Bioinformatics
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- A fast solver for nonlocal electrostatic theory in biomolecular science and engineering
- Using nonlocal electrostatics for solvation free energy computations: ions and small molecules
- A NMR-spectra-based scoring function for protein docking
- Signal processing in proteomics
- Glycosylation Patterns of Proteins Studied by Liquid Chromatography-Mass Spectrometry and Bioinformatic Tools
- The isotope wavelet: a signal theoretic framework for analyzing mass spectrometry data
- High-accuracy peak picking of proteomics data
- Predicting Protein NMR Chemical Shifts in the Presence of Ligands and Ions using Force Field-based Features
- Impact of infratentorial lesions on affected fibers in multiple sclerosis
- BN++-A Biological Information System
- Disease-relevant signalling-pathways in head and neck cancer: Taspase1’s proteolytic activity fine-tunes TFIIA function
- The effect of numerical aperture on quantitative use-wear studies and its implication on reproducibility
- Method for detecting known nucleotide modifications in an rna
- A big data approach to metagenomics for all-food-sequencing
- ProteinScanAR-An augmented reality web application for high school education in biomolecular life sciences
- Real-time ray tracing of complex molecular scenes
- Measuring properties of molecular surfaces using ray casting
- Efficient analysis of mass spectrometry data using the isotope wavelet
- Efficient Interpretation of Tandem Mass Tags in Top-Down Proteomics
- A novel automated segmentation method for retinal layers in OCT images proves retinal degeneration after optic neuritis
- DrugTargetInspector: An assistance tool for patient treatment stratification
- Competing Salt Effects on Phase Behavior of Protein Solutions: Tailoring of Protein Interaction by the Binding of Multivalent Ions and Charge Screening
- SKINK: a web server for string kernel based kink prediction in α-helices
- rapidGSEA: Speeding up gene set enrichment analysis on multi-core CPUs and CUDA-enabled GPUs
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase
- PresentaBALL—A powerful package for presentations and lessons in structural biology
- On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking
- String Kernels and High-Quality Data Set for Improved Prediction of Kinked Helices in α-Helical Membrane Proteins
- Human SAP18 mediates assembly of a splicing regulatory multiprotein complex via its ubiquitin-like fold
- BALL-biochemical algorithms library 1.3
- Revisiting automated G-protein coupled receptor modeling: the benefit of additional template structures for a neurokinin-1 receptor model
- The impact of isolated lesions on white-matter fiber tracts in multiple sclerosis patients
- Automated bond order assignment as an optimization problem
- CellLineNavigator: a workbench for cancer cell line analysis
- Universality of protein reentrant condensation in solution induced by multivalent metal ions
- Glycosylation patterns of human chorionic gonadotropin revealed by liquid chromatography-mass spectrometry and bioinformatics
- Isotope pattern deconvolution for peptide mass spectrometry by non-negative least squares/least absolute deviation template matching
- Instruction of haematopoietic lineage choices, evolution of transcriptional landscapes and cancer stem cell hierarchies derived from an AML1-ETO mouse model
- Next-generation sequencing: big data meets high performance computing
- Deep learning in next-generation sequencing
- Dedicated Bioinformatics Analysis Hardware
- CARE: Context-Aware Sequencing Read Error Correction
- Algorithms for the maximum weight connected k-induced subgraph problem
- A Greedy Algorithm for Hierarchical Complete Linkage Clustering
- Graph Rewriting Based Search for Molecular Structures: Definitions, Algorithms, Hardness
- A computational method for studying the relation between alternative splicing and DNA methylation
- MetaCache: context-aware classification of metagenomic reads using minhashing
- AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation
- NOseq: amplicon sequencing evaluation method for RNA m6A sites after chemical deamination
- Efficient computation of root mean square deviations under rigid transformations
- A consensus line search algorithm for molecular potential energy functions
- A new numerical method for nonlocal electrostatics in biomolecular simulations
- A novel three-dimensional collaborative online platform for bio-molecular modeling
- Characterization of metal-labelled peptides by matrix-assisted laser desorption/ionization mass spectrometry and tandem mass spectrometry
- Ballaxy: web services for structural bioinformatics
- Correction to On the Applicability of Elastic Network Normal Modes in Small-Molecule Docking
- CoverageAnalyzer (CAn): A Tool for Inspection of Modification Signatures in RNA Sequencing Profiles
- Large oligomeric complex structures can be computationally assembled by efficiently combining docked interfaces
- CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm
- The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent
- NightShift: NMR shift inference by general hybrid model training-a framework for NMR chemical shift prediction
- Parallelized clustering of protein structures on cuda-enabled gpus
- A dynamic program analysis to find floating-point accuracy problems
- A Dynamic Program Analysis to find Floating-Point Accuracy Problems
- Structure prediction of protein complexes by an NMR-based protein docking algorithm
- Novel formulation of nonlocal electrostatics
- BALLView: An object-oriented molecular visualization and modeling framework
- Electrostatic potentials of proteins in water: a structured continuum approach
- A minimally invasive multiple marker approach allows highly efficient detection of meningioma tumors
- Highly accelerated feature detection in proteomics data sets using modern graphics processing units
- Modeling Protein-Protein and Protein-DNA Docking
- OpenMS-An open-source software framework for mass spectrometry
- Complex humoral immune response against a benign tumor: frequent antibody response against specific antigens as diagnostic targets
- BALLView: a tool for research and education in molecular modeling
- Computational quantification of peptides from LC-MS data
- Reentrant condensation of proteins in solution induced by multivalent counterions
- OpenMS–an open-source software framework for mass spectrometry
- BN++–A biological information system
- High-Accuracy Peak Picking of Proteomics Data Using Wavelet Techniques
- A fast and accurate algorithm for the quantification of peptides from mass spectrometry data
- Machine learning of reverse transcription signatures of variegated polymerases allows mapping and discrimination of methylated purines in limited transcriptomes
- CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm (Reprinted from vol 30, pg 200-211, 2016)
- The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent
- OpenMS - an open-source software framework for mass spectrometry
- NESSie. jl–Efficient and intuitive finite element and boundary element methods for nonlocal protein electrostatics in the Julia language
- The Electromagnetic Nature of Protein-Protein Interactions
- Potential Coronaviral Inhibitors of the Nucleocapsid Protein Identified In Silico and In Vitro from a Large Natural Product Library
- Learning Molecular Classes from Small Numbers of Positive Examples Using Graph Grammars
- Evaluating the microscopic effect of brushing stone tools as a cleaning procedure
- Disease-relevant signalling-pathways in head and neck cancer : Taspase1’s proteolytic activity fine-tunes TFIIA function
- Graphical workflow system for modification calling by machine learning of reverse transcription signatures
- Polish is quantitatively different on quartzite flakes used on different worked materials
- The effect of numerical aperture on quantitative use-wear studies and its implication on reproducibility
- Space-efficient and exact system representations for the nonlocal protein electrostatics problem
- CorCast: A Distributed Architecture for Bayesian Epidemic Nowcasting and its Application to District-Level SARS-CoV-2 Infection Numbers in Germany
- Locality-sensitive hashing enables efficient and scalable signal classification in high-throughput mass spectrometry raw data
- Locality-sensitive hashing enables signal classification in high-throughput mass spectrometry raw data at scale
- CUDA-accelerated protein electrostatics in linear space
- Overexpression of Bcl-3 inhibits the development of marginal zone B cells
- midiaPASEF maximizes information content in data-independent acquisition proteomics
- Ionmob: a Python package for prediction of peptide collisional cross-section values
- Community composition and seasonal changes of archaea in coarse and fine air particulate matter
- Species Richness, rRNA Gene Abundance, and Seasonal Dynamics of Airborne Plant-Pathogenic Oomycetes
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