Evidence map›Paper›PMID 30995247›Full record

ArticlePloS one2019

Viable and necrotic tumor assessment from whole slide images of osteosarcoma using machine-learning and deep-learning models.

Harish Babu Arunachalam, Rashika Mishra, Ovidiu Daescu, Kevin Cederberg, Dinesh Rakheja, Anita Sengupta, David Leonard, Rami Hallac, Patrick Leavey

Open access · goldAbstract readEvaluation StudyValidation Study
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 52 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
52citing papers in PubMed, 2 pooled it
8.7field-weighted citation impact, top 2% 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

52 citing papers in PubMed, 2 syntheses or guidelines pooled it, 140 citations in OpenAlex.

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  9. Multi-Modal Foundation Models for Computational Pathology: A Survey.Transactions on machine learning research · 2025
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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

9 authors at 2 institutions in 1 country.

Harish Babu ArunachalamThe University of Texas at Dallas, Richardson, TX, United States of America.ORCID 0000-0001-8143-4107
Rashika MishraThe University of Texas at Dallas, Richardson, TX, United States of America.
Ovidiu DaescuThe University of Texas at Dallas, Richardson, TX, United States of America.ORCID 0000-0002-0278-4174
Kevin CederbergThe University of Texas Southwestern Medical Center, Dallas, TX, United States of America.
Dinesh RakhejaThe University of Texas Southwestern Medical Center, Dallas, TX, United States of America.ORCID 0000-0001-6888-7902
Anita SenguptaThe University of Texas Southwestern Medical Center, Dallas, TX, United States of America.
David LeonardChildren's Medical Center, Dallas, TX, United States of America.
Rami HallacChildren's Medical Center, Dallas, TX, United States of America.
Patrick LeaveyThe University of Texas Southwestern Medical Center, Dallas, TX, United States of America.ORCID 0000-0002-0541-2536
Children's Medical Center · USThe University of Texas at Dallas · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Pathological estimation of tumor necrosis after chemotherapy is essential for patients with osteosarcoma. This study reports the first fully automated tool to assess viable and necrotic tumor in osteosarcoma, employing advances in histopathology digitization and automated learning. We selected 40 digitized whole slide images representing the heterogeneity of osteosarcoma and chemotherapy response. With the goal of labeling the diverse regions of the digitized tissue into viable tumor, necrotic tumor, and non-tumor, we trained 13 machine-learning models and selected the top performing one (a Support Vector Machine) based on reported accuracy. We also developed a deep-learning architecture and trained it on the same data set. We computed the receiver-operator characteristic for discrimination of non-tumor from tumor followed by conditional discrimination of necrotic from viable tumor and found our models performing exceptionally well. We then used the trained models to identify regions of interest on image-tiles generated from test whole slide images. The classification output is visualized as a tumor-prediction map, displaying the extent of viable and necrotic tumor in the slide image. Thus, we lay the foundation for a complete tumor assessment pipeline from original histology images to tumor-prediction map generation. The proposed pipeline can also be adopted for other types of tumor.

Indexed as

Deep LearningSupport Vector MachineBone and BonesBone NeoplasmsDatasets as TopicHumansImage Interpretation, Computer-AssistedNecrosisOsteosarcomaReproducibility of ResultsROC CurveSoftware

Identifiers

PMID30995247
PMCPMC6469748
OpenAlexW2935748854

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.