Evidence map›Paper›PMID 37961235›Full record

ArticlebioRxiv : the preprint server for biology2024

Quality Control for Single Cell Analysis of High-plex Tissue Profiles using CyLinter.

Gregory J Baker, Edward Novikov, Ziyuan Zhao, Tuulia Vallius, Janae A Davis, Jia-Ren Lin, Jeremy L Muhlich, Elizabeth A Mittendorf, Sandro Santagata, Jennifer L Guerriero and 1 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 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

11 authors.

Gregory J BakerLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0002-5196-3961
Edward NovikovLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0003-1476-5111
Ziyuan ZhaoSystems, Synthetic, and Quantitative Biology Program, Harvard University, Cambridge, MA.ORCID 0009-0003-2019-1406
Tuulia ValliusLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0002-3006-4887
Janae A DavisBreast Tumor Immunology Laboratory, Dana-Farber Cancer Institute, Boston, MA.ORCID 0000-0002-0247-0845
Jia-Ren LinLaboratory of Systems Pharmacology, Program in Therapeutic Science, Harvard Medical School, Boston, MA.ORCID 0000-0003-4702-7705
Jeremy L MuhlichLaboratory of Systems Pharmacology, Program in Therapeutic Science, Harvard Medical School, Boston, MA.ORCID 0000-0002-0811-637X
Elizabeth A MittendorfBreast Tumor Immunology Laboratory, Dana-Farber Cancer Institute, Boston, MA.ORCID 0000-0002-9762-8536
Sandro SantagataLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0002-7528-9668
Jennifer L GuerrieroLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0002-2104-5457
Peter K SorgerLudwig Center for Cancer Research at Harvard, Harvard Medical School, Boston, MA.ORCID 0000-0002-3364-1838

Funding

Omic and Multidimensional Spatial Atlas of Metastatic Breast CancerU2CCA233280 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI GOECKS, JEREMY · 2018 to 2023
$9.7M
Pre-cancer atlases of cutaneous and hematologic origin (PATCH Center)U2CCA233262 · NCI · HARVARD MEDICAL SCHOOL · PI SANTAGATA, SANDRO, SORGER, PETER KARL · 2018 to 2023
$8.7M
Immunometabolic pathways enabled by PARP inhibition in breast cancerR37CA269499 · NCI · BRIGHAM AND WOMEN'S HOSPITAL · PI Jennifer L. Guerriero · 2022 to 2026
$2.3M
Advancing technologies for the collection and analysis of high dimensional immunoprofiles and tumor imagesR50CA274277 · NCI · HARVARD MEDICAL SCHOOL · PI Jia-Ren Lin · 2022 to 2026
$879k
NCI NIH HHS R37 CA269499NCI NIH HHS R50 CA274277NCI NIH HHS U2C CA233262NCI NIH HHS U2C CA233280
6 · The paper itself

Abstract

Tumors are complex assemblies of cellular and acellular structures patterned on spatial scales from microns to centimeters. Study of these assemblies has advanced dramatically with the introduction of high-plex spatial profiling. Image-based profiling methods reveal the intensities and spatial distributions of 20-100 proteins at subcellular resolution in 10

Indexed as

cancerCyLintermultiplex image analysisquality control (QC)single-cell dataspatial omicsspatial profiling

Identifiers

PMID37961235
PMCPMC10634977

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.