Na FER-u postoji više zaposlenika s imenom

The Applied genomics development strategy by the Croatian academy of sciences and arts paves the way for the future development of applied genomics in Croatia
Telomere-to-telomere phased genome assembly using error-corrected Simplex nanopore reads
Rockfish: A transformer-based model for accurate 5-methylcytosine prediction from nanopore sequencing
The Hitchhiker’s Guide to Sequencing Data Types and Volumes for Population-Scale Pangenome Construction
Detecting a wide range of epitranscriptomic modifications using a nanopore-sequencing-based computational approach with 1D score-clustering
Comparative Analysis of Nanopore-based Unsupervised Learning Methods in Epitranscriptomics
Evaluating data requirements for high-quality haplotype-resolved genomes for creating robust pangenome references
RiNALMo: General-Purpose RNA Language Models Can Generalize Well on Structure Prediction Tasks
Reconstruction of short genomic sequences with graph convolutional networks
Utilizing parental data in trio binning diploid de novo genome assembly
Facilitating genome structural variation analysis
Reconstruction of short genomic sequences with graph convolutional networks
Improving Metagenomic Classification Accuracy through Metagenome Assembly-driven Database Reduction
Harnessing the Power of Language Models to Predict RNA Structure
Direct identification of A-to-I editing sites with nanopore native RNA sequencing
Asian Reference Genome Project
Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim ‘Agnes’ reveals metabolic pathways regulating floral traits
Combining protein and RNA structures information in developing new scoring functions
Evaluation of RNA Atom Distance Prediction Models
Removing chimeric reads improves metagenome assembly
Detection of Modified Nucleotide Clusters in Nanopore Sequenced RNA Reads
Whole genome comparison of Vibrio harveyi strains from the Mediterranean Sea
Struktura podataka za efikasno spremanje očitanja dobivenih sekvenciranjem genoma
Poopćenje algoritma za poravnanje parcijalnog uređaja
Brzo poravnanje visoko pouzdanih dugačkih očitanja
Time- and memory-efficient genome assembly with Raven
A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines
Efficacy of next-generation sequencing in bacterial zoonoses diagnostics
DNA Nanopore Sequencing Basecaller
Deep learning model of nanopore sequencing pore
Whole genome comparison of Vibrio harveyi strains from the Mediterranean Sea
Detection of Modified Nucleotide Clusters in Nanopore Sequenced RNA Reads
Rapid Microbe Detection Using Deep Learning
Detection of Modified Nucleotides Using Nanopore Sequencing and Deep Learning Methods
Deep Learning Model of Nanopore Sequencing Pore
Rapid overlapping of Single Molecule High-Fidelity Sequencing Data
Model dubokog učenja pore za sekvenciranje nanoporama
De Novo Diploid Assembly Using Third-Generation Sequencing Data
Microbe Detection Using Signal Processing and Locality Sensitive Hashing
Sustav za praćenje ispitanika tijekom pretraživanja Google tražilicom
De Novo Metagenome Assembly Using Third Generation Sequencing Dana
Pipeline for Detection Clusters of Modified Nucleotides in Nanopore Sequenced RNA Reads
Deep learning approach to determining the type of long reads
A step towards neural genome assembly
Overlapping Single Molecule High-Fidelity Sequencing Data
Microbe Detection Using Deep Learning
Benchmarking metagenomic classification tools for long read sequencing data
Popravljanje djelomično sastavljenoga genoma pomoći Hi-C očitanja
Detecting Base Modifications in DNA Sequences
Gornja granica u sastavljanju genoma
De novo sastavljanje genoma vođeno referencom
Klasifikacija očitanja koristeći metode dubokog učenja
Pronalaženje varijanti gena iz podataka dobivenih sekvenciranjem
Izgradnja biblioteke za poravnavanje parova dugačkih RNA o čitanja
Mapiranje kratkih očitanja
Mapiranje dugačkih očitanja
Ocjena alata za identifikaciju vrsta u metagenomskim uzorcima
Early Screening for Preeclampsia
Statistical inference of exogenous and endogenous information propagation in social networks
Algorithms for de novo assembly of large genomes
Izgradnja biblioteke za poravnavanje parova dugačkih RNA očitanja
Classification of 1D-Signal Types Using Deep Learning
Mapiranje slijeda na graf
Using Reference Database for Plasmid Prediction
Ocjena alata za identifikaciju vrsta u metagenomskim uzorcima
Approaches to metagenomic classification and assembly
Yet another de novo genome assembler
Supervised learning approach to long read classification
RNA Splice Aware Mapper
Hybrid metagenomic assembly enables high- resolution analysis of resistance determinants and mobile elements in human microbiomes
Disentangling Sources of Influence in Online Social Networks
Poliranje DNA slijeda koristeći metode dubokog učenja
Horizontal silicon nanowires for surface-enhanced Raman spectroscopy
Hidden Markov Model for Base Calling of MinION Nanopore Reads
Brzo pretraživanje sličnih proteinskih sljedova
Landau-Vishkin-Nussinov algoritam za poravnanje dva niza
Približni algoritam za brzo računanje poravnanja dvaju dugačkih nizova
Procjena očekivanog stupnja potpunosti genoma iz dostupnih očitanja
Sustav za pohranu DNA
Naučene indeksne strukture
Mobilna aplikacija za prikupljanje podataka o korisničkoj aktivnosti
Scaffolding Assembled Genomes with Long Reads
End-to-End Deep Learning Model for Base Calling of MinION Nanopore Reads
De Novo Metagenome Assembly Using Read Clustering
Scaffolding Assembled Genomes with Long Reads
Protein Database Search Using Partial Order Alignment
Classification of Large-Scale Biological Annotations Using Word Embeddings Derived from Corpora of Biomedical Research Literature
Read classification using semi-supervised deep learning
MinCall | MinION end2end convolutional deep learning basecaller
De Novo Assembly using Semi-Supervised Read Categorization
Algorithms for Layout Phase of De Novo Genome Assembly
Unsupervised Learning of Sequencing Read Types
Differentiating between Exogenous and Endogenous Information Propagation in Social Networks
Edlib: a C/C ++ library for fast, exact sequence alignment using edit distance
Fast and accurate de novo genome assembly from long uncorrected reads
Silicon Nanowires Substrates Fabrication for Ultra-Sensitive Surface Enhanced Raman Spectroscopy Sensors
Evaluation of tools for long read RNA-seq splice- aware alignment
Modeling Peer and External Influence in Online Social Networks: Case of 2013 Referendum in Croatia
Ra – Rapid de novo genome assembler
Rala - Rapid layout module for de novo genome assembly
Trade-offs in query and target indexing for the selection of candidates in protein homology searches
Computing the Error Profiles of Third Generation Sequencing Technologies
Classification of 1D-Signal Types Using Semi- Supervised Deep Learning
Deep Learning Model for Base Calling of MinION Nanopore Reads
Identification of 1D-Signal Types Using Unsupervised Deep Learning
Informatika - materijali za predavanja na Vojnom studijskom programu
De Novo Assembly using Unsupervised Read Categorization
Inference of influence in social networks
Algoritam za određivanje ukupnog poravnanja dva grafa poravnanja parcijalnog uređaja
Ručno određivanje lažnih preklapanja koja nastaju pri sastavljanju genoma
dna2vec: vektorska reprezentacija k-torki različite duljine
Analiza metagenomskog uzorka dobivenog sekvenciranjem koristeći uređaje treće generacije
RNA Transcriptome Mapping with GraphMap
De novo assembly using long error-prone reads
Stablo Bloomovih filtara za spremanje sljedova
Poravnanje RNA očitanja na poznate gene
Poravnanje dugačkih RNA očitanja
Real-Time Analysis of a Metagenomic Sample Obtained by Nanopore Based Sequencing Technology
Detectability of Patient Zero Depending on its Position in the Network
Evaluation of hybrid and non-hybrid methods for de novo assembly of nanopore reads
Fast and sensitive mapping of nanopore sequencing reads with GraphMap
SIFT missense predictions for genomes
SWORD—a highly efficient protein database search
Racon - Rapid consensus module for raw de novo genome assembly of long uncorrected reads
TGTP-DB – a database for extracting genome, transcriptome and proteome data using taxonomy
Big data in the age of genomics
SWORD—a highly efficient protein database search
ALGORITHMS FOR DE NOVO GENOME ASSEMBLY FROM THIRD GENERATION SEQUENCING DATA
Rekonstrukcija filogenetskog stabla metodom maksimalne uštede uz razgranaj-ograniči optimizaciju
Identification of Patient Zero in Static and Temporal Networks : Robustness and Limitations
SW#db: GPU-Accelerated Exact Sequence Similarity Database Search
A reduced gene database for precision species detection
Splice isoform identification from transcript graphs
EAGLER - Eliminating Assembly Gaps by Long Extending Reads
Generiranje konsenzusnog slijeda iz grafova djelomicno uređenih višestrukih poravnanja
Alat za poravnanje dugackih očitanja
Global sequence alignment tool
REKONSTRUKCIJA FILOGENETSKOG STABLA KORISTEĆI METODU UDRUŽIVANJA SUSJEDA
Sufiksno stablo
Continuum model of gene expression
Statistical inference algorithms for epidemic processes on complex networks
Poboljšano sufiksno polje
Scaffolding using long error-prone reads
De novo transcriptome assembly
Long Read RNA-seq Mapper
Some new results on assessment of Q-gram filter efficiency
Simplification of the Overlap Graph
Information propagation in online social networks
Alat za poravnanje genoma
Statistical Inference Framework for Source Detection of Contagion Processes on Arbitrary Network Structures
De novo metagenomic assembly using Bayesian model-based clustering
RNA-seq mapper
ExoLocator—an online view into genetic makeup of vertebrate proteins
An SIMD dynamic programming C/C++ library
Alat za brzo pretraživanje baza bioloških sljedova
Identify pathogen organisms from a stream of RNA sequences
Otkrivanje preklapajućih DNA očitanja
Računalne metode za poboljšanje i validaciju sastavljenih genoma
Evaluacija aplikacija za pretraživanje baze proteinskih sljedova
Tool for aligning long DNA reads
SW#–GPU-enabled exact alignments on genome scale
Web sučelje za poravnanje sljedova
GPU implementacija vremenski i memorijski učinkovitoga paralelnog algoritma za poravnanje slijedova
Sastavljanje optičkih mapa: modul za korekciju grafa
Alternativno spajanje eksona
Evaluacija metode za ispravljanje pogrešaka kod dugačkih očitanja
SW# - Biblioteka za poravnanje sljedova korištenjem grafičkih procesora
Računalna metoda za računanje proteinskih interakcija
Epidemic centrality — is there an underestimated epidemic impact of network peripheral nodes?
Approaches to DNA de novo Assembly
From Short to Long Reads: Benchmarking Assembly Tools
Protein database search optimization based on CUDA and MPI
FastSIR algorithm : A fast algorithm for the simulation of the epidemic spread in large networks by using the susceptible–infected–recovered compartment model
Proteini i nukleinske kiseline u vremenu i prostoru
Aspects of DNA Assembly Acceleration on Reconfigurable Platforms
BioMe - web sučelje baze biološki važnih metala
Large-Scale Functional Organization of Long-Range Chromatin Interaction Networks
GPU implementacija vremenski efikasnog algoritma za lokalno poravnavanje s linearnom memorijskom složenosti
Prediction of interacting protein residues using sequence and structure data.
CUDA implementation of the algorithm for simulating the epidemic spreading over large networks
BioMe : biologically relevant metals
GPU implementacija vremenski učinkovitog algoritma za lokalno poravnavanje s linearnom memorijskom složenosti
Implementacija FM indeksa
SWIG - Poravnanje struktura korištenjem iterativne primjene Smith-Waterman algoritma
Program za automatsku analizu protein kodirajućih gena
Implementacija komprimirane podatkovne strukture za pretraživanje teksta temeljene na FMindeksu
Program za simulaciju pročitanih nizova nukleotida
Web aplikacija za usporednu analizu proteinskih paraloga
Orthobalancer: aplikacija za kreiranje skupova bioloških vrsta usporedive taksonomske širine
Make Me Move - didaktička računalna igra za učenje strukturne molekularne biologije
Epidemic centrality – identifying “superspreaders” in complex networks
Optimiranje sigurnosnih pravila vatrozida
Adaptivna valićna transformacija ostvarena na CUDA arhitekturi
Alat za prianjanje proteina: modul za vizualizaciju
Phase diagram of epidemic spreading — unimodal vs. bimodal probability distributions
CUDA implementacija računanja elektrostatske raspodjele naboja
Pronalaženje epistatskih interakcija pomoću algoritma kolonije mrava
Poboljšani algoritam za izbor i provjeru kvalitete najboljih multivarijacijskih modela odnosa strukture i svojstava molekula
Implementacija Smith Waterman algoritma koristeći grafičke kartice s CUDA arhitekturom
Implementacija algoritma za računanje proteinskih interakcija
Predviđanje površine dostupne otapalu iz slijeda aminokiselinskih ostataka
Multiresolution analysis of macromolecular structures
Simulacija utjecaja karantena na smanjenje širenja epidemije
Baza zastupljenosti metala u proteinima
Parallel Protein Docking Tool
Sustav za pristup poslužiteljima u pokretnim mrežama
Alat za prianjanje proteina: modul za pripremu prianjanja
Predviđanje mjesta sekundarne strukture protein iz slijeda aminokiselinskih ostataka
Analiza sekundarne strukture proteina metodom obrade signala
Alat za prianjanje proteina: moduli za rotaciju i vrednovanje rezultata
Predviđanje mjesta proteinskih interakcija koristeći algoritam slučajnih šuma
Simulacija utjecaja okupljanja zaraženih gripom na širenje epidemije
Alat za prianjanje proteina: modul za utvrđivanje interakcija
Baza podataka metala u proteinima
Klasifikacija kodirajućih regija u genomu
Analiza kodirajućih regija u genomu
Prediction of Protein-Protein Interaction Sites in Sequences and 3D Structures by Random Forests
PSAIA - Protein Structure and Interaction Analyzer
Automatska izrada testnog skupa za predvidanje proteinskih interakcija
Vizualizacija makromolekula
Računalna metoda za predviđanje mjesta proteinskih interakcija
Utjecaj zaraze na svojstva kompleksne mreže
Metals in proteins: correlation between the metal- ion type, coordination number and the amino-acid residues involved in the coordination
Comparison of the RADIUS and Diameter Protocols
Identifikacija ključnih igrača u kompleksnim mrežama blogova
Correlating protein surface shape and hydrophobicity using spherical harmonical expansions
Prediction of protein-protein hetero interaction sites from local sequence information using Random Forest
Protecting and controlling Virtual LANs by Linux router-firewall
Efikasno upravljanje e-mailom
Model naplate sadržaja i usluga u mobilnim paketskim mrežama
Sigurnost bežičnih LAN-ova
Mobile content efficiency and business model
Modeli naplate sadržaja u mobilnim paketskim mrežama
Nastava
Sveučilišni preddiplomski
- Algoritmi i strukture podataka (Nositelj)
- Algoritmi i strukture podataka (Nositelj)
- Bioinformatika 1 (Nositelj, Nositelj, Nositelj)
- Bioinformatika 1 (Nositelj, Nositelj)
- Projekt iz programske potpore (Predavanja)
- Projekt iz programske potpore (Predavanja)
- Projekt R (Predavanja)
- Završni rad (Predavanja)
- Završni rad (Predavanja)
Sveučilišni diplomski
- Bioinformatika 2 (Nositelj)
- Bioinformatika 2 (Nositelj)
- Kompleksne mreže (Nositelj)
- Kompleksne mreže (Nositelj)
- Kreativni laboratorij (Nositelj)
- Uvod u znanost o podacima (Nositelj)
- Uvod u znanost o podacima (Nositelj)
- Diplomski projekt (Predavanja)
- Diplomski projekt (Predavanja)
- Diplomski projekt (Predavanja)
- Diplomski rad (Predavanja)
- Diplomski rad (Predavanja)
- Diplomski rad (Predavanja)
- Diplomski seminar (Predavanja)
- Diplomski seminar (Predavanja)
- Istraživački seminar (Predavanja)
- Projekt (Predavanja)
- Seminar 1 (Predavanja)
Poslijediplomski doktorski
- Algoritmi u bioinformatici (Nositelj)
Kompetencije
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Computational and artificial intelligence
Artificial intelligence Computation theory -
Computers and information processing
Network theory (graphs) DNA computing