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Recent advances in functional annotation and prediction of the epitranscriptome

https://doi.org/10.1016/j.csbj.2021.05.030

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High‐Resolution N6‐Methyladenosine (m6A) Map Using Photo‐Crosslinking‐Assisted m6A Sequencing

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Formation and Abundance of 5‐Hydroxymethylcytosine in RNA

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A molecular‐level perspective on the frequency, distribution, and consequences of messenger RNA modifications

inferredcites →https://doi.org/10.1002/wrna.1595openalex-snapshot

Naturally occurring modified ribonucleosides

inferredcites →https://doi.org/10.1016/0092-8674(84)90268-xopenalex-snapshot

Recognition of cap structure in splicing in vitro of mRNA precursors

inferredcites →https://doi.org/10.1016/j.ab.2015.08.021openalex-snapshot

iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition

inferredcites →https://doi.org/10.1016/j.ab.2016.01.014openalex-snapshot

DRME: Count-based differential RNA methylation analysis at small sample size scenario

inferredcites →https://doi.org/10.1016/j.bbagrm.2018.09.010openalex-snapshot

It's complicated… m6A-dependent regulation of gene expression in cancer

inferredcites →https://doi.org/10.1016/j.brainres.2013.12.011openalex-snapshot

The molecular link between inefficient GluA2 Q/R site-RNA editing and TDP-43 pathology in motor neurons of sporadic amyotrophic lateral sclerosis patients

inferredcites →https://doi.org/10.1016/j.ccell.2015.08.013openalex-snapshot

The Genomic Landscape and Clinical Relevance of A-to-I RNA Editing in Human Cancers

inferredcites →https://doi.org/10.1016/j.ccell.2017.02.013openalex-snapshot

m 6 A Demethylase ALKBH5 Maintains Tumorigenicity of Glioblastoma Stem-like Cells by Sustaining FOXM1 Expression and Cell Proliferation Program

inferredcites →https://doi.org/10.1016/j.cell.2012.05.003openalex-snapshot

Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons

inferredcites →https://doi.org/10.1016/j.cell.2013.10.026openalex-snapshot

RNA-Methylation-Dependent RNA Processing Controls the Speed of the Circadian Clock

inferredcites →https://doi.org/10.1016/j.cell.2013.10.047openalex-snapshot

High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis

inferredcites →https://doi.org/10.1016/j.cell.2015.05.014openalex-snapshot

N6-methyladenosine Modulates Messenger RNA Translation Efficiency

inferredcites →https://doi.org/10.1016/j.cell.2015.08.011openalex-snapshot

HNRNPA2B1 Is a Mediator of m6A-Dependent Nuclear RNA Processing Events

inferredcites →https://doi.org/10.1016/j.cell.2015.10.012openalex-snapshot

5′ UTR m6A Promotes Cap-Independent Translation

inferredcites →https://doi.org/10.1016/j.cell.2017.03.031openalex-snapshot

Transcription Impacts the Efficiency of mRNA Translation via Co-transcriptional N6-adenosine Methylation

inferredcites →https://doi.org/10.1016/j.cell.2017.05.045openalex-snapshot

Dynamic RNA Modifications in Gene Expression Regulation

inferredcites →https://doi.org/10.1016/j.cell.2017.09.003openalex-snapshot

Temporal Control of Mammalian Cortical Neurogenesis by m6A Methylation

inferredcites →https://doi.org/10.1016/j.cell.2017.11.031openalex-snapshot

R-2HG Exhibits Anti-tumor Activity by Targeting FTO/m6A/MYC/CEBPA Signaling

inferredcites →https://doi.org/10.1016/j.celrep.2017.02.059openalex-snapshot

m6A RNA Methylation Regulates the Self-Renewal and Tumorigenesis of Glioblastoma Stem Cells

inferredcites →https://doi.org/10.1016/j.chom.2016.04.002openalex-snapshot

Posttranscriptional m6A Editing of HIV-1 mRNAs Enhances Viral Gene Expression

inferredcites →https://doi.org/10.1016/j.chom.2017.11.010openalex-snapshot

Posttranscriptional m6A Editing of HIV-1 mRNAs Enhances Viral Gene Expression

inferredcites →https://doi.org/10.1016/j.chom.2019.07.005openalex-snapshot

Epitranscriptomic Addition of m5C to HIV-1 Transcripts Regulates Viral Gene Expression

inferredcites →https://doi.org/10.1016/j.csbj.2020.06.010openalex-snapshot

Bioinformatics approaches for deciphering the epitranscriptome: Recent progress and emerging topics

inferredcites →https://doi.org/10.1016/j.gpb.2018.12.007openalex-snapshot

m 6 A Regulates Neurogenesis and Neuronal Development by Modulating Histone Methyltransferase Ezh2

inferredcites →https://doi.org/10.1016/j.jaut.2019.102329openalex-snapshot

Increased adenosine-to-inosine RNA editing in rheumatoid arthritis

inferredcites →https://doi.org/10.1016/j.jgg.2020.07.003openalex-snapshot

Longitudinal epitranscriptome profiling reveals the crucial role of N6-methyladenosine methylation in porcine prenatal skeletal muscle development

inferredcites →https://doi.org/10.1016/j.molcel.2012.10.015openalex-snapshot

ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility

inferredcites →https://doi.org/10.1016/j.molcel.2016.01.012openalex-snapshot

Nuclear m6A Reader YTHDC1 Regulates mRNA Splicing

inferredcites →https://doi.org/10.1016/j.molcel.2016.03.021openalex-snapshot

The m 6 A Methyltransferase METTL3 Promotes Translation in Human Cancer Cells

inferredcites →https://doi.org/10.1016/j.molcel.2017.10.002openalex-snapshot

m6A Facilitates eIF4F-Independent mRNA Translation

inferredcites →https://doi.org/10.1016/j.molcel.2019.06.033openalex-snapshot

RNA 5-Methylcytosine Facilitates the Maternal-to-Zygotic Transition by Preventing Maternal mRNA Decay

inferredcites →https://doi.org/10.1016/j.neulet.2020.135315openalex-snapshot

Genome-wide identification of m6A-associated single-nucleotide polymorphisms in Parkinson’s disease

inferredcites →https://doi.org/10.1016/j.omtn.2020.09.031openalex-snapshot

m5UPred: A Web Server for the Prediction of RNA 5-Methyluridine Sites from Sequences

inferredcites →https://doi.org/10.1016/j.omto.2020.04.011openalex-snapshot

The m6A-Related mRNA Signature Predicts the Prognosis of Pancreatic Cancer Patients

inferredcites →https://doi.org/10.1016/j.pnpbp.2019.109736openalex-snapshot

Integrating genome-wide association study and methylation functional annotation data identified candidate genes and pathways for schizophrenia

inferredcites →https://doi.org/10.1016/j.stem.2014.09.019openalex-snapshot

m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells

inferredcites →https://doi.org/10.1016/j.ymeth.2018.10.019openalex-snapshot

RNA modifications in structure prediction – Status quo and future challenges

inferredcites →https://doi.org/10.1016/j.ymeth.2021.01.007openalex-snapshot

m6AmPred: Identifying RNA N6, 2′-O-dimethyladenosine (m6Am) sites based on sequence-derived information

inferredcites →https://doi.org/10.1016/j.ymeth.2021.03.003openalex-snapshot

A brief review of RNA modification related database resources

inferredcites →https://doi.org/10.1038/255033a0openalex-snapshot

5′-Terminal 7-methylguanosine in eukaryotic mRNA is required for translation

inferredcites →https://doi.org/10.1038/cr.2017.55openalex-snapshot

5-methylcytosine promotes mRNA export — NSUN2 as the methyltransferase and ALYREF as an m5C reader

inferredcites →https://doi.org/10.1038/nature11112openalex-snapshot

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

inferredcites →https://doi.org/10.1038/nature12730openalex-snapshot

N6-methyladenosine-dependent regulation of messenger RNA stability

inferredcites →https://doi.org/10.1038/nature12946openalex-snapshot

Landscape and variation of RNA secondary structure across the human transcriptome

inferredcites →https://doi.org/10.1038/nature13802openalex-snapshot

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

inferredcites →https://doi.org/10.1038/nature14234openalex-snapshot

N6-methyladenosine-dependent RNA structural switches regulate RNA–protein interactions

inferredcites →https://doi.org/10.1038/nature15377openalex-snapshot

Dynamic m6A mRNA methylation directs translational control of heat shock response

inferredcites →https://doi.org/10.1038/nature21355openalex-snapshot

m6A-dependent maternal mRNA clearance facilitates zebrafish maternal-to-zygotic transition

inferredcites →https://doi.org/10.1038/nature23450openalex-snapshot

m6A mRNA methylation controls T cell homeostasis by targeting the IL-7/STAT5/SOCS pathways

inferredcites →https://doi.org/10.1038/nature24678openalex-snapshot

Promoter-bound METTL3 maintains myeloid leukaemia by m6A-dependent translation control

inferredcites →https://doi.org/10.1038/nature25784openalex-snapshot

The SMAD2/3 interactome reveals that TGFβ controls m6A mRNA methylation in pluripotency

inferredcites →https://doi.org/10.1038/nbt.3682openalex-snapshot

Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation

inferredcites →https://doi.org/10.1038/nchembio.687openalex-snapshot

N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO

inferredcites →https://doi.org/10.1038/ncomms12626openalex-snapshot

YTHDF2 destabilizes m6A-containing RNA through direct recruitment of the CCR4–NOT deadenylase complex

inferredcites →https://doi.org/10.1038/ncomms3612openalex-snapshot

Inferring tumour purity and stromal and immune cell admixture from expression data

inferredcites →https://doi.org/10.1038/ng.3506openalex-snapshot

Integrative approaches for large-scale transcriptome-wide association studies

inferredcites →https://doi.org/10.1038/nmeth.3453openalex-snapshot

Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome

inferredcites →https://doi.org/10.1038/nmeth.3810openalex-snapshot

Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)

inferredcites →https://doi.org/10.1038/nprot.2012.148openalex-snapshot

Transcriptome-wide mapping of N6-methyladenosine by m6A-seq based on immunocapturing and massively parallel sequencing

inferredcites →https://doi.org/10.1038/nsmb.2357openalex-snapshot

RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis

inferredcites →https://doi.org/10.1038/s41467-019-08289-9openalex-snapshot

Single-molecule sequencing detection of N6-methyladenine in microbial reference materials

inferredcites →https://doi.org/10.1038/s41467-019-11284-9openalex-snapshot

Detailed modeling of positive selection improves detection of cancer driver genes

inferredcites →https://doi.org/10.1038/s41467-019-11713-9openalex-snapshot

Accurate detection of m6A RNA modifications in native RNA sequences

inferredcites →https://doi.org/10.1038/s41467-020-19787-6openalex-snapshot

Direct RNA sequencing reveals m6A modifications on adenovirus RNA are necessary for efficient splicing

inferredcites →https://doi.org/10.1038/s41556-018-0045-zopenalex-snapshot

Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation

inferredcites →https://doi.org/10.1038/s41556-019-0319-0openalex-snapshot

RNA modifications regulating cell fate in cancer

inferredcites →https://doi.org/10.1038/s41556-019-0361-yopenalex-snapshot

5-methylcytosine promotes pathogenesis of bladder cancer through stabilizing mRNAs

inferredcites →https://doi.org/10.1038/s41556-020-00580-yopenalex-snapshot

Publisher Correction: Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation

inferredcites →https://doi.org/10.1038/s41564-017-0056-8openalex-snapshot

Viral and cellular N6-methyladenosine and N6,2′-O-dimethyladenosine epitranscriptomes in the KSHV life cycle

inferredcites →https://doi.org/10.1038/s41580-019-0168-5openalex-snapshot

Reading, writing and erasing mRNA methylation

inferredcites →https://doi.org/10.1038/s41586-018-0538-8openalex-snapshot

mRNA circularization by METTL3–eIF3h enhances translation and promotes oncogenesis

inferredcites →https://doi.org/10.1038/s41586-018-0841-4openalex-snapshot

FTSJ3 is an RNA 2′-O-methyltransferase recruited by HIV to avoid innate immune sensing

inferredcites →https://doi.org/10.1038/s41586-019-0916-xopenalex-snapshot

Anti-tumour immunity controlled through mRNA m6A methylation and YTHDF1 in dendritic cells

inferredcites →https://doi.org/10.1038/s41586-020-03135-1openalex-snapshot

m6A RNA methylation regulates the fate of endogenous retroviruses

inferredcites →https://doi.org/10.1038/s41588-019-0385-zopenalex-snapshot

Opportunities and challenges for transcriptome-wide association studies

inferredcites →https://doi.org/10.1038/s41588-020-0644-zopenalex-snapshot

Genetic analyses support the contribution of mRNA N6-methyladenosine (m6A) modification to human disease heritability

inferredcites →https://doi.org/10.1038/s41593-017-0057-1openalex-snapshot

N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications

inferredcites →https://doi.org/10.1038/s41594-019-0218-xopenalex-snapshot

Genome-wide identification of mRNA 5-methylcytosine in mammals

inferredcites →https://doi.org/10.1038/s41598-020-63355-3openalex-snapshot

Limits in the detection of m6A changes using MeRIP/m6A-seq

inferredcites →https://doi.org/10.1038/s41598-020-72178-1openalex-snapshot

Gene signatures and prognostic values of m1A-related regulatory genes in hepatocellular carcinoma

inferredcites →https://doi.org/10.1038/s41698-019-0085-2openalex-snapshot

RNAMethyPro: a biologically conserved signature of N6-methyladenosine regulators for predicting survival at pan-cancer level

inferredcites →https://doi.org/10.1038/srep14941openalex-snapshot

Profiling RNA editing in human tissues: towards the inosinome Atlas

inferredcites →https://doi.org/10.1039/c4mb00604fopenalex-snapshot

Decomposition of RNA methylome reveals co-methylation patterns induced by latent enzymatic regulators of the epitranscriptome

inferredcites →https://doi.org/10.1042/bj20091352openalex-snapshot

Regulation of mRNA cap methylation

inferredcites →https://doi.org/10.1073/pnas.1820574116openalex-snapshot

Structural insights into FTO’s catalytic mechanism for the demethylation of multiple RNA substrates

inferredcites →https://doi.org/10.1074/jbc.m200015200openalex-snapshot

Interactions between Fission Yeast mRNA Capping Enzymes and Elongation Factor Spt5

inferredcites →https://doi.org/10.1074/jbc.tm118.004166openalex-snapshot

Adenosine deaminase acting on RNA (ADAR1), a suppressor of double-stranded RNA–triggered innate immune responses

inferredcites →https://doi.org/10.1080/15476286.2021.1882179openalex-snapshot

Deciphering nucleotide modification-induced structure and stability changes

inferredcites →https://doi.org/10.1089/dna.2020.5624openalex-snapshot

m 1 A Regulator TRMT10C Predicts Poorer Survival and Contributes to Malignant Behavior in Gynecological Cancers

inferredcites →https://doi.org/10.1093/bib/bbaa055openalex-snapshot

M6A2Target: a comprehensive database for targets of m6A writers, erasers and readers

inferredcites →https://doi.org/10.1093/bib/bbaa278openalex-snapshot

Iterative feature representation algorithm to improve the predictive performance of N7-methylguanosine sites

inferredcites →https://doi.org/10.1093/bib/bbz048openalex-snapshot

Evaluation of different computational methods on 5-methylcytosine sites identification

inferredcites →https://doi.org/10.1093/bib/bbz112openalex-snapshot

Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences

inferredcites →https://doi.org/10.1093/bioinformatics/btaa066openalex-snapshot

Statistical inference of differential RNA-editing sites from RNA-sequencing data by hierarchical modeling

inferredcites →https://doi.org/10.1093/bioinformatics/btaa155openalex-snapshot

iMRM: a platform for simultaneously identifying multiple kinds of RNA modifications

inferredcites →https://doi.org/10.1093/bioinformatics/btaa178openalex-snapshot

m7GHub: deciphering the location, regulation and pathogenesis of internal mRNA N7-methylguanosine (m7G) sites in human

inferredcites →https://doi.org/10.1093/bioinformatics/btaa938openalex-snapshot

MetaTX: deciphering the distribution of mRNA-related features in the presence of isoform ambiguity, with applications in epitranscriptome analysis

inferredcites →https://doi.org/10.1093/bioinformatics/btab362openalex-snapshot

Funm6AViewer: a web server and R package for functional analysis of context-specific m6A RNA methylation

inferredcites →https://doi.org/10.1093/bioinformatics/btt171openalex-snapshot

Exome-based analysis for RNA epigenome sequencing data

inferredcites →https://doi.org/10.1093/bioinformatics/btv366openalex-snapshot

PPUS: a web server to predict PUS-specific pseudouridine sites

inferredcites →https://doi.org/10.1093/bioinformatics/btv722openalex-snapshot

Fast and efficient QTL mapper for thousands of molecular phenotypes

inferredcites →https://doi.org/10.1093/bioinformatics/btw281openalex-snapshot

A novel algorithm for calling mRNA m 6 A peaks by modeling biological variances in MeRIP-seq data

inferredcites →https://doi.org/10.1093/bioinformatics/bty421openalex-snapshot

PEA: an integrated R toolkit for plant epitranscriptome analysis

inferredcites →https://doi.org/10.1093/bioinformatics/btz316openalex-snapshot

FunDMDeep-m6A: identification and prioritization of functional differential m6A methylation genes

inferredcites →https://doi.org/10.1093/bioinformatics/btz358openalex-snapshot

iRNAD: a computational tool for identifying D modification sites in RNA sequence

inferredcites →https://doi.org/10.1093/bioinformatics/btz900openalex-snapshot

Episo: quantitative estimation of RNA 5-methylcytosine at isoform level by high-throughput sequencing of RNA treated with bisulfite

inferredcites →https://doi.org/10.1093/gigascience/giy035openalex-snapshot

m6ASNP: a tool for annotating genetic variants by m6A function

inferredcites →https://doi.org/10.1093/nar/29.1.308openalex-snapshot

dbSNP: the NCBI database of genetic variation

inferredcites →https://doi.org/10.1093/nar/gkaa620openalex-snapshot

Decoding the epitranscriptional landscape from native RNA sequences

inferredcites →https://doi.org/10.1093/nar/gkaa654openalex-snapshot

Predictions and analyses of RNA nearest neighbor parameters for modified nucleotides

inferredcites →https://doi.org/10.1093/nar/gkaa692openalex-snapshot

m6A-Atlas: a comprehensive knowledgebase for unraveling theN6-methyladenosine (m6A) epitranscriptome

inferredcites →https://doi.org/10.1093/nar/gkaa790openalex-snapshot

RMDisease: a database of genetic variants that affect RNA modifications, with implications for epitranscriptome pathogenesis

inferredcites →https://doi.org/10.1093/nar/gkaa811openalex-snapshot

RMVar: an updated database of functional variants involved in RNA modifications

inferredcites →https://doi.org/10.1093/nar/gkq1028openalex-snapshot

The RNA modification database, RNAMDB: 2011 update

inferredcites →https://doi.org/10.1093/nar/gkq603openalex-snapshot

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

inferredcites →https://doi.org/10.1093/nar/gks961openalex-snapshot

Darned in 2013: inclusion of model organisms and linking with Wikipedia

inferredcites →https://doi.org/10.1093/nar/gkt1248openalex-snapshot

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data

inferredcites →https://doi.org/10.1093/nar/gkt996openalex-snapshot

RADAR: a rigorously annotated database of A-to-I RNA editing

inferredcites →https://doi.org/10.1093/nar/gkv895openalex-snapshot

The reverse transcription signature ofN-1-methyladenosine in RNA-Seq is sequence dependent

inferredcites →https://doi.org/10.1093/nar/gkw104openalex-snapshot

SRAMP: prediction of mammalian N 6 -methyladenosine (m 6 A) sites based on sequence-derived features

inferredcites →https://doi.org/10.1093/nar/gkw767openalex-snapshot

REDIportal: a comprehensive database of A-to-I RNA editing events in humans

inferredcites →https://doi.org/10.1093/nar/gkx1030openalex-snapshot

MODOMICS: a database of RNA modification pathways. 2017 update

inferredcites →https://doi.org/10.1093/nar/gkx1080openalex-snapshot

MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome

inferredcites →https://doi.org/10.1093/nar/gkx120openalex-snapshot

RCAS: an RNA centric annotation system for transcriptome-wide regions of interest

inferredcites →https://doi.org/10.1093/nar/gkx778openalex-snapshot

N6-methyladenosine demethylase FTO targets pre-mRNAs and regulates alternative splicing and 3′-end processing

inferredcites →https://doi.org/10.1093/nar/gkx895openalex-snapshot

m6AVar: a database of functional variants involved in m6A modification

inferredcites →https://doi.org/10.1093/nar/gkx934openalex-snapshot

RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data

inferredcites →https://doi.org/10.1093/nar/gkz074openalex-snapshot

WHISTLE: a high-accuracy map of the human N6-methyladenosine (m6A) epitranscriptome predicted using a machine learning approach

inferredcites →https://doi.org/10.1093/nar/gkz479openalex-snapshot

RNAmod: an integrated system for the annotation of mRNA modifications

inferredcites →https://doi.org/10.1101/2020.05.28.121996openalex-snapshot

2’- O -methylation alters the RNA secondary structural ensemble

inferredcites →https://doi.org/10.1101/gad.269415.115openalex-snapshot

A majority of m6A residues are in the last exons, allowing the potential for 3′ UTR regulation

inferredcites →https://doi.org/10.1101/gad.586710openalex-snapshot

RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage

inferredcites →https://doi.org/10.1101/gr.247064.118openalex-snapshot

Direct RNA nanopore sequencing of full-length coronavirus genomes provides novel insights into structural variants and enables modification analysis

inferredcites →https://doi.org/10.1109/access.2020.2991070openalex-snapshot

ISGm1A: Integration of Sequence Features and Genomic Features to Improve the Prediction of Human m1A RNA Methylation Sites

inferredcites →https://doi.org/10.1109/jbhi.2021.3068783openalex-snapshot

BDBB: A Novel Beta-Distribution-Based Biclustering Algorithm for Revealing Local Co-Methylation Patterns in Epi-Transcriptome Profiling Data

inferredcites →https://doi.org/10.1109/tcbb.2015.2403355openalex-snapshot

MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data

inferredcites →https://doi.org/10.1109/tcbb.2021.3049366openalex-snapshot

FBCwPlaid: A Functional Biclustering Analysis of Epi-Transcriptome Profiling Data Via a Weighted Plaid Model

inferredcites →https://doi.org/10.1126/sciadv.aar8263openalex-snapshot

Cross-talk among writers, readers, and erasers of m 6 A regulates cancer growth and progression

inferredcites →https://doi.org/10.1126/science.1261417openalex-snapshot

m 6 A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

inferredcites →https://doi.org/10.1126/science.aax4468openalex-snapshot

N 6 -methyladenosine RNA modification–mediated cellular metabolism rewiring inhibits viral replication

inferredcites →https://doi.org/10.1126/science.aay6018openalex-snapshot

N 6 -methyladenosine of chromosome-associated regulatory RNA regulates chromatin state and transcription

inferredcites →https://doi.org/10.1146/annurev-biochem-060208-105251openalex-snapshot

Functions and Regulation of RNA Editing by ADAR Deaminases

inferredcites →https://doi.org/10.1155/2016/8367534openalex-snapshot

Guitar: An R/Bioconductor Package for Gene Annotation Guided Transcriptomic Analysis of RNA-Related Genomic Features

inferredcites →https://doi.org/10.1155/2018/2075173openalex-snapshot

Enhancing Epitranscriptome Module Detection from m6A-Seq Data Using Threshold-Based Measurement Weighting Strategy

inferredcites →https://doi.org/10.1155/2020/2053902openalex-snapshot

Prognostic Value of an m6A RNA Methylation Regulator‐Based Signature in Patients with Hepatocellular Carcinoma

inferredcites →https://doi.org/10.1177/1176934320915707openalex-snapshot

Prediction of RNA Methylation Status From Gene Expression Data Using Classification and Regression Methods

inferredcites →https://doi.org/10.1177/1176934320925752openalex-snapshot

PSI-MOUSE: Predicting Mouse Pseudouridine Sites From Sequence and Genome-Derived Features

inferredcites →https://doi.org/10.1186/1471-2350-10-6openalex-snapshot

An Open Access Database of Genome-wide Association Results

inferredcites →https://doi.org/10.1186/gb-2008-9-9-r137openalex-snapshot

Model-based Analysis of ChIP-Seq (MACS)

inferredcites →https://doi.org/10.1186/gb-2012-13-10-175openalex-snapshot

The birth of the Epitranscriptome: deciphering the function of RNA modifications

inferredcites →https://doi.org/10.1186/gb4143openalex-snapshot

Characterizing 5-methylcytosine in the mammalian epitranscriptome

inferredcites →https://doi.org/10.1186/s12859-017-1808-4openalex-snapshot

QNB: differential RNA methylation analysis for count-based small-sample sequencing data with a quad-negative binomial model

inferredcites →https://doi.org/10.1186/s12859-018-2516-4openalex-snapshot

DeepM6ASeq: prediction and characterization of m6A-containing sequences using deep learning

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inferredcites →https://doi.org/10.3389/fgene.2019.00266openalex-snapshot

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Comprehensive Review and Assessment of Computational Methods for Prediction of N6-Methyladenosine Sites

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.