Author details

Full Name

Peter F Stadler

Affiliation

ORCID

Career Start Year

1990

Papers

495

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
35044918	Best Match Graphs With Binary Trees.	IEEE/ACM Transactions on Computational Biology and Bioinformatics	2023
37608800	Tailored machine learning models for functional RNA detection in genome-wide screens.		2023
37940998	Relative timing information and orthology in evolutionary scenarios.		2023
37994269	MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy.		2023
37573261	Clustering systems of phylogenetic networks.		2023
37615674	RNAcode_Web - Convenient identification of evolutionary conserved protein coding regions.		2023
36592242	Virus Evolution on Fitness Landscapes.		2023
37402719	Defining the landscape of circular RNAs in neuroblastoma unveils a global suppressive function of MYCN.	Nat Commun	2023
37277700	Detecting gene breakpoints in noisy genome sequences using position-annotated colored de-Bruijn graphs.		2023
37130929	The six stages of the convergence of the periodic system to its final structure.		2023
37448812	StandEnA: a customizable workflow for standardized annotation and generating a presence-absence matrix of proteins.		2023
37443337	Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.	Nat Methods	2023
37373913	Toward a Systematic Assessment of Sex Differences in Cystic Fibrosis.		2023
37114986	Led-Seq:Â ligation-enhanced double-end sequence-based structure analysis of RNA.		2023
37522173	Local RNA folding revisited.		2023
37516881	Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package.		2023
35089376	Evolution of DNA Methylation Across Ecdysozoa.	Journal of Molecular Evolution	2022
35764934	Manipulating base quality scores enables variant calling from bisulfite sequencing alignments using conventional bayesian approaches.	BMC Genomics	2022
35578255	Bi-alignments with affine gaps costs.	Algorithms for Molecular Biology	2022
35753697	BioAutoML: automated feature engineering and metalearning to predict noncoding RNAs in bacteria.	Briefings in Bioinformatics	2022
35495653	Cas1 and Fen1 Display Equivalent Functions During Archaeal DNA Repair.	Front Microbiol	2022
35867818	The expansion of chemical space in 1826 and in the 1840s prompted the convergence to the periodic system.	Proceedings of the National Academy of Sciences of the United States of America	2022
36123755	What makes a reaction network "chemical"?	Journal of Cheminformatics	2022
35666446	RNA Design Principles for Riboswitches that Regulate RNase P-Mediated tRNA Processing.	Methods in Molecular Biology	2022
36401317	MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes.	Environmental Microbiomes	2022
37420418	Information Theory for Biological Sequence Classification: A Novel Feature Extraction Technique Based on Tsallis Entropy.		2022
32750852	Generic Context-Aware Group Contributions.	IEEE/ACM Transactions on Computational Biology and Bioinformatics	2022
34990041	Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates.	Plant Biotechnology Journal	2022
35290761	Small integral membrane protein 10 like 1 downregulation enhances differentiation of adipose progenitor cells.	Biochem Biophys Res Commun	2022
35254744	ExceS-A: an exon-centric split aligner.	Journal of integrative bioinformatics	2022
35022261	Synthetic riboswitches for the analysis of tRNA processing by eukaryotic RNase P enzymes.	RNA	2022
35135629	PredicTF: prediction of bacterial transcription factors in complex microbial communities using deep learning.	Environmental Microbiomes	2022
34432289	44 Current Challenges in miRNomics.	Methods in Molecular Biology	2022
34432281	Evolution and Phylogeny of MicroRNAs - Protocols, Pitfalls, and Problems.	Methods in Molecular Biology	2022
34598978	Multiomics reveal unique signatures of human epiploic adipose tissue related to systemic insulin resistance.	Gut	2022
34805989	EpiDiverse Toolkit: a pipeline suite for the analysis of bisulfite sequencing data in ecological plant epigenetics.	NAR Genom Bioinform	2021
32203153	Alzheimer-related genes show accelerated evolution.	Molecular Psychiatry	2021
34178670	Competing Endogenous RNA in Colorectal Cancer: An Analysis for Colon, Rectum, and Rectosigmoid Junction.	Front Oncol	2021
34123355	Alignments of biomolecular contact maps.	Interface Focus	2021
34074310	LazyB: fast and cheap genome assembly.	Algorithms for Molecular Biology	2021
34071416	Changes of the tRNA Modification Pattern during the Development of .	Non-coding RNA	2021
33633174	Thermal reaction norms of key metabolic enzymes reflect divergent physiological and behavioral adaptations of closely related amphipod species.	Scientific Reports	2021
33899096	Erratum to: Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis.	Briefings in Bioinformatics	2021
33953289	Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas.	Leukemia	2021
33469651	Ligand-dependent tRNA processing by a rationally designed RNase P riboswitch.	Nucleic Acids Research	2021
34273354	PTEN regulates adipose progenitor cell growth, differentiation, and replicative aging.	Journal of Biological Chemistry	2021
34218334	Indirect identification of horizontal gene transfer.	Journal of Mathematical Biology	2021
33624017	Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis.	Briefings in Bioinformatics	2021
33524155	Human pathways in animal models: possibilities and limitations.	Nucleic Acids Res	2021
33673400	miRNAture-Computational Detection of microRNA Candidates.	Genes	2021