Evidence map›Paper›PMID 28149056›Full record

ArticleBioinformation2016

Function annotation of peptides generated from the non-coding regions of D. melanogaster genome.

Varughese Deepthi, Vineetha V I Nair, Vipin Thomas, Navya Raj, Shidhi P Ramakrishnan, Juveria Khan, Monika Kaushik, Pawan K Dhar, Achuthsankar S Nair

Abstract read
In one paragraph

Article in Bioinformation, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

9 authors.

Varughese DeepthiDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum.
Vineetha V I NairIndian Institute of Information Technology and Management, Kerala,Technopark, Trivandrum, India.
Vipin ThomasDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum.
Navya RajDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum.
Shidhi P RamakrishnanDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum.
Juveria KhanSchool of Biotechnology,Jawaharlal Nehru University, New Delhi 110067.
Monika KaushikSchool of Biotechnology,Jawaharlal Nehru University, New Delhi 110067.
Pawan K DharDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum;; School of Biotechnology,Jawaharlal Nehru University, New Delhi 110067.
Achuthsankar S NairDepartment of Computational Biology and Bioinformatics, University of Kerala, Kariyavattom, Trivandrum.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

De novo emergence of genes is the most fundamental form of genetic diversity that is attracting the attention of the scientific community. Identification of short open reading frames (sORFs) from the non-coding regions of different genomes has been leading this thought recently. The coding potential of these newly identified sORFs have been investigated through experimental and computational approaches in recent studies. In the present work we have tried to make peptides from intergenic sequences of D. melanogaster genome leading to therapeutic applications. Towards this goal of making novel peptides from non-coding genome, we have found strong computational evidence of 145 peptides with conformational stability from the intergenic sequences of D. melanogaster. The structure of these completely unique peptides was predicted using ab initio method. The function annotation of these peptides was carried out using this structural information. The newly generated proteins were categorised as DNA/Protein/ion binding proteins, electron transporters and a very few as enzymes too. Experimental studies can certainly provide validations to these preliminary findings. This work provides further evidence of untapped potential of non-coding genome.

Indexed as

antimicrobial peptidesde novo peptidesjunk DNANon-codingshort ORFs

Identifiers

PMID28149056
PMCPMC5267965

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.