Runsheng Chen

Orcid: 0000-0001-6049-8347

Affiliations:
  • Chinese Academy of Sciences, Institute of Biophysics, Key Laboratory of RNA Biology, Beijing, China


According to our database1, Runsheng Chen authored at least 46 papers between 1995 and 2023.

Collaborative distances:

Timeline

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Bibliography

2023
NPInter v5.0: ncRNA interaction database in a new era.
Nucleic Acids Res., January, 2023

A Historic Retrospective on the Early Bioinformatics Research in China.
Genom. Proteom. Bioinform., 2023

2022
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022.
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Nucleic Acids Res., 2022

piRBase: integrating piRNA annotation in all aspects.
Nucleic Acids Res., 2022

2021
Early bioinformatics research in China.
Quant. Biol., September, 2021

NONCODEV6: an updated database dedicated to long non-coding RNA annotation in both animals and plants.
Nucleic Acids Res., 2021

Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021.
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Nucleic Acids Res., 2021

SmProt: A Reliable Repository with Comprehensive Annotation of Small Proteins Identified from Ribosome Profiling.
Genom. Proteom. Bioinform., 2021

2020
NPInter v4.0: an integrated database of ncRNA interactions.
Nucleic Acids Res., 2020

SpatialDB: a database for spatially resolved transcriptomes.
Nucleic Acids Res., 2020

2019
piRBase: a comprehensive database of piRNA sequences.
Nucleic Acids Res., 2019

2018
NONCODEV5: a comprehensive annotation database for long non-coding RNAs.
Nucleic Acids Res., 2018

SmProt: a database of small proteins encoded by annotated coding and non-coding RNA loci.
Briefings Bioinform., 2018

Dynamic-BM: multispecies Dynamic BodyMap database from temporal RNA-seq data.
Briefings Bioinform., 2018

An Enviro-Geno-Pheno State Analysis Framework for Biomarker Study.
Proceedings of the Intelligence Science and Big Data Engineering, 2018

2017
Comparative studies on multivariate tests for joint-SNVs analysis and detection for bipolar disorder susceptibility genes.
Int. J. Data Min. Bioinform., 2017

LncVar: a database of genetic variation associated with long non-coding genes.
Bioinform., 2017

2016
NONCODE 2016: an informative and valuable data source of long non-coding RNAs.
Nucleic Acids Res., 2016

Computational identification of piRNA targets on mouse mRNAs.
Bioinform., 2016

BioCircos.js: an interactive Circos JavaScript library for biological data visualization on web applications.
Bioinform., 2016

NPInter v3.0: an upgraded database of noncoding RNA-associated interactions.
Database J. Biol. Databases Curation, 2016

A comparison study on multivariate methods for joint-SNVs association analysis.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015
On Bioinformatic Resources.
Genom. Proteom. Bioinform., 2015

2014
NPInter v2.0: an updated database of ncRNA interactions.
Nucleic Acids Res., 2014

NONCODEv4: exploring the world of long non-coding RNA genes.
Nucleic Acids Res., 2014

piRBase: a web resource assisting piRNA functional study.
Database J. Biol. Databases Curation, 2014

2012
NONCODE v3.0: integrative annotation of long noncoding RNAs.
Nucleic Acids Res., 2012

Transcription Network Analysis by A Sparse Binary Factor Analysis Algorithm.
J. Integr. Bioinform., 2012

A non-Gaussian factor analysis approach to transcription Network Component Analysis.
Proceedings of the 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2012

2011
ncFANs: a web server for functional annotation of long non-coding RNAs.
Nucleic Acids Res., 2011

Estimating developmental states of tumors and normal tissues using a linear time-ordered model.
BMC Bioinform., 2011

2010
A binary matrix factorization algorithm for protein complex prediction.
Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2010

2008
NONCODE v2.0: decoding the non-coding.
Nucleic Acids Res., 2008

FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space.
Bioinform., 2008

2007
An Iterative Algorithm to Quantify Factors Influencing peptide Fragmentation during Tandem Mass Spectrometry.
J. Bioinform. Comput. Biol., 2007

antiCODE: a natural sense-antisense transcripts database.
BMC Bioinform., 2007

A Flexible Stem-Based Local Search Algorithm for Predicting RNA Secondary Structures Including Pseudoknots.
Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, 2007

2006
Dynamic Changes in Subgraph Preference Profiles of Crucial Transcription Factors.
PLoS Comput. Biol., 2006

NPInter: the noncoding RNAs and protein related biomacromolecules interaction database.
Nucleic Acids Res., 2006

A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data.
BMC Bioinform., 2006

Phylophenetic properties of metabolic pathway topologies as revealed by global analysis.
BMC Bioinform., 2006

NMPP: a user-customized NimbleGen microarray data processing pipeline.
Bioinform., 2006

2005
Predicting Molecular Formulas of Fragment Ions with Isotope Patterns in Tandem Mass Spectra.
IEEE ACM Trans. Comput. Biol. Bioinform., 2005

NONCODE: an integrated knowledge database of non-coding RNAs.
Nucleic Acids Res., 2005

2004
Conservation analysis of small RNA genes in Escherichia coli.
Bioinform., 2004

1995
Analysis of tRNA Gene Sequences by Neural Network.
J. Comput. Biol., 1995


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