LincSNP 3.0: an updated database for linking functional variants to human long non-coding RNAs, circular RNAs and their regulatory elements

Investigating RNA editing in deep transcriptome datasets with REDItools and REDIportal

(2020) Claudio Lo Giudice et al.   Nature Protocols

Perspectives on ENCODE

(2020) Michael P. Snyder et al.   NATURE

SELER: a database of super-enhancer-associated lncRNA- directed transcriptional regulation in human cancers

(2019) Zhi-Wei Guo et al.   Database-The Journal of Biological Databases and Curation

Circular RNA circ-DONSON facilitates gastric cancer growth and invasion via NURF complex dependent activation of transcription factor SOX4

(2019) Lixian Ding et al.   Molecular Cancer

Loss of Super-Enhancer-Regulated circRNA Nfix Induces Cardiac Regeneration After Myocardial Infarction in Adult Mice

(2019) Senlin Huang et al.   CIRCULATION

New developments on the Encyclopedia of DNA Elements (ENCODE) data portal

(2019) Yunhai Luo et al.   NUCLEIC ACIDS RESEARCH

Comprehensive Characterization of Somatic Mutations Impacting lncRNA Expression for Pan-Cancer

(2019) Yue Gao et al.   Molecular Therapy-Nucleic Acids

Circular RNA and its mechanisms in disease: From the bench to the clinic

(2018) Bing Han et al.   PHARMACOLOGY & THERAPEUTICS

LncRNAs Coming of Age

(2018) Phillip Grote et al.   CIRCULATION RESEARCH

Pancan-meQTL: a database to systematically evaluate the effects of genetic variants on methylation in human cancer

(2018) Jing Gong et al.   NUCLEIC ACIDS RESEARCH

SEdb: a comprehensive human super-enhancer database

(2018) Yong Jiang et al.   NUCLEIC ACIDS RESEARCH

LNCipedia 5: towards a reference set of human long non-coding RNAs

(2018) Pieter-Jan Volders et al.   NUCLEIC ACIDS RESEARCH

Lnc2Cancer v2.0: updated database of experimentally supported long non-coding RNAs in human cancers

(2018) Yue Gao et al.   NUCLEIC ACIDS RESEARCH

GTRD: a database on gene transcription regulation—2019 update

(2018) Ivan Yevshin et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: 2019 update

(2018) Maximilian Haeussler et al.   NUCLEIC ACIDS RESEARCH

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2019

(2018) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

The chromatin accessibility landscape of primary human cancers

(2018) M. Ryan Corces et al.   SCIENCE

ADAR RNA editing in human disease; more to it than meets the I

(2017) Angela Gallo et al.   HUMAN GENETICS

Database resources of the National Center for Biotechnology Information

(2017) et al.   NUCLEIC ACIDS RESEARCH

rSNPBase 3.0: an updated database of SNP-related regulatory elements, element-gene pairs and SNP-based gene regulatory networks

(2017) Liyuan Guo et al.   NUCLEIC ACIDS RESEARCH

NONCODEV5: a comprehensive annotation database for long non-coding RNAs

(2017) ShuangSang Fang et al.   NUCLEIC ACIDS RESEARCH

Transcription-factor-dependent enhancer transcription defines a gene regulatory network for cardiac rhythm

(2017) Xinan H Yang et al.   eLife

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

(2016) Ernesto Picardi et al.   NUCLEIC ACIDS RESEARCH

LincSNP 2.0: an updated database for linking disease-associated SNPs to human long non-coding RNAs and their TFBSs

(2016) Shangwei Ning et al.   NUCLEIC ACIDS RESEARCH

Quantitative Trait Loci Identify Functional Noncoding Variation in Cancer

(2016) Holger Heyn   PLoS Genetics

Exon Skipping Is Correlated with Exon Circularization

(2015) Steven Kelly et al.   JOURNAL OF MOLECULAR BIOLOGY

GWASdb v2: an update database for human genetic variants identified by genome-wide association studies

(2015) Mulin Jun Li et al.   NUCLEIC ACIDS RESEARCH

Regulation of circRNA biogenesis

(2015) Ling-Ling Chen et al.   RNA Biology

CIRI: an efficient and unbiased algorithm for de novo circular RNA identification

(2015) Yuan Gao et al.   GENOME BIOLOGY

Correlation of circular RNA abundance with proliferation – exemplified with colorectal and ovarian cancer, idiopathic lung fibrosis and normal human tissues

(2015) Anna Bachmayr-Heyda et al.   Scientific Reports

LincSNP: a database of linking disease-associated SNPs to human large intergenic non-coding RNAs

(2014) Shangwei Ning et al.   BMC BIOINFORMATICS

Complementary Sequence-Mediated Exon Circularization

(2014) Xiao-Ou Zhang et al.   CELL

GRASP v2.0: an update on the Genome-Wide Repository of Associations between SNPs and phenotypes

(2014) John D. Eicher et al.   NUCLEIC ACIDS RESEARCH

LncRBase: An Enriched Resource for lncRNA Information

(2014) Sohini Chakraborty et al.   PLoS One

circBase: a database for circular RNAs

(2014) Petar Glažar et al.   RNA

The NHGRI GWAS Catalog, a curated resource of SNP-trait associations

(2013) Danielle Welter et al.   NUCLEIC ACIDS RESEARCH

NCBI’s Database of Genotypes and Phenotypes: dbGaP

(2013) Kimberly A. Tryka et al.   NUCLEIC ACIDS RESEARCH

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

(2013) Gokul Ramaswami et al.   NUCLEIC ACIDS RESEARCH

ENCODE explained

(2012) Joseph R. Ecker et al.   NATURE

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

DARNED: a DAtabase of RNa EDiting in humans

(2010) A. Kiran et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer

(2010) S. A. Forbes et al.   NUCLEIC ACIDS RESEARCH

An Open Access Database of Genome-wide Association Results

(2009) Andrew D Johnson et al.   BMC Medical Genetics