Search details
1.
The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond.
Genome Res
; 33(2): 261-268, 2023 02.
Article
in English
| MEDLINE | ID: mdl-36828587
2.
AI for predicting chemical-effect associations at the chemical universe level-deepFPlearn.
Brief Bioinform
; 23(5)2022 09 20.
Article
in English
| MEDLINE | ID: mdl-35849097
3.
deepFPlearn +: enhancing toxicity prediction across the chemical universe using graph neural networks.
Bioinformatics
; 39(12)2023 12 01.
Article
in English
| MEDLINE | ID: mdl-38011648
4.
Detecting gene breakpoints in noisy genome sequences using position-annotated colored de-Bruijn graphs.
BMC Bioinformatics
; 24(1): 235, 2023 Jun 05.
Article
in English
| MEDLINE | ID: mdl-37277700
5.
A Galaxy of informatics resources for MS-based proteomics.
Expert Rev Proteomics
; 20(11): 251-266, 2023.
Article
in English
| MEDLINE | ID: mdl-37787106
6.
OpenMS 3 enables reproducible analysis of large-scale mass spectrometry data.
Nat Methods
; 21(3): 365-367, 2024 Mar.
Article
in English
| MEDLINE | ID: mdl-38366242
7.
Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes.
Nucleic Acids Res
; 47(20): 10543-10552, 2019 11 18.
Article
in English
| MEDLINE | ID: mdl-31584075
8.
EqualTDRL: illustrating equivalent tandem duplication random loss rearrangements.
BMC Bioinformatics
; 19(1): 192, 2018 05 30.
Article
in English
| MEDLINE | ID: mdl-29843612
9.
Accurate annotation of protein-coding genes in mitochondrial genomes.
Mol Phylogenet Evol
; 106: 209-216, 2017 01.
Article
in English
| MEDLINE | ID: mdl-27693569
10.
Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes.
Nucleic Acids Res
; 43(16): 8044-56, 2015 Sep 18.
Article
in English
| MEDLINE | ID: mdl-26227972
11.
Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements.
Nucleic Acids Res
; 40(7): 2833-45, 2012 Apr.
Article
in English
| MEDLINE | ID: mdl-22139921
12.
DeGeCI 1.1: a web platform for gene annotation of mitochondrial genomes.
Bioinform Adv
; 4(1): vbae072, 2024.
Article
in English
| MEDLINE | ID: mdl-38799704
13.
Genome Rearrangement Analysis : Cut and Join Genome Rearrangements and Gene Cluster Preserving Approaches.
Methods Mol Biol
; 2802: 215-245, 2024.
Article
in English
| MEDLINE | ID: mdl-38819562
14.
Genetic aspects of mitochondrial genome evolution.
Mol Phylogenet Evol
; 69(2): 328-38, 2013 Nov.
Article
in English
| MEDLINE | ID: mdl-23142697
15.
Mitogenomics at the base of Metazoa.
Mol Phylogenet Evol
; 69(2): 339-51, 2013 Nov.
Article
in English
| MEDLINE | ID: mdl-23891951
16.
Bioinformatics methods for the comparative analysis of metazoan mitochondrial genome sequences.
Mol Phylogenet Evol
; 69(2): 320-7, 2013 Nov.
Article
in English
| MEDLINE | ID: mdl-23023207
17.
MITOS: improved de novo metazoan mitochondrial genome annotation.
Mol Phylogenet Evol
; 69(2): 313-9, 2013 Nov.
Article
in English
| MEDLINE | ID: mdl-22982435
18.
A comprehensive analysis of bilaterian mitochondrial genomes and phylogeny.
Mol Phylogenet Evol
; 69(2): 352-64, 2013 Nov.
Article
in English
| MEDLINE | ID: mdl-23684911
19.
Fully automated annotation of mitochondrial genomes using a cluster-based approach with de Bruijn graphs.
Front Genet
; 14: 1250907, 2023.
Article
in English
| MEDLINE | ID: mdl-37636259
20.
Mitochondrial genome evolution in species belonging to the Phialocephala fortinii s.l. - Acephala applanata species complex.
BMC Genomics
; 13: 166, 2012 May 04.
Article
in English
| MEDLINE | ID: mdl-22559219