Evidence map›Paper›PMID 39829713›Full record

ArticleBioinformatics advances2025

Integrative co-registration of elemental imaging and histopathology for enhanced spatial multimodal analysis of tissue sections through TRACE.

Yunrui Lu, Serin Han, Aruesha Srivastava, Neha Shaik, Matthew Chan, Alos Diallo, Naina Kumar, Nishita Paruchuri, Hrishikesh Deosthali, Vismay Ravikumar and 10 more

Abstract read
In one paragraph

Article in Bioinformatics advances, 2025. 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

5 · Who and what money

Authors and funding

20 authors.

Yunrui LuDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.ORCID https://orcid.org/0000-0003-1089-9323
Serin HanDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.
Aruesha SrivastavaCalifornia Institute of Technology, Pasadena, CA 91125, United States.
Neha ShaikCupertino High School, Cupertino, CA 95014, United States.
Matthew ChanDartmouth College, Geisel School of Medicine, Hanover, NH 03766, United States.
Alos DialloDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.ORCID https://orcid.org/0000-0002-6471-4630
Naina KumarLangley High School, McLean, VA 22101, United States.
Nishita ParuchuriThomas Jefferson High School for Science and Technology, Alexandria, VA 22312, United States.
Hrishikesh DeosthaliLiberal Arts and Science Academy, Austin, TX 78721, United States.
Vismay RavikumarAndover High School, Andover, MA 01810, United States.
Kevin CornellDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.
Elijah StommelDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.
Tracy PunshonDartmouth College, Geisel School of Medicine, Hanover, NH 03766, United States.
Brian JacksonDartmouth College, Geisel School of Medicine, Hanover, NH 03766, United States.
Fred KollingDartmouth College, Geisel School of Medicine, Hanover, NH 03766, United States.
Linda VahdatDartmouth Cancer Center, Lebanon, NH 03766, United States.
Louis VaickusDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.
Jonathan MarottiDepartment of Pathology and Laboratory Medicine, Dartmouth Health, Lebanon, NH 03766, United States.
Sunita HoSchool of Dentistry, University of California San Francisco, San Francisco, CA 94143, United States.
Joshua LevyDepartment of Pathology and Laboratory Medicine, , Cedars Sinai Medical Center, Los Angeles, CA 90048, United States.ORCID https://orcid.org/0000-0001-8050-1291

Funding

Translational Engineering in Cancer (TEC)P30CA023108 · NCI · DARTMOUTH COLLEGE · PI Fred W Kolling IV · 1985 to 2026
$91.3M
Zhao - Proj 2P20GM130454 · NIGMS · DARTMOUTH COLLEGE · PI Li Song · 2019 to 2026
$27.2M
Relation Between In-utero Vitamin D and Immune Function in Early Childhood P20GM104416 · NIGMS · DARTMOUTH COLLEGE · PI KARAGAS, MARGARET RITA · 2013 to 2022
$23.7M
Laying the Groundwork for Web-based Elemental Imaging Software: The MicroAnalysis ToolkitR24GM141194 · NIGMS · DARTMOUTH COLLEGE · PI Brian P Jackson · 2021 to 2026
$3.1M
Laser Ablation-ICPTOF for fast multi-element imaging of biomedical samplesS10OD032352 · OD · DARTMOUTH COLLEGE · PI JACKSON, BRIAN P · 2022 to 2022
$663k
NCI NIH HHS P30 CA023108NIGMS NIH HHS P20 GM104416NIGMS NIH HHS P20 GM130454NIGMS NIH HHS R24 GM141194NIH HHS S10 OD032352
6 · The paper itself

Abstract

Summary: Elemental imaging provides detailed profiling of metal bioaccumulation, offering more precision than bulk analysis by targeting specific tissue areas. However, accurately identifying comparable tissue regions from elemental maps is challenging, requiring the integration of hematoxylin and eosin (H&E) slides for effective comparison. Facilitating the streamlined co-registration of whole slide images (WSI) and elemental maps, TRACE enhances the analysis of tissue regions and elemental abundance in various pathological conditions. Through an interactive containerized web application, TRACE features real-time annotation editing, advanced statistical tools, and data export, supporting comprehensive spatial analysis. Notably, it allows for comparison of elemental abundances across annotated tissue structures and enables integration with other spatial data types through WSI co-registration. Availability and implementation: Available on the following platforms-GitHub:

Identifiers

PMID39829713
PMCPMC11742137

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Registered trials

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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.