Evidence map›Paper›PMID 38895220›Full record

ArticlebioRxiv : the preprint server for biology2024

BIT: Bayesian Identification of Transcriptional Regulators from Epigenomics-Based Query Region Sets.

Zeyu Lu, Lin Xu, Xinlei Wang

Abstract readPreprint
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

3 authors.

Zeyu LuDepartment of Statistics and Data Science, Moody School of Graduate and Advanced Studies, Southern Methodist University, Dallas, TX, USA.ORCID 0000-0002-4272-8388
Lin XuQuantitative Biomedical Research Center, Peter O'Donnell Jr. School of Public Health, University of Texas Southwestern Medical Center, Dallas, TX, USA.
Xinlei WangDepartment of Mathematics, University of Texas at Arlington, Arlington, TX 76019, USA.ORCID 0000-0002-8561-6511

Funding

UT Southwestern Medical Center Simmons Comprehensive Cancer CenterP30CA142543 · NCI · UT SOUTHWESTERN MEDICAL CENTER · PI Kathryn Ann O'Donnell · 2010 to 2026
$53.7M
Multiscale functional characterization of genomic variation in human developmental disordersUM1HG011996 · NHGRI · UT SOUTHWESTERN MEDICAL CENTER · PI Gary Chung Hon, WILLIAM Lee KRAUS · 2021 to 2026
$10.5M
Unraveling ApoE4 Promotion of Cardiometabolic DiseaseR01HL144969 · NHLBI · UT SOUTHWESTERN MEDICAL CENTER · PI SHAUL, PHILIP W · 2020 to 2023
$2.6M
Applying deep learning to predict T cell receptor binding specificity of neoantigens and response to checkpoint inhibitorsR01CA258584 · NCI · UT SOUTHWESTERN MEDICAL CENTER · PI WANG, TAO, WANG, XINLEI · 2021 to 2025
$1.4M
Identifying neuroblastoma drivers and bringing them to the clinicR21CA259771 · NCI · UT SOUTHWESTERN MEDICAL CENTER · PI SKAPEK, STEPHEN X, XU, LIN · 2021 to 2021
$437k
NCI NIH HHS P30 CA142543NCI NIH HHS R01 CA258584NCI NIH HHS R21 CA259771NHGRI NIH HHS UM1 HG011996NHLBI NIH HHS R01 HL144969
6 · The paper itself

Abstract

Transcriptional regulators (TRs) are master controllers of gene expression and play a critical role in both normal tissue development and disease progression. However, existing computational methods for identification of TRs regulating specific biological processes have significant limitations, such as relying on distance on a linear chromosome or binding motifs that have low specificity. Many also use statistical tests in ways that lack interpretability and rigorous confidence measures. We introduce BIT, a novel Bayesian hierarchical model for

Indexed as

ATAC-seqBayesian hierarchical modelchromatin accessibility profilingepigenomicsJaccard indexPólya-Gamma data augmentation

Identifiers

PMID38895220
PMCPMC11185535

What Socratic 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 Socratic graph.