Evidence map›Paper›PMID 38817539›Full record

ArticleProceedings of machine learning research2023

Unsupervised Stain Decomposition via Inversion Regulation for Multiplex Immunohistochemistry Images.

Shahira Abousamra, Danielle Fassler, Jiachen Yao, Rajarsi Gupta, Tahsin Kurc, Luisa Escobar-Hoyos, Dimitris Samaras, Kenneth Shroyer, Joel Saltz, Chao Chen

Abstract read
In one paragraph

Article in Proceedings of machine learning research, 2023. 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

10 authors.

Shahira AbousamraStony Brook University, Department of Computer Science, USA.
Danielle FasslerStony Brook University, Department of Pathology, USA.
Jiachen YaoStony Brook University, Department of Computer Science, USA.
Rajarsi GuptaStony Brook University, Department of Biomedical Informatics, USA.
Tahsin KurcStony Brook University, Department of Biomedical Informatics, USA.
Luisa Escobar-HoyosStony Brook University, Department of Pathology, USA.
Dimitris SamarasStony Brook University, Department of Computer Science, USA.
Kenneth ShroyerStony Brook University, Department of Pathology, USA.
Joel SaltzStony Brook University, Department of Biomedical Informatics, USA.
Chao ChenStony Brook University, Department of Biomedical Informatics, USA.

Funding

TCIA Sustainment and Scalability - Platforms for Quantitative Imaging Informatics in Precision MedicineU24CA215109 · NCI · UNIV OF ARKANSAS FOR MED SCIS · PI BANERJEE, IMON, PRIOR, FRED WILLIAM · 2017 to 2021
$8.5M
The linkage between Race, Kaiso and the tumor microenvironment in breast cancer health disparitiesR01CA253368 · NCI · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI GARDNER, KEVIN L. · 2020 to 2024
$3.3M
Understanding and targeting mutant splicing factors in pancreatic cancerR01CA274355 · NCI · YALE UNIVERSITY · PI ESCOBAR HOYOS, LUISA · 2022 to 2025
$2.4M
Methods and Tools for Integrating Pathomics Data into Cancer RegistriesUH3CA225021 · NCI · STATE UNIVERSITY NEW YORK STONY BROOK · PI CLIFFORD, GARI DAVID, DURBIN, ERIC B. · 2020 to 2022
$1.9M
Methods and Tools for Integrating Pathomics Data into Cancer RegistriesUG3CA225021 · NCI · STATE UNIVERSITY NEW YORK STONY BROOK · PI DURBIN, ERIC B., FORAN, DAVID J · 2018 to 2019
$815k
NCI NIH HHS R01 CA253368NCI NIH HHS R01 CA274355NCI NIH HHS U24 CA215109NCI NIH HHS UG3 CA225021NCI NIH HHS UH3 CA225021
6 · The paper itself

Abstract

Multiplex Immunohistochemistry (mIHC) is a cost-effective and accessible method for in situ labeling of multiple protein biomarkers in a tissue sample. By assigning a different stain to each biomarker, it allows the visualization of different types of cells within the tumor vicinity for downstream analysis. However, to detect different types of stains in a given mIHC image is a challenging problem, especially when the number of stains is high. Previous deep-learning-based methods mostly assume full supervision; yet the annotation can be costly. In this paper, we propose a novel unsupervised stain decomposition method to detect different stains simultaneously. Our method does not require any supervision, except for color samples of different stains. A main technical challenge is that the problem is underdetermined and can have multiple solutions. To conquer this issue, we propose a novel inversion regulation technique, which eliminates most undesirable solutions. On a 7-plexed IHC images dataset, the proposed method achieves high quality stain decomposition results without human annotation.

Indexed as

Color deconvolutionDeep learningImmunohistochemistryMultiplexUnsupervised

Identifiers

PMID38817539
PMCPMC11138139

What OpenQuestion holds

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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.