LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations

Micropeptide PACMP inhibition elicits synthetic lethal effects by decreasing CtIP and poly(ADP-ribosyl)ation

(2022) Chuanchao Zhang et al.   MOLECULAR CELL

HIV-1 Tat and cocaine impact astrocytic energy reservoirs and epigenetic regulation by influencing the LINC01133-hsa-miR-4726-5p-NDUFA9 axis

(2022) Mayur Doke et al.   Molecular Therapy-Nucleic Acids

lncLocator 2.0: a cell-line-specific subcellular localization predictor for long non-coding RNAs with interpretable deep learning

(2021) Yang Lin et al.   BIOINFORMATICS

Identification of Potential Signatures and Their Functions for Acute Lymphoblastic Leukemia: A Study Based on the Cancer Genome Atlas

(2021) Weimin Wang et al.   Frontiers in Genetics

SmProt: A Reliable Repository with Comprehensive Annotation of Small Proteins Identified from Ribosome Profiling

(2021) Yanyan Li et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022

(2021) et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: 2022 update

(2021) Brian T Lee et al.   NUCLEIC ACIDS RESEARCH

LncRNAWiki 2.0: a knowledgebase of human long non-coding RNAs with enhanced curation model and database system

(2021) Lin Liu et al.   NUCLEIC ACIDS RESEARCH

Distinct Processing of lncRNAs Contributes to Non-conserved Functions in Stem Cells

(2020) Chun-Jie Guo et al.   CELL

Multi-omics annotation of human long non-coding RNAs

(2020) Qianpeng Li et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

LncExpDB: an expression database of human long non-coding RNAs

(2020) Zhao Li et al.   NUCLEIC ACIDS RESEARCH

Long non-coding RNA expression profiles in neutrophils revealed potential biomarker for prediction of renal involvement in SLE patients

(2020) Bin Cai et al.   RHEUMATOLOGY

The Human Phenotype Ontology in 2021

(2020) Sebastian Köhler et al.   NUCLEIC ACIDS RESEARCH

Characterization and identification of long non-coding RNAs based on feature relationship

(2019) Guangyu Wang et al.   BIOINFORMATICS

SATB2-AS1 suppresses colorectal carcinoma aggressiveness by inhibiting SATB2-dependent Snail transcription and epithelial-mesenchymal transition

(2019) Yi-Qing Wang et al.   CANCER RESEARCH

LncRNA SATB2-AS1 inhibits tumor metastasis and affects the tumor immune cell microenvironment in colorectal cancer by regulating SATB2

(2019) Mu Xu et al.   Molecular Cancer

An expanded landscape of human long noncoding RNA

(2019) Shuai Jiang et al.   NUCLEIC ACIDS RESEARCH

The Long Non-Coding RNA Landscape of Atherosclerotic Plaques

(2019) Weronika Kraczkowska et al.   Molecular Diagnosis & Therapy

A network-based algorithm for the identification of moonlighting noncoding RNAs and its application in sepsis

(2019) Xueyan Liu et al.   BRIEFINGS IN BIOINFORMATICS

The Cancer Genome Atlas: Creating Lasting Value beyond Its Data

(2018) Carolyn Hutter et al.   CELL

LncBook: a curated knowledgebase of human long non-coding RNAs

(2018) Lina Ma et al.   NUCLEIC ACIDS RESEARCH

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019

(2018) Annalisa Buniello et al.   NUCLEIC ACIDS RESEARCH

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

High-confidence coding and noncoding transcriptome maps

(2017) Bo-Hyun You et al.   GENOME RESEARCH

A Peptide Encoded by a Putative lncRNA HOXB-AS3 Suppresses Colon Cancer Growth

(2017) Jin-Zhou Huang et al.   MOLECULAR CELL

An atlas of human long non-coding RNAs with accurate 5′ ends

(2017) Chung-Chau Hon et al.   NATURE

The Encyclopedia of DNA elements (ENCODE): data portal update

(2017) Carrie A Davis et al.   NUCLEIC ACIDS RESEARCH

CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features

(2017) Yu-Jian Kang et al.   NUCLEIC ACIDS RESEARCH

ClinVar: improving access to variant interpretations and supporting evidence

(2017) Melissa J Landrum et al.   NUCLEIC ACIDS RESEARCH

The (in)famous GWAS P-value threshold revisited and updated for low-frequency variants

(2016) João Fadista et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

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(2015) Anne-Sophie Jannot et al.   JOURNAL OF CLINICAL EPIDEMIOLOGY

PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme

(2014) Aimin Li et al.   BMC BIOINFORMATICS

Global Analyses of the Effect of Different Cellular Contexts on MicroRNA Targeting

(2014) Jin-Wu Nam et al.   MOLECULAR CELL

The four dimensions of noncoding RNA conservation

(2014) Sven Diederichs   TRENDS IN GENETICS

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

NONCODEv4: exploring the world of long non-coding RNA genes

(2013) Chaoyong Xie et al.   NUCLEIC ACIDS RESEARCH

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

Modeling sample variables with an Experimental Factor Ontology

(2010) James Malone et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites

(2010) Doron Betel et al.   GENOME BIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS