Cargando…

Three-nucleotide periodicity of nucleotide diversity in a population enables the identification of open reading frames

Accurate prediction of open reading frames (ORFs) is important for studying and using genome sequences. Ribosomes move along mRNA strands with a step of three nucleotides and datasets carrying this information can be used to predict ORFs. The ribosome-protected footprints (RPFs) feature a significan...

Descripción completa

Detalles Bibliográficos
Autores principales:	Jiang, Mengyun, Ning, Weidong, Wu, Shishi, Wang, Xingwei, Zhu, Kun, Li, Aomei, Li, Yongyao, Cheng, Shifeng, Song, Bo
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2022
Materias:	Problem Solving Protocol
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9294425/ https://www.ncbi.nlm.nih.gov/pubmed/35698834 http://dx.doi.org/10.1093/bib/bbac210

Ejemplares similares

slORFfinder: a tool to detect open reading frames resulting from trans-splicing of spliced leader sequences
por: Song, Bo, et al.
Publicado: (2023)

RiboReport - benchmarking tools for ribosome profiling-based identification of open reading frames in bacteria
por: Gelhausen, Rick, et al.
Publicado: (2022)

Predicting chromosomal compartments directly from the nucleotide sequence with DNA-DDA
por: Lainscsek, Xenia, et al.
Publicado: (2023)

RNAlight: a machine learning model to identify nucleotide features determining RNA subcellular localization
por: Yuan, Guo-Hua, et al.
Publicado: (2022)

RNAdegformer: accurate prediction of mRNA degradation at nucleotide resolution with deep learning
por: He, Shujun, et al.
Publicado: (2023)

Converting single nucleotide variants between genome builds: from cautionary tale to solution
por: Ormond, Cathal, et al.
Publicado: (2021)

A new method to accurately identify single nucleotide variants using small FFPE breast samples
por: Fortunato, Angelo, et al.
Publicado: (2021)

VIPPID: a gene-specific single nucleotide variant pathogenicity prediction tool for primary immunodeficiency diseases
por: Fang, Mingyan, et al.
Publicado: (2022)

Improving artificial intelligence pipeline for liver malignancy diagnosis using ultrasound images and video frames
por: Xu, Yiming, et al.
Publicado: (2022)

Multiomics dynamic learning enables personalized diagnosis and prognosis for pancancer and cancer subtypes
por: Lu, Yuxing, et al.
Publicado: (2023)

EXPERT: transfer learning-enabled context-aware microbial community classification
por: Chong, Hui, et al.
Publicado: (2022)

ARAMIS: From systematic errors of NGS long reads to accurate assemblies
por: Sacristán-Horcajada, E, et al.
Publicado: (2021)

From contigs towards chromosomes: automatic improvement of long read assemblies (ILRA)
por: Ruiz, José Luis, et al.
Publicado: (2023)

Identification of genetic variations associated with drug resistance in non-small cell lung cancer patients undergoing systemic treatment
por: Luo, Ruihan, et al.
Publicado: (2021)

DISMIR: Deep learning-based noninvasive cancer detection by integrating DNA sequence and methylation information of individual cell-free DNA reads
por: Li, Jiaqi, et al.
Publicado: (2021)

Tree visualizations of protein sequence embedding space enable improved functional clustering of diverse protein superfamilies
por: Yeung, Wayland, et al.
Publicado: (2023)

CoverageMaster: comprehensive CNV detection and visualization from NGS short reads for genetic medicine applications
por: Rapti, Melivoia, et al.
Publicado: (2022)

Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains
por: Jiang, Shuai, et al.
Publicado: (2020)

Clair3-trio: high-performance Nanopore long-read variant calling in family trios with trio-to-trio deep neural networks
por: Su, Junhao, et al.
Publicado: (2022)

Minimal information for chemosensitivity assays (MICHA): a next-generation pipeline to enable the FAIRification of drug screening experiments
por: Tanoli, Ziaurrehman, et al.
Publicado: (2021)

BindingSite-AugmentedDTA: enabling a next-generation pipeline for interpretable prediction models in drug repurposing
por: Yousefi, Niloofar, et al.
Publicado: (2023)

Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-sequencing
por: Lee, Joongho, et al.
Publicado: (2023)

Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data
por: Zuo, Chunman, et al.
Publicado: (2020)

COIMMR: a computational framework to reveal the contribution of herbal ingredients against human cancer via immune microenvironment and metabolic reprogramming
por: Tian, Saisai, et al.
Publicado: (2023)

A new approach to decode DNA methylome and genomic variants simultaneously from double strand bisulfite sequencing
por: Liang, Jialong, et al.
Publicado: (2021)

Screening single-cell trajectories via continuity assessments for cell transition potential
por: Zheng, Zihan, et al.
Publicado: (2023)

NAMS webserver: coding potential assessment and functional annotation of plant transcripts
por: Sun, Kun, et al.
Publicado: (2020)

A statistical framework for predicting critical regions of p53-dependent enhancers
por: Niu, Xiaohui, et al.
Publicado: (2020)

Unveiling human origins of replication using deep learning: accurate prediction and comprehensive analysis
por: Yin, Zhen-Ning, et al.
Publicado: (2023)

SPCS: a spatial and pattern combined smoothing method for spatial transcriptomic expression
por: Liu, Yusong, et al.
Publicado: (2022)

e-TSN: an interactive visual exploration platform for target–disease knowledge mapping from literature
por: Feng, Ziyan, et al.
Publicado: (2022)

The repertoire of copy number alteration signatures in human cancer
por: Tao, Ziyu, et al.
Publicado: (2023)

New insights on human essential genes based on integrated analysis and the construction of the HEGIAP web-based platform
por: Chen, Hebing, et al.
Publicado: (2019)

Deep learning model reveals potential risk genes for ADHD, especially Ephrin receptor gene EPHA5
por: Liu, Lu, et al.
Publicado: (2021)

Critical assessment of pan-genomic analysis of metagenome-assembled genomes
por: Li, Tang, et al.
Publicado: (2022)

A novel bioinformatics approach to identify the consistently well-performing normalization strategy for current metabolomic studies
por: Yang, Qingxia, et al.
Publicado: (2019)

HLAB: learning the BiLSTM features from the ProtBert-encoded proteins for the class I HLA-peptide binding prediction
por: Zhang, Yaqi, et al.
Publicado: (2022)

ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies
por: Tang, Jing, et al.
Publicado: (2019)

iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities
por: Xu, Jing, et al.
Publicado: (2023)

Multiomics integration-based molecular characterizations of COVID-19
por: Li, Chuan-Xing, et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_uqngj0obbsq2v9ehmpskv8pfu2