Evidence map›Paper›PMID 41028375›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2026

Method for ATAC Sequencing Data Analysis for Understanding Chromatin Biology in Legumes.

Shubhangi Singh, Rohini Garg

Abstract read
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In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2026. 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

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

2 authors.

Shubhangi SinghCenter of Excellence in Epigenetics, Department of Life Sciences, School of Natural Sciences, Shiv Nadar Institution of Eminence, Gautam Buddha Nagar, Uttar Pradesh, India.
Rohini GargCenter of Excellence in Epigenetics, Department of Life Sciences, School of Natural Sciences, Shiv Nadar Institution of Eminence, Gautam Buddha Nagar, Uttar Pradesh, India. rohini.garg@snu.edu.in.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Assay for Transposase Accessible Chromatin followed by sequencing (ATAC-seq) is one of the widely used methods to understand the chromatin accessibility and identification of various cis-regulatory elements like enhancers, promoters, insulators, etc. in the genome. Initially proposed in animal model systems, this method has now been adopted successfully for few plant species. There is a need for further improvement with respect to sample preparation and tool development that can help users extract more precise and meaningful information to understand complex regulatory networks involved in plant growth, development, and responses to external stimuli. This book chapter aims to provide a brief overview of the preparation of the ATAC-seq libraries and various tools available to process the data.

Indexed as

ChromatinChromatin Immunoprecipitation SequencingFabaceaeComputational BiologyData AnalysisGenome, PlantHigh-Throughput Nucleotide SequencingTransposasesChromatinTransposasesATAC sequencingChromatin accessibilitycis-regulatory elementsPeak callingTransposition

Identifiers

PMID41028375

What OpenQuestion holds

Textmetadata
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.