Daniel J. Rigden

Publication Activity (10 Years)

Years Active: 2008-2023
Publications (10 Years): 18

Top Topics

Molecular Biology

Top Venues

Nucleic Acids Res.

Briefings Bioinform.

Publications

Yuxin Zhang, Jie Jiang, Jiongming Ma, Zhen Wei, Yue Wang, Bowen Song, Jia Meng, Guifang Jia, João Pedro de Magalhães, Daniel J. Rigden, Daiyun Hang, Kunqi Chen
DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology. Nucleic Acids Res. 51 (D1) (2023)
Bowen Song, Xuan Wang, Zhanmin Liang, Jiongming Ma, Daiyun Huang, Yue Wang, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng, Gang Liu, Kunqi Chen, Zhen Wei
RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res. 51 (D1) (2023)
Bowen Song, Daiyun Huang, Yuxin Zhang, Zhen Wei, Jionglong Su, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng, Kunqi Chen
A-affecting Mutations in 23 Human Tissues. Genom. Proteom. Bioinform. 21 (4) (2023)
Daniel J. Rigden, Xosé M. Fernández
Database Issue and the online molecular biology database collection. Nucleic Acids Res. 51 (D1) (2023)
Daniel J. Rigden, Xosé M. Fernández
database issue and the online molecular biology database collection. Nucleic Acids Res. 50 (D1) (2022)
Jiongming Ma, Bowen Song, Zhen Wei, Daiyun Huang, Yuxin Zhang, Jionglong Su, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng, Kunqi Chen
m5C-Atlas: a comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome. Nucleic Acids Res. 50 (D1) (2022)
Bowen Song, Kunqi Chen, Yujiao Tang, Zhen Wei, Jionglong Su, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng
ConsRM: collection and large-scale prediction of the evolutionarily conserved RNA methylation sites, with implications for the functional epitranscriptome. Briefings Bioinform. 22 (6) (2021)
Yujiao Tang, Kunqi Chen, Bowen Song, Jiongming Ma, Xiangyu Wu, Qingru Xu, Zhen Wei, Jionglong Su, Gang Liu, Rong Rong, Zhiliang Lu, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng
m6A-Atlas: a comprehensive knowledgebase for unraveling the N6-methyladenosine (m6A) epitranscriptome. Nucleic Acids Res. 49 (Database-Issue) (2021)
Kunqi Chen, Bowen Song, Yujiao Tang, Zhen Wei, Qingru Xu, Jionglong Su, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng
RMDisease: a database of genetic variants that affect RNA modifications, with implications for epitranscriptome pathogenesis. Nucleic Acids Res. 49 (Database-Issue) (2021)
Daniel J. Rigden, Xosé M. Fernández
The 2021 Nucleic Acids Research database issue and the online molecular biology database collection. Nucleic Acids Res. 49 (Database-Issue) (2021)
Filomeno Sánchez Rodríguez, Shahram Mesdaghi, Adam J. Simpkin, J. Javier Burgos-Mármol, David L. Murphy, Ville Uski, Ronan M. Keegan, Daniel J. Rigden
ConPlot: web-based application for the visualization of protein contact maps integrated with other data. Bioinform. 37 (17) (2021)
Daniel J. Rigden, Xosé M. Fernández
The 27th annual Nucleic Acids Research database issue and molecular biology database collection. Nucleic Acids Res. 48 (Database-Issue) (2020)
Bowen Song, Yujiao Tang, Kunqi Chen, Zhen Wei, Rong Rong, Zhiliang Lu, Jionglong Su, João Pedro de Magalhães, Daniel J. Rigden, Jia Meng
m7GHub: deciphering the location, regulation and pathogenesis of internal mRNA N7-methylguanosine (m7G) sites in human. Bioinform. 36 (11) (2020)
Daniel J. Rigden, Xosé M. Fernández-Suárez
The 26th annual Nucleic Acids Research database issue and Molecular Biology Database Collection. Nucleic Acids Res. 47 (Database-Issue) (2019)
Daniel J. Rigden, Xosé M. Fernández-Suárez
The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. Nucleic Acids Res. 46 (Database-Issue) (2018)
Felix Simkovic, Jens M. H. Thomas, Daniel J. Rigden
ConKit: a python interface to contact predictions. Bioinform. 33 (14) (2017)
Michael Y. Galperin, Xosé M. Fernández-Suárez, Daniel J. Rigden
The 24th annual Nucleic Acids Research database issue: a look back and upcoming changes. Nucleic Acids Res. 45 (Database-Issue) (2017)
Daniel J. Rigden, Xosé M. Fernández-Suárez, Michael Y. Galperin
and an updated molecular biology database collection. Nucleic Acids Res. 44 (Database-Issue) (2016)
Michael Y. Galperin, Daniel J. Rigden, Xosé M. Fernández-Suárez
Database Issue and Molecular Biology Database Collection. Nucleic Acids Res. 43 (Database-Issue) (2015)
Xosé M. Fernández-Suárez, Daniel J. Rigden, Michael Y. Galperin
Database Issue and an updated NAR online Molecular Biology Database Collection. Nucleic Acids Res. 42 (Database-Issue) (2014)
Anna Sheydina, Ruth Y. Eberhardt, Daniel J. Rigden, Yuanyuan Chang, Zhanwen Li, Christian M. Zmasek, Herbert L. Axelrod, Adam Godzik
Structural genomics analysis of uncharacterized protein families overrepresented in human gut bacteria identifies a novel glycoside hydrolase. BMC Bioinform. 15 (2014)
Daniel J. Rigden, Ruth Y. Eberhardt, Harry J. Gilbert, Qingping Xu, Yuanyuan Chang, Adam Godzik
Structure- and context-based analysis of the GxGYxYP family reveals a new putative class of Glycoside Hydrolase. BMC Bioinform. 15 (2014)
Daniel J. Rigden, Michael Y. Galperin
Sequence analysis of GerM and SpoVS, uncharacterized bacterial "sporulation" proteins with widespread phylogenetic distribution. Bioinform. 24 (16) (2008)