymer.ACS biomaterials science & engineering · 2024Article
- Article
- Real-time monitoring of replication errors' fate reveals the origin and dynamics of spontaneous mutations.Nature communications · 2024Article
- Microfluidic approaches in microbial ecology.Lab on a chip · 2024Review
- Tools and methods for high-throughput single-cell imaging with the mother machine.bioRxiv : the preprint server for biology · 2024Article
- Chaos in a bacterial stress response.Current biology : CB · 2023Article
- Single-cell patterning and characterisation of antibiotic persistent bacteria using bio-sCAPA.Lab on a chip · 2023Article
- Phenotypic heterogeneity in the bacterial oxidative stress response is driven by cell-cell interactions.Cell reports · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The analysis of bacteria at the single-cell level is essential to characterization of processes in which cellular heterogeneity plays an important role. BACMMAN (bacteria mother machine analysis) is a software allowing fast and reliable automated image analysis of high-throughput 2D or 3D time-series images from experiments using the 'mother machine', a very popular microfluidic device allowing biological processes in bacteria to be investigated at the single-cell level. Here, we describe how to use some of the BACMMAN features, including (i) segmentation and tracking of bacteria and intracellular fluorescent spots, (ii) visualization and editing of the results, (iii) configuration of the image-processing pipeline for different datasets and (iv) BACMMAN coupling to data analysis software for visualization and analysis of data subsets with specific properties. Among software specifically dedicated to the analysis of mother machine data, only BACMMAN allows segmentation and tracking of both bacteria and intracellular spots. For a single position, single channel with 1,000 frames (2-GB dataset), image processing takes ~6 min on a regular computer. Numerous implemented algorithms, easy configuration and high modularity ensure wide applicability of the BACMMAN software.
Indexed as
Identifiers
31554957What OpenQuestion holds
Registered trials
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.