Evidence map›Paper›PMID 36747701›Full record

ArticlebioRxiv : the preprint server for biology2023

Joint tensor modeling of single cell 3D genome and epigenetic data with Muscle.

Kwangmoon Park, Sündüz Keleş

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. 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, 1 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

2 authors at 1 institution in 1 country.

Kwangmoon ParkDepartment of Statistics, University of Wisconsin, Madison, WI, USA, 53706.
Sündüz KeleşDepartment of Statistics, University of Wisconsin, Madison, WI, USA, 53706.
University of Wisconsin–Madison · US

Funding

Statistical Methods for the Analysis of ChlP-chip DataR01HG003747 · NHGRI · UNIVERSITY OF WISCONSIN-MADISON · PI KELES, SUNDUZ · 2007 to 2024
$4.8M
Functionally relevant mapping of human GWAS SNPs on model organismsR21HG011371 · NHGRI · UNIVERSITY OF WISCONSIN-MADISON · PI KELES, SUNDUZ · 2020 to 2020
$400k
NHGRI NIH HHS R01 HG003747NHGRI NIH HHS R21 HG011371
6 · The paper itself

Abstract

Emerging single cell technologies that simultaneously capture long-range interactions of genomic loci together with their DNA methylation levels are advancing our understanding of three-dimensional genome structure and its interplay with the epigenome at the single cell level. While methods to analyze data from single cell high throughput chromatin conformation capture (scHi-C) experiments are maturing, methods that can jointly analyze multiple single cell modalities with scHi-C data are lacking. Here, we introduce Muscle, a semi-nonnegative joint decomposition of

Indexed as

Block term tensor decompositionSingle cell 3D genomeSingle cell DNA methylationTensor decomposition

Identifiers

PMID36747701
PMCPMC9900892
OpenAlexW4318401350

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.