Evidence map›Paper›PMID 37808734›Full record

ArticlebioRxiv : the preprint server for biology2024

BAllC and BAllCools: Efficient Formatting and Operating for Single-Cell DNA Methylation Data.

Wei Tian, Wubin Ding, Jiawei Shen, Daofeng Li, Ting Wang, Joseph R Ecker

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

6 authors.

Wei TianGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.ORCID 0000-0002-2146-1717
Wubin DingGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Jiawei ShenDepartment of Genetics, The Edison Family Center for Genome Sciences & Systems Biology, Washington University School of Medicine, St. Louis, MO 63110, USA.
Daofeng LiDepartment of Genetics, The Edison Family Center for Genome Sciences & Systems Biology, Washington University School of Medicine, St. Louis, MO 63110, USA.
Ting WangDepartment of Genetics, The Edison Family Center for Genome Sciences & Systems Biology, Washington University School of Medicine, St. Louis, MO 63110, USA.
Joseph R EckerGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Funding

Center for Multiomic Human Brain Cell AtlasUM1MH130994 · NIMH · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI MARIA MARGARITA BEHRENS, Joseph R Ecker · 2022 to 2026
$92.4M
Molecular SignaturesU19MH114831 · NIMH · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI ECKER, JOSEPH R · 2017 to 2021
$24.6M
Epigenomic cell-type classification and regulatory element identification in the human brainU01MH121282 · NIMH · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI BEHRENS, M MARGARITA, ECKER, JOSEPH R · 2019 to 2021
$5.4M
REGULATION OF CORTICAL PHENOTYPE BY BASAL FOREBRAINF30MH011483 · NIMH · UNIVERSITY OF CALIFORNIA IRVINE · PI HA, DUN H · 1997 to 1999
–
NIMH NIH HHS F30 MH011483NIMH NIH HHS U01 MH121282NIMH NIH HHS U19 MH114831NIMH NIH HHS UM1 MH130994
6 · The paper itself

Abstract

Motivation: With single-cell DNA methylation studies yielding vast datasets, existing data formats struggle with the unique challenges of storage and efficient operations, highlighting a need for improved solutions. Results: BAllC (Binary All Cytosines) emerges as a tailored binary format for methylation data, addressing these challenges. BAllCools, its complementary software toolkit, enhances parsing, indexing, and querying capabilities, promising superior operational speeds and reduced storage needs.

Identifiers

PMID37808734
PMCPMC10557610

What OpenQuestion holds

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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.