Evidence map›Paper›PMID 31173591›Full record

ArticlePloS one2019

Three-dimensional GPU-accelerated active contours for automated localization of cells in large images.

Mahsa Lotfollahi, Sebastian Berisha, Leila Saadatifard, Laura Montier, Jokūbas Žiburkus, David Mayerich

Abstract read
In one paragraph

Article in PloS one, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. 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

6 authors.

Mahsa LotfollahiDepartment of Electrical and Computer engineering, University of Houston, Houston, TX, United States of America.ORCID 0000-0002-8119-6505
Sebastian BerishaDepartment of Electrical and Computer engineering, University of Houston, Houston, TX, United States of America.
Leila SaadatifardDepartment of Electrical and Computer engineering, University of Houston, Houston, TX, United States of America.
Laura MontierDepartment of Biology and Biochemistry, University of Houston, TX, United States of America.
Jokūbas ŽiburkusDepartment of Biology and Biochemistry, University of Houston, TX, United States of America.
David MayerichDepartment of Electrical and Computer engineering, University of Houston, Houston, TX, United States of America.ORCID 0000-0002-3949-6133

Funding

TRAINING PROGRAM IN COMPUTATIONAL BIOLOGY AND MEDICINET15LM007093 · NLM · RICE UNIVERSITY · PI Lydia E. Kavraki · 1992 to 2026
$20.8M
Large-Scale Reconstruction of Microvascular Networks and the Surrounding CellularR00LM011390 · NLM · UNIVERSITY OF HOUSTON · PI MAYERICH, DAVID · 2014 to 2016
$730k
NLM NIH HHS R00 LM011390NLM NIH HHS T15 LM007093
6 · The paper itself

Abstract

Cell segmentation in microscopy is a challenging problem, since cells are often asymmetric and densely packed. Successful cell segmentation algorithms rely identifying seed points, and are highly sensitive to variablility in cell size. In this paper, we present an efficient and highly parallel formulation for symmetric three-dimensional contour evolution that extends previous work on fast two-dimensional snakes. We provide a formulation for optimization on 3D images, as well as a strategy for accelerating computation on consumer graphics hardware. The proposed software takes advantage of Monte-Carlo sampling schemes in order to speed up convergence and reduce thread divergence. Experimental results show that this method provides superior performance for large 2D and 3D cell localization tasks when compared to existing methods on large 3D brain images.

Indexed as

AlgorithmsBrainCell SizeImaging, Three-DimensionalMonte Carlo MethodSoftware

Identifiers

PMID31173591
PMCPMC6555506

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.