Evidence map›Paper›PMID 35674862›Full record

ArticleMolecular neurobiology2022

Long Non-coding RNA and mRNA Co-expression Network Reveals Novel Players in Pleomorphic Xanthoastrocytoma.

Iman Dandapath, Rahul Gupta, Jyotsna Singh, Nidhi Shukla, Prerana Jha, Vikas Sharma, Ashish Suri, M C Sharma, Vaishali Suri, Chitra Sarkar and 1 more

Abstract read
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In one paragraph

Article in Molecular neurobiology, 2022. 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
0.1field-weighted citation impact, top 62% of its field
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 citations in OpenAlex.

  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

11 authors at 2 institutions in 1 country.

Iman Dandapath *Neuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India.
Rahul Gupta *Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, New Delhi, 110016, India.
Jyotsna SinghNeuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India.
Nidhi ShuklaNeuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India.
Prerana JhaNeuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India.
Vikas SharmaAll India Institute of Medical Sciences, CCRF, New Delhi, 110029, India.
Ashish SuriDepartment of Neurosurgery, All India Institute of Medical Sciences, New Delhi, 110029, India.
M C SharmaNeuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India.
Vaishali SuriNeuropathology Laboratory, All India Institute of Medical Sciences, Neurosciences Centre, New Delhi, 110029, India. surivaishali@yahoo.co.in.
Chitra SarkarDepartment of Pathology, All India Institute of Medical Sciences, New Delhi, 110029, India. sarkar.chitra@gmail.com.
Ritu KulshreshthaDepartment of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, New Delhi, 110016, India. ritu@dbeb.iitd.ac.in.ORCID http://orcid.org/0000-0003-0488-5048
All India Institute of Medical Sciences · INIndian Institute of Technology Delhi · IN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Histological interpretation of the rare pleomorphic xanthoastrocytoma (PXA) has been the holy grail for treatment options. However, no stand-alone clinical interventions have been developed owing to the lack of gene expression profiling data in PXA/APXA patients. We first time report the comprehensive analyses of the coding as well as long non-coding RNA (lncRNA) signatures of PXA/APXA patients. Several genes such as IGFBP2, NF1, FOS, ERBB2, and lncRNAs such as NEAT1, HOTAIRM1, and GAS5 known to play crucial roles in glioma patients were also deregulated in PXA patients suggesting the commonality in the molecular signatures. PPI network, co-expression, and lncRNA-mRNA interaction studies unraveled hub genes (such as ERBB2, FOS, RPA1) and networks that may play a critical role in PXA biology. The most enriched pathways based on gene profiles were related to TLR, chemokine, MAPK, Rb, and PI3K-Akt signaling pathways. The lncRNA targets were enriched in glucuronidation, adipogenesis, TGF-beta signaling, EGF/EGFR signaling, and cell cycle pathways. Interestingly, several mRNAs like PARVG, and ABI2 were found to be targeted by multiple lncRNAs suggesting a tight control of their levels. Some of the most prominent lncRNA-mRNA pairs were LOC728730: MRPL9, XLOC_l2_011987: ASIC2, lnc-C1QTNF5-1: RNF26. Notably, several lncRNAs such as lnc-CETP-1, lnc-XRCC3-1, lnc-RPL31-1, lnc-USP13-1, and MAPKAPK5-AS1, and genes such as RPA1, NTRK3, and CNRP1 showed strong correlation to the progression-free survival of PXA patients suggesting their potential as novel biomarkers. Overall, the findings of this study may facilitate the development of a new realm of RNA biology in PXA that may have clinical significance in the future.

Indexed as

AstrocytomaRNA, Long NoncodingGene Expression ProfilingGene Regulatory NetworksHumansNeoplasm ProteinsPhosphatidylinositol 3-KinasesRNA, MessengerUbiquitin-Specific ProteasesNeoplasm ProteinsPhosphatidylinositol 3-KinasesRNA, Long NoncodingRNA, MessengerRNF26 protein, humanUbiquitin-Specific ProteasesUSP13 protein, humanCo-expressionlncRNAMicroarraymRNAPathway analysisPleomorphic xanthoastrocytoma (PXA)Protein–protein interaction (PPI)

Identifiers

PMID35674862
OpenAlexW4282934432

What OpenQuestion holds

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Registered trials

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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.