Evidence map›Paper›PMID 25343460›Full record

ArticlePloS one2014

A computer-based automated algorithm for assessing acinar cell loss after experimental pancreatitis.

John F Eisses, Amy W Davis, Akif Burak Tosun, Zachary R Dionise, Cheng Chen, John A Ozolek, Gustavo K Rohde, Sohail Z Husain

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.4field-weighted citation impact, top 33% of its field
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

4 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. Article
  3. A supervised learning framework for pancreatic islet segmentation with multi-scale color-texture features and rolling guidance filters.Cytometry. Part A : the journal of the International Society for Analytical Cytology · 2016
    Article
  4. 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

8 authors at 3 institutions in 1 country.

John F EissesPediatrics, University of Pittsburgh, Children's Hospital of Pittsburgh of UPMC, Pittsburgh, Pennsylvania, United States of America.
Amy W DavisPathology, University of Pittsburgh, Children's Hospital of Pittsburgh of UPMC, Pittsburgh, Pennsylvania, United States of America.
Akif Burak TosunBiomedical and Electrical and Computer Engineering, Center for Bioimage Informatics, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America.
Zachary R DionisePediatrics, University of Pittsburgh, Children's Hospital of Pittsburgh of UPMC, Pittsburgh, Pennsylvania, United States of America.
Cheng ChenBiomedical and Electrical and Computer Engineering, Center for Bioimage Informatics, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America.
John A OzolekPathology, University of Pittsburgh, Children's Hospital of Pittsburgh of UPMC, Pittsburgh, Pennsylvania, United States of America.
Gustavo K RohdeBiomedical and Electrical and Computer Engineering, Center for Bioimage Informatics, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America.
Sohail Z HusainPediatrics, University of Pittsburgh, Children's Hospital of Pittsburgh of UPMC, Pittsburgh, Pennsylvania, United States of America.
Carnegie Mellon University · USChildren's Hospital of Pittsburgh · USUniversity of Pittsburgh · US

Funding

TRAINING PROGRAM IN INVESTIGATIVE GASTROENTEROLOGYT32DK007017 · NIDDK · YALE UNIVERSITY · PI Fred Sanford Gorelick, Liza Konnikova · 1986 to 2026
$7.1M
Molecular Basis of Pediatric DiseaseK12HD052892 · NICHD · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI TERENCE S. DERMODY · 2007 to 2026
$6.5M
Calcineurin in pancreatitisR01DK093491 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI HUSAIN, SOHAIL Z · 2011 to 2020
$3.7M
Ryanodine Receptor in PancreatitisR01DK083327 · NIDDK · YALE UNIVERSITY · PI HUSAIN, SOHAIL Z · 2009 to 2013
$1.6M
HDACs in pancreatic recovery after injuryR01DK103002 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI HUSAIN, SOHAIL Z · 2014 to 2017
$1.6M
Institutional Research Training in Pediatric GastroenterologyT32DK071492 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI HUSAIN, SOHAIL Z · 2006 to 2015
$1.1M
NICHD NIH HHS K12 HD052892NIDDK NIH HHS DK083327NIDDK NIH HHS DK093491NIDDK NIH HHS R01 DK083327NIDDK NIH HHS R01 DK093491NIDDK NIH HHS R01 DK103002NIDDK NIH HHS T32 DK007017NIDDK NIH HHS T32 DK071492
6 · The paper itself

Abstract

The change in exocrine mass is an important parameter to follow in experimental models of pancreatic injury and regeneration. However, at present, the quantitative assessment of exocrine content by histology is tedious and operator-dependent, requiring manual assessment of acinar area on serial pancreatic sections. In this study, we utilized a novel computer-generated learning algorithm to construct an accurate and rapid method of quantifying acinar content. The algorithm works by learning differences in pixel characteristics from input examples provided by human experts. HE-stained pancreatic sections were obtained in mice recovering from a 2-day, hourly caerulein hyperstimulation model of experimental pancreatitis. For training data, a pathologist carefully outlined discrete regions of acinar and non-acinar tissue in 21 sections at various stages of pancreatic injury and recovery (termed the "ground truth"). After the expert defined the ground truth, the computer was able to develop a prediction rule that was then applied to a unique set of high-resolution images in order to validate the process. For baseline, non-injured pancreatic sections, the software demonstrated close agreement with the ground truth in identifying baseline acinar tissue area with only a difference of 1% ± 0.05% (p = 0.21). Within regions of injured tissue, the software reported a difference of 2.5% ± 0.04% in acinar area compared with the pathologist (p = 0.47). Surprisingly, on detailed morphological examination, the discrepancy was primarily because the software outlined acini and excluded inter-acinar and luminal white space with greater precision. The findings suggest that the software will be of great potential benefit to both clinicians and researchers in quantifying pancreatic acinar cell flux in the injured and recovering pancreas.

Indexed as

AlgorithmsAcinar CellsAnimalsAutomationCeruletideHumansMicePancreatitisCeruletide

Identifiers

PMID25343460
PMCPMC4208778
OpenAlexW2334828535

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.