Clustering systems of phylogenetic networks. Theory in Biosciences, (142)4:301–358, Springer Science and Business Media LLC, August 2023. [PUMA: Clustering networks phylogenetic systems] URL
Proteinortho6: pseudo-reciprocal best alignment heuristic for graph-based detection of (co-) orthologs. Frontiers in Bioinformatics, (3):1322477, Frontiers Media SA, 2023. [PUMA: imported]
Chemically inspired Erdős–Rényi hypergraphs. Journal of Mathematical Chemistry, (62)6:1357–1383, Springer Science and Business Media LLC, April 2024. [PUMA: Erdős–Rényi hypergraphs] URL
Phylogenetic information as soft constraints in RNA secondary structure prediction. International Symposium on Bioinformatics Research and Applications, 267--279, 2023. [PUMA: imported]
Phylogenetic and Chemical Probing Information as Soft Constraints in RNA Secondary Structure Prediction. Journal of Computational Biology, (31)6:549--563, Mary Ann Liebert, Inc., publishers 140 Huguenot Street, 3rd Floor New~…, 2024. [PUMA: imported]
BioDeepfuse: a hybrid deep learning approach with integrated feature extraction techniques for enhanced non-coding RNA classification. RNA Biology, (21)1:410–421, Informa UK Limited, März 2024. [PUMA: BioDeepfuse RNA classification deep extraction feature learning non-coding] URL
Periodic system converges and is affected by wars. 2022. [PUMA: imported]
BioAutoML: automated feature engineering and metalearning to predict noncoding RNAs in bacteria. Briefings in Bioinformatics, (23)4Oxford University Press (OUP), Juni 2022. [PUMA: BioAutoML RNAs automated bacteria engineering metalearning noncoding predict] URL
Partial Imaginary Transition State (ITS) Graphs: A Formal Framework for Research and Analysis of Atom-to-Atom Maps of Unbalanced Chemical Reactions and Their Completions. Symmetry, 9:1217, Multidisciplinary Digital Publishing Institute, 2024. [PUMA: imported]
Optimisation via encodings: a renormalisation group perspective. Journal of Physics A: Mathematical and Theoretical, (56)48:485001, IOP Publishing, 2023. [PUMA: imported]
On the realisability of chemical pathways. International Symposium on Bioinformatics Research and Applications, 409--419, 2023. [PUMA: imported]
On the Realisability of Chemical Pathways. Bioinformatics Research and Applications: 19th International Symposium, ISBRA 2023, Wrocław, Poland, October 9--12, 2023, Proceedings, (14248):409, 2023. [PUMA: imported]
On the Cut-Vertex and the Interval Transit Functions of Hypergraphs. Graphs and Combinatorics, (41)1:1--26, Springer, 2025. [PUMA: imported]
Nesting of Touching Polygons. arXiv preprint arXiv:2409.13040, 2024. [PUMA: imported]
Multiomics reveal unique signatures of human epiploic adipose tissue related to systemic insulin resistance. Gut, (71)11:2179--2193, BMJ Publishing Group, 2022. [PUMA: imported]
Best Match Graphs With Binary Trees. IEEE/ACM Transactions on Computational Biology and Bioinformatics, (20)3:1679–1690, Institute of Electrical and Electronics Engineers (IEEE), Mai 2023. [PUMA: Best Binary Graphs Match Trees] URL
AsymmeTree: A Flexible Python Package for the Simulation of Complex Gene Family Histories. Software, (1)3:276–298, MDPI AG, August 2022. [PUMA: AsymmeTree Family Gene Histories Package Python Simulation] URL
MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy. Molecular Ecology Resources, (24)2:e13904, Wiley Online Library, 2024. [PUMA: imported]
Are the chemical families still there? Formal structure of similarity of elements and its thermochemical domain. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, (480)2298The Royal Society, September 2024. [PUMA: Formal chemical families similarity structure] URL
MuDoGeR: Multi-domain genome recovery from metagenomes made easy. bioRxiv, 2022--06, Cold Spring Harbor Laboratory, 2022. [PUMA: imported]