Evidence map›Paper›PMID 37094819›Full record

ArticleG3 (Bethesda, Md.)2023

smalldisco, a pipeline for siRNA discovery and 3' tail identification.

Ian V Caldas, Leanne H Kelley, Yasir H Ahmed-Braimah, Eleanor M Maine

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in G3 (Bethesda, Md.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Regulatory Landscapes of Non-Coding RNAs During Drought Stress in Plants.International journal of molecular sciences · 2025
    Review
  2. Article
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

4 authors.

Ian V CaldasDepartment of Molecular Biology and Genetics, Cornell University, 526 Campus Rd, Ithaca, NY 14850, USA.
Leanne H KelleyDepartment of Biology, Syracuse University, 107 College Place, Syracuse, NY 13210, USA.
Yasir H Ahmed-BraimahDepartment of Biology, Syracuse University, 107 College Place, Syracuse, NY 13210, USA.
Eleanor M MaineDepartment of Biology, Syracuse University, 107 College Place, Syracuse, NY 13210, USA.

Funding

The Genomic Basis and Molecular Mechanisms of SpeciationR35GM147454 · NIGMS · SYRACUSE UNIVERSITY · PI Yasir Ahmed-Braimah · 2022 to 2026
$2.0M
Identification of uridylated RNA important for germline maintenance in C. elegansR03HD091645 · NICHD · SYRACUSE UNIVERSITY · PI MAINE, ELEANOR M · 2018 to 2019
$150k
NICHD NIH HHS R03 HD091645NIGMS NIH HHS R35 GM147454
6 · The paper itself

Abstract

Capturing and sequencing small RNAs is standard practice; however, identification of a group of these small RNAs-small interfering RNAs (siRNAs)-has been more difficult. We present smalldisco, a command-line tool for small interfering RNA discovery and annotation from small RNA-seq datasets. smalldisco can distinguish short reads that map antisense to an annotated genomic feature (e.g. exons or mRNAs), annotate these siRNAs, and quantify their abundance. smalldisco also uses the program Tailor to quantify 3' nontemplated nucleotides of siRNAs or any small RNA species. smalldisco and supporting documentation are available for download from GitHub (https://github.com/ianvcaldas/smalldisco) and archived in Zenodo (https://doi.org/10.5281/zenodo.7799621).

Indexed as

GenomeGenomicsRNA-SeqRNA, Small InterferingSequence Analysis, RNASoftwareRNA, Small Interferingnontemplated nucleotide additionsiRNA identificationsmall RNAsmall RNA 3′ tailing modification

Identifiers

PMID37094819
PMCPMC10234390

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.