Evidence map›Paper›PMID 40894720›Full record

ArticlebioRxiv : the preprint server for biology2025

m6ASeqTools: An R toolkit for post-processing m6A sites detected by m6Anet.

Hanna Lee, Denalda Gashi, Syeda Maheen Batool, Ana K Escobedo, Bob S Carter, Leonora Balaj

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. 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

6 authors.

Hanna LeeDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0009-0008-8935-904X
Denalda GashiDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0009-0004-3751-6075
Syeda Maheen BatoolDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.
Ana K EscobedoDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.
Bob S CarterDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-3586-1324
Leonora BalajDepartment of Neurosurgery, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0003-0931-9715

Funding

Imaging and Liquid Biopsy for Glioma Diagnosis and Treatment MonitoringR01CA239078 · NCI · MASSACHUSETTS GENERAL HOSPITAL · PI BALAJ, LEONORA, LEE, HAKHO · 2020 to 2024
$3.1M
Standardized Molecular Analyses of Glioma EVsR01CA237500 · NCI · MASSACHUSETTS GENERAL HOSPITAL · PI CARTER, BOB S, LEE, HAKHO · 2020 to 2024
$3.0M
Molecular subtyping of brain tumors using a blood-based multiplexed assayR01CA291826 · NCI · MASSACHUSETTS GENERAL HOSPITAL · PI Leonora Balaj, Bob S Carter · 2025 to 2026
$1.3M
NCI NIH HHS R01 CA237500NCI NIH HHS R01 CA239078NCI NIH HHS R01 CA291826
6 · The paper itself

Abstract

m6ASeqTools is an R package designed to streamline the post-processing and interpretation of site-level m6A predictions from m6Anet. It provides descriptive summaries of m6A distribution across transcripts, genes, biotypes, and transcript regions, and enables condition comparisons through a calculated weighted modification ratio. By integrating differential gene expression data, the package links methylation changes with expression differences, providing biotype-specific and region-specific insights into how m6A localization patterns relate to transcriptional regulation.

Identifiers

PMID40894720
PMCPMC12393396

What Socratic holds

Textmetadata
LicenceCC BY-NC
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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 Socratic graph.