yusuke1997/dblp-id-title huggingface dataset:
Enterprise Integration and Networking: Theory and practice
Stochastic control of thermodynamic heat engines
Developing control-theoretic objectives for large-scale brain dynamics and cognitive enhancement
A survey on distributed online optimization and online games
National achievements in control theory: The aerospace perspective
Optimising mechanical ventilation through model-based methods and automation
Pinning control of complex networked systems: A decade after and beyond
A review of quadrotor: An underactuated mechanical system
Finite- and fixed-time convergent algorithms: Design and convergence time estimation
Modeling of a turbocharged SI engine
Advanced state estimation for navigation of automated vehicles
Theoretical aspects of continuous-time periodic systems
Towards integrated autonomous underwater operations for ocean mapping and monitoring
Robot ecology: Constraint-based control design for long duration autonomy
Control sharing in human-robot team interaction
The impact of automatic control on recent developments in transportation and vehicle systems
A survey on artificial neural networks application for identification and control in environmental engineering: Biological and chemical systems with uncertain models
Iterative multimodal processes scheduling
Generic nonlinear stabilization of systems with matching algebraic structure
Hybrid-augmented intelligence in predictive maintenance with digital intelligent assistants
In-host Mathematical Modelling of COVID-19 in Humans
Self-organizing logistics systems
Objective learning from human demonstrations
Control and optimization techniques for load frequency control of multi-area Cyber-Physical Power Systems: A literature review
Trends in marine control systems
A Critical Review on Control Strategies for Structural Vibration Control
Adaptive control of servohydraulic materials-testing machines: a comparison between black- and grey-box models
Delay identification in time-delay systems using variable structure observers
Lyapunov-based synchronization of networked systems: From continuous-time to hybrid dynamics
From static output feedback to structured robust static output feedback: A survey
Recurrent averaging inequalities in multi-agent control and social dynamics modeling
Control learning: present and future
Behavioral models of decision making under risk and/or uncertainty with application to public sectors
Customizable Interoperability Assessment Methodology to support technical processes deployment in large companies
New computational paradigms in solving fault detection and isolation problems
Control co-design of 13 MW downwind two-bladed rotors to achieve 25% reduction in levelized cost of wind energy
Special section on the history of Discrete Event Systems
Universal features of epidemic models under social distancing guidelines
From case-based reasoning to traces-based reasoning
Synthesis and implementation of logic controllers - A review
Wireless control: Retrospective and open vistas
Synchronization in complex networks and its application - A survey of recent advances and challenges
Microgrid control: A comprehensive survey
Broad-deep network-based fuzzy emotional inference model with personal information for intention understanding in human-robot interaction
State of art of optimization methods for assembly line design
Tutorial on dynamic analysis of the Costas loop
Predictive and robust control strategies applied to ground antenna systems
A fail safe programmable logic controller
A tutorial introduction to quantum stochastic master equations based on the qubit/photon system
The state of variability: A vision for descriptors of glycaemia
Pricing strategies and models
Cooperative control of multiple unmanned aerial systems for heavy duty carrying
On optimal and reasonable control in the presence of adversaries
Safety-critical control for autonomous multi-agent systems
Getting DNA copy numbers without control samples
StreAM-T g : algorithms for analyzing coarse grained RNA dynamics based on Markov models of connectivity-graphs
All galls are divided into three or more parts: recursive enumeration of labeled histories for galled trees
Perplexity: evaluating transcript abundance estimation in the absence of ground truth
Improved de novo peptide sequencing using LC retention time information
A spatio-temporal mining approach towards summarizing and analyzing protein folding trajectories
A classification algorithm based on dynamic ensemble selection to predict mutational patterns of the envelope protein in HIV-infected patients
The distance and median problems in the single-cut-or-join model with single-gene duplications
EMMA: a new method for computing multiple sequence alignments given a constraint subset alignment
MCOIN: a novel heuristic for determining transcription factor binding site motif width
New algorithms for structure informed genome rearrangement
Locus-aware decomposition of gene trees with respect to polytomous species trees
Exact transcript quantification over splice graphs
BicNET: Flexible module discovery in large-scale biological networks using biclustering
Parsimonious reconstruction of network evolution
Fast structure similarity searches among protein models: efficient clustering of protein fragments
ESKEMAP: exact sketch-based read mapping
An average-case sublinear forward algorithm for the haploid Li and Stephens model
Efficiently sparse listing of classes of optimal cophylogeny reconciliations
Fast algorithms for computing sequence distances by exhaustive substring composition
Approximating the correction of weighted and unweighted orthology and paralogy relations
Efficient gene orthology inference via large-scale rearrangements
Configurable pattern-based evolutionary biclustering of gene expression data
Reducing the worst case running times of a family of RNA and CFG problems, using Valiant's approach
MORPH-PRO: a novel algorithm and web server for protein morphing
The approximability of the String Barcoding problem
Metric multidimensional scaling for large single-cell datasets using neural networks
Local sequence alignments statistics: deviations from Gumbel statistics in the rare-event tail
Evaluating deterministic motif significance measures in protein databases
Detecting transcriptomic structural variants in heterogeneous contexts via the Multiple Compatible Arrangements Problem
Back-translation for discovering distant protein homologies in the presence of frameshift mutations
A combinatorial optimization approach for diverse motif finding applications
Predicting gene ontology annotations of orphan GWAS genes using protein-protein interactions
A multi-labeled tree dissimilarity measure for comparing "clonal trees" of tumor progression
A novel method for inference of acyclic chemical compounds with bounded branch-height based on artificial neural networks and integer programming
Comparative analysis of the quality of a global algorithm and a local algorithm for alignment of two sequences
The Difficulty Of Protein Structure Alignment Under The RMSD
RNA-RNA interaction prediction using genetic algorithm
Analysis of computational approaches for motif discovery
Locality-sensitive bucketing functions for the edit distance
Fractal MapReduce decomposition of sequence alignment
Protein (multi-)location prediction: using location inter-dependencies in a probabilistic framework
An efficient algorithm for testing the compatibility of phylogenies with nested taxa
Engineering rank queries on bit vectors and strings
phyBWT2: phylogeny reconstruction via eBWT positional clustering
Dollo-CDP: a polynomial-time algorithm for the clade-constrained large Dollo parsimony problem
CHSMiner: a GUI tool to identify chromosomal homologous segments
Fast algorithms for approximate circular string matching
Speeding up the Consensus Clustering methodology for microarray data analysis
Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package
RNAstrand: reading direction of structured RNAs in multiple sequence alignments
A novel functional module detection algorithm for protein-protein interaction networks
Estimating population size via line graph reconstruction
Distributional fold change test - a statistical approach for detecting differential expression in microarray experiments
Extracting conflict-free information from multi-labeled trees
A tree-based method for the rapid screening of chemical fingerprints
Bayesian localization of CNV candidates in WGS data within minutes
The energy-spectrum of bicompatible sequences
MSARC: Multiple sequence alignment by residue clustering
Robinson-Foulds Supertrees
Analysis of pattern overlaps and exact computation of P-values of pattern occurrences numbers: case of Hidden Markov Models
EUCALYPT: efficient tree reconciliation enumerator
GRISOTTO: A greedy approach to improve combinatorial algorithms for motif discovery with prior knowledge
Metabolite-based clustering and visualization of mass spectrometry data using one-dimensional self-organizing maps
DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment
Treewidth-based algorithms for the small parsimony problem on networks
A markov classification model for metabolic pathways
Pattern statistics on Markov chains and sensitivity to parameter estimation
Separating metagenomic short reads into genomes via clustering
Efficient procedures for the numerical simulation of mid-size RNA kinetics
Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis
Random generation of RNA secondary structures according to native distributions
Linear model for fast background subtraction in oligonucleotide microarrays
Fast phylogenetic inference from typing data
Distinguishing between hot-spots and melting-pots of genetic diversity using haplotype connectivity
A scoring matrix approach to detecting miRNA target sites
Reconstructing protein structure from solvent exposure using tabu search
Mapping sequences by parts
An effective sequence-alignment-free superpositioning of pairwise or multiple structures with missing data
Estimation of genetic diversity in viral populations from next generation sequencing data with extremely deep coverage
Sorting signed permutations by short operations
The feasibility of genome-scale biological network inference using Graphics Processing Units
BicPAM: Pattern-based biclustering for biomedical data analysis
Superbubbles revisited
An optimized FM-index library for nucleotide and amino acid search
Median quartet tree search algorithms using optimal subtree prune and regraft
Breaking the hierarchy - a new cluster selection mechanism for hierarchical clustering methods
Maximum Parsimony on Phylogenetic networks
Resolving spatial inconsistencies in chromosome conformation measurements
Ranking differentially expressed genes from Affymetrix gene expression data: methods with reproducibility, sensitivity, and specificity
Bitpacking techniques for indexing genomes: II. Enhanced suffix arrays
An enhancement of binary particle swarm optimization for gene selection in classifying cancer classes
Sparse estimation for structural variability
Best hits of 11110110111: model-free selection and parameter-free sensitivity calculation of spaced seeds
Outlier detection in BLAST hits
Anchorage accurately assembles anchor-flanked synthetic long reads
Algorithms for matching partially labelled sequence graphs
Asymptotic structural properties of quasi-random saturated structures of RNA
sc McDag: indexing maximal common subsequences for k strings
Constrained incremental tree building: new absolute fast converging phylogeny estimation methods with improved scalability and accuracy
A mixed integer linear programming model to reconstruct phylogenies from single nucleotide polymorphism haplotypes under the maximum parsimony criterion
Predicting direct protein interactions from affinity purification mass spectrometry data
Orthology and near-cographs in the context of phylogenetic networks
Inferring interaction type in gene regulatory networks using co-expression data
Fast prediction of RNA-RNA interaction
A reconstruction problem for a class of phylogenetic networks with lateral gene transfers
Phylogeny reconstruction based on the length distribution of k-mismatch common substrings
Mutual enrichment in ranked lists and the statistical assessment of position weight matrix motifs
Not assessing the efficiency of multiple sequence alignment programs
EXMOTIF: efficient structured motif extraction
Eulertigs: minimum plain text representation of k-mer sets without repetitions in linear time
Partition function and base pairing probabilities of RNA heterodimers
Fast characterization of segmental duplication structure in multiple genome assemblies
Gene tree parsimony for incomplete gene trees: addressing true biological loss
Syntenator: Multiple gene order alignments with a gene-specific scoring function
Revisiting the complexity of and algorithms for the graph traversal edit distance and its variants
Reconciliation and local gene tree rearrangement can be of mutual profit
Evolution through segmental duplications and losses: a Super-Reconciliation approach
Towards sub-quadratic time and space complexity solutions for the dated tree reconciliation problem
Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction
Segmentor3IsBack: an R package for the fast and exact segmentation of Seq-data
Finding high posterior density phylogenies by systematically extending a directed acyclic graph
Using Robinson-Foulds supertrees in divide-and-conquer phylogeny estimation
Bayesian optimization with evolutionary and structure-based regularization for directed protein evolution
Context-aware seeds for read mapping
Computing evolutionary distinctiveness indices in large scale analysis
DCJ-indel and DCJ-substitution distances with distinct operation costs
Exclusive functional signatures for gene annotation with vast OpenOrd layout
Ubiquity of synonymity: almost all large binary trees are not uniquely identified by their spectra or their immanantal polynomials
Bootstrapping phylogenies inferred from rearrangement data
Efficient algorithms for training the parameters of hidden Markov models using stochastic expectation maximization (EM) training and Viterbi training
On weighted k-mer dictionaries
A polynomial time algorithm for computing the area under a GDT curve
ViennaRNA Package 2.0
Using graph model to find transcription factor modules: the hitting set problem and an exact algorithm
Direct vs 2-Stage Approaches to Structured Motif Finding
Aligning coding sequences with frameshift extension penalties
Algorithms for computing the double cut and join distance on both gene order and intergenic sizes
Space-efficient representation of genomic k-mer count tables
Inverse bifurcation analysis: application to simple gene systems
Recombinations, chains and caps: resolving problems with the DCJ-indel model
Hierarchical folding of multiple sequence alignments for the prediction of structures and RNA-RNA interactions
HAlign-II: efficient ultra-large multiple sequence alignment and phylogenetic tree reconstruction with distributed and parallel computing
BiC2PAM: constraint-guided biclustering for biological data analysis with domain knowledge
A novel method for identifying disease associated protein complexes based on functional similarity protein complex networks
WordCluster: detecting clusters of DNA words and genomic elements
On the parameterized complexity of the median and closest problems under some permutation metrics
Exact p-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of cis -regulatory modules
GAML: genome assembly by maximum likelihood
An enhanced RNA alignment benchmark for sequence alignment programs
A new, fast algorithm for detecting protein coevolution using maximum compatible cliques
Association of repeatedly measured intermediate risk factors for complex diseases with high dimensional SNP data
Linear-time algorithms for phylogenetic tree completion under Robinson-Foulds distance
Relative timing information and orthology in evolutionary scenarios
A Partial Least Squares based algorithm for parsimonious variable selection
NestedBD: Bayesian inference of phylogenetic trees from single-cell copy number profiles under a birth-death model
An experimental study of Quartets MaxCut and other supertree methods
Statistically consistent divide-and-conquer pipelines for phylogeny estimation using NJMerge
A topology-marginal composite likelihood via a generalized phylogenetic pruning algorithm
AlignMiner: a Web-based tool for detection of divergent regions in multiple sequence alignments of conserved sequences
Correction: Constructing founder sets under allelic and non-allelic homologous recombination
Identification of alternative topological domains in chromatin
A fast and accurate enumeration-based algorithm for haplotyping a triploid individual
Time-consistent reconciliation maps and forbidden time travel
Computing distribution of scale independent motifs in biological sequences
Circular sequence comparison: algorithms and applications
Instability in progressive multiple sequence alignment algorithms
Faster computation of left-bounded shortest unique substrings
Recursive algorithms for phylogenetic tree counting
Noisy: Identification of problematic columns in multiple sequence alignments
A hybrid parameter estimation algorithm for beta mixtures and applications to methylation state classification
Multiple sequence alignment with user-defined anchor points
Predicting horizontal gene transfers with perfect transfer networks
DCJ-Indel sorting revisited
Fast local fragment chaining using sum-of-pair gap costs
Estimating evolutionary distances between genomic sequences from spaced-word matches
Approximation algorithm for rearrangement distances considering repeated genes and intergenic regions
Graph-distance distribution of the Boltzmann ensemble of RNA secondary structures
Erratum to: A representation of a compressed de Bruijn graph for pan-genome analysis that enables search
Polynomial algorithms for the Maximal Pairing Problem: efficient phylogenetic targeting on arbitrary trees
Sparsification of RNA structure prediction including pseudoknots
Constructing majority-rule supertrees
Review of "Bioinformatics: A Computing Perspective" edited by Shuba Gopal, Anne Haake, Rhys Price Jones and Paul Tymann
The link between orthology relations and gene trees: a correction perspective
Automatic layout and visualization of biclusters
An efficient algorithm for protein structure comparison using elastic shape analysis
Refining motifs by improving information content scores using neighborhood profile search
Jabba: hybrid error correction for long sequencing reads
SparseRNAfolD: optimized sparse RNA pseudoknot-free folding with dangle consideration
A stitch in time: Efficient computation of genomic DNA melting bubbles
LocARNAscan: Incorporating thermodynamic stability in sequence and structure-based RNA homology search
Optimal computation of all tandem repeats in a weighted sequence
Non-parametric and semi-parametric support estimation using SEquential RESampling random walks on biomolecular sequences
On the maximal cliques in c -max-tolerance graphs and their application in clustering molecular sequences
Kermit: linkage map guided long read assembly
Testing the agreement of trees with internal labels
Ultrametric networks: a new tool for phylogenetic analysis
Stochastic errors vs. modeling errors in distance based phylogenetic reconstructions
A constraint solving approach to model reduction by tropical equilibration
Modeling genetic imprinting effects of DNA sequences with multilocus polymorphism data
FSH: fast spaced seed hashing exploiting adjacent hashes
Fast computation of genome-metagenome interaction effects
Connectivity problems on heterogeneous graphs
Automated partial atomic charge assignment for drug-like molecules: a fast knapsack approach
Reconstructing rearrangement phylogenies of natural genomes
An improved approximation algorithm for the reversal and transposition distance considering gene order and intergenic sizes
An image processing approach to computing distances between RNA secondary structures dot plots
Unbiased anchors for reliable genome-wide synteny detection
On an enhancement of RNA probing data using information theory
A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons
The open-closed mod-minimizer algorithm
A linear-time algorithm that avoids inverses and computes Jackknife (leave-one-out) products like convolutions or other operators in commutative semigroups
An integrative approach for a network based meta-analysis of viral RNAi screens
Sama: a contig assembler with correctness guarantee
Prediction of plant promoters based on hexamers and random triplet pair analysis
Interpretation and approximation tools for big, dense Markov chain transition matrices in population genetics
Linear-time protein 3-D structure searching with insertions and deletions
PhyloScan: identification of transcription factor binding sites using cross-species evidence
Phylogenetic comparative assembly
Reconciling multiple genes trees via segmental duplications and losses
A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs
A virtual pebble game to ensemble average graph rigidity
Derivative-free neural network for optimizing the scoring functions associated with dynamic programming of pairwise-profile alignment
A priori assessment of data quality in molecular phylogenetics
Sequence embedding for fast construction of guide trees for multiple sequence alignment
Survival associated pathway identification with group L p penalized global AUC maximization
Periodic pattern detection in sparse boolean sequences
Unrooted unordered homeomorphic subtree alignment of RNA trees
Suffix sorting via matching statistics
Using the message passing algorithm on discrete data to detect faults in boolean regulatory networks
Tracking cells in Life Cell Imaging videos using topological alignments
On a greedy approach for genome scaffolding
Coordinate systems for supergenomes
Probabilistic grammatical model for helix-helix contact site classification
Accuracy of phylogeny reconstruction methods combining overlapping gene data sets
Effective p-value computations using Finite Markov Chain Imbedding (FMCI): application to local score and to pattern statistics
Finding local genome rearrangements
GrpClassifierEC: a novel classification approach based on the ensemble clustering space
Super short operations on both gene order and intergenic sizes
RNA Accessibility in cubic time
Partially local three-way alignments and the sequence signatures of mitochondrial genome rearrangements
Constructing phylogenetic networks via cherry picking and machine learning
On the number of genomic pacemakers: a geometric approach
A simple, practical and complete O-time Algorithm for RNA folding using the Four-Russians Speedup
Haplotypes versus genotypes on pedigrees
Sampling solution traces for the problem of sorting permutations by signed reversals
Algorithms for the quantitative Lock/Key model of cytoplasmic incompatibility
HIA: a genome mapper using hybrid index-based sequence alignment
Efficient edit distance with duplications and contractions
Alignment- and reference-free phylogenomics with colored de Bruijn graphs
Estimating the evidence of selection and the reliability of inference in unigenic evolution
Fulgor: a fast and compact k-mer index for large-scale matching and color queries
Heuristic shortest hyperpaths in cell signaling hypergraphs
Exploiting bounded signal flow for graph orientation based on cause-effect pairs
Stability of multiple alignments and phylogenetic trees: an analysis of ABC-transporter proteins family
A robust approach based on Weibull distribution for clustering gene expression data
Optimal selection of epitopes for TXP-immunoaffinity mass spectrometry
Weighted ASTRID: fast and accurate species trees from weighted internode distances
Investigating the complexity of the double distance problems
Two metrics on rooted unordered trees with labels
Adaptive efficient compression of genomes