Evidence map›Paper›PMID 39711562›Full record

ArticleResearch square2024

Integration of Imaging-based and Sequencing-based Spatial Omics Mapping on the Same Tissue Section via DBiTplus.

Archibald Enninful, Zhaojun Zhang, Dmytro Klymyshyn, Hailing Zong, Zhiliang Bai, Negin Farzad, Graham Su, Alev Baysoy, Jungmin Nam, Mingyu Yang and 6 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in Research square, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors.

Archibald EnninfulDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Zhaojun ZhangDepartment of Statistics and Data Science, The Wharton School, University of Pennsylvania, Philadelphia, PA, USA.
Dmytro KlymyshynAkoya Biosciences, Inc. 1080 O'Brien Dr Suite A, Menlo Park, CA 94025 USA.
Hailing ZongAkoya Biosciences, Inc. 1080 O'Brien Dr Suite A, Menlo Park, CA 94025 USA.
Zhiliang BaiDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.ORCID 0000-0002-3977-3057
Negin FarzadDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Graham SuDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Alev BaysoyDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Jungmin NamDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Mingyu YangDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.ORCID 0000-0003-0986-3825
Yao LuDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.
Nancy R ZhangDepartment of Statistics and Data Science, The Wharton School, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0000-0002-0880-5749
Oliver BraubachCanopy Biosciences, 4340 Duncan Avenue, St. Louis, MO, 63110, USA.
Mina L XuDepartment of Pathology, Yale School of Medicine, New Haven, CT, 06520, USA.
Zongming MaDepartment of Statistics and Data Science, Yale University, New Haven, CT, 06520, USA.ORCID 0000-0003-2401-0177
Rong FanDepartment of Biomedical Engineering, Yale University, New Haven, CT, 06520, USA.ORCID 0000-0001-7805-8059

Funding

Spatiotemporal Tumor Analytics for Guiding Sequential Targeted-Inhibitor: Immunotherapy Combinations (ST-Analytics)U54CA274509 · NCI · INSTITUTE FOR SYSTEMS BIOLOGY · PI Rong Fan · 2022 to 2026
$15.6M
Yale TMC for Cellular Senescence in Lymphoid OrgansU54AG076043 · NIA · YALE UNIVERSITY · PI FAN, RONG, HALENE, STEPHANIE · 2021 to 2025
$7.0M
Yale Murine-TMC on Immune Cell Senescence Derived InflammationU54AG079759 · NIA · YALE UNIVERSITY · PI DIXIT, VISHWA DEEP, MONTGOMERY, RUTH R · 2022 to 2025
$6.5M
High-throughput in vivo and in vitro functional and multi-omics screens of neuropsychiatric and neurodevelopmental disorder risk genesRM1MH132648 · NIMH · YALE UNIVERSITY · PI Kristen Jennifer Brennand, Rong Fan · 2023 to 2026
$5.6M
Center for Human Lymphoma Spatiotemporal Atlas (HuLymSTA)U01CA294514 · NCI · YALE UNIVERSITY · PI FAN, RONG, HALENE, STEPHANIE · 2024 to 2025
$5.1M
Highly scalable and sensitive spatial transcriptomic and epigenomic sequencing of brain tissues from human and non-human primateRF1MH128876 · NIMH · YALE UNIVERSITY · PI FAN, RONG, SESTAN, NENAD · 2021 to 2021
$2.9M
Ex vivo analysis of human brain tumor cells in a microvascular niche modelR01CA245313 · NCI · YALE UNIVERSITY · PI FAN, RONG, ZHOU, JIANGBING · 2020 to 2024
$2.6M
High-spatial-resolution ECM-inclusive multi-omics sequencing of human PFA and FFPE tissue slidesUH3CA257393 · NCI · YALE UNIVERSITY · PI FAN, RONG · 2022 to 2023
$1.2M
NCI NIH HHS R01 CA245313NCI NIH HHS U01 CA294514NCI NIH HHS U54 CA274509NCI NIH HHS UH3 CA257393NIA NIH HHS U54 AG076043NIA NIH HHS U54 AG079759NIMH NIH HHS RF1 MH128876NIMH NIH HHS RM1 MH132648
6 · The paper itself

Abstract

Spatially mapping the transcriptome and proteome in the same tissue section can significantly advance our understanding of heterogeneous cellular processes and connect cell type to function. Here, we present Deterministic Barcoding in Tissue sequencing plus (DBiTplus), an integrative multi-modality spatial omics approach that combines sequencing-based spatial transcriptomics and image-based spatial protein profiling on the same tissue section to enable both single-cell resolution cell typing and genome-scale interrogation of biological pathways. DBiTplus begins with

Identifiers

PMID39711562
PMCPMC11661374

What Socratic 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 Socratic graph.