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

Detecting a wide range of epitranscriptomic modifications using a nanopore-sequencing-based computational approach with 1D score-clustering

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

Telomere-to-telomere phased genome assembly using error-corrected Simplex nanopore reads

Improving Metagenomic Classification Accuracy through Metagenome Assembly-driven Database Reduction

Facilitating genome structural variation analysis

Utilizing parental data in trio binning diploid de novo genome assembly

Direct identification of A-to-I editing sites with nanopore native RNA sequencing

Evaluation of RNA Atom Distance Prediction Models

Combining protein and RNA structures information in developing new scoring functions

Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim ‘Agnes’ reveals metabolic pathways regulating floral traits

Asian Reference Genome Project

Removing chimeric reads improves metagenome assembly

Rapid overlapping of Single Molecule High-Fidelity Sequencing Data

Whole genome comparison of Vibrio harveyi strains from the Mediterranean Sea

Detection of Modified Nucleotides Using Nanopore Sequencing and Deep Learning Methods

Deep learning model of nanopore sequencing pore

Deep Learning Model of Nanopore Sequencing Pore

Time- and memory-efficient genome assembly with Raven

Brzo poravnanje visoko pouzdanih dugačkih očitanja

Whole genome comparison of Vibrio harveyi strains from the Mediterranean Sea

A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines

Rapid Microbe Detection Using Deep Learning

Struktura podataka za efikasno spremanje očitanja dobivenih sekvenciranjem genoma

Efficacy of next-generation sequencing in bacterial zoonoses diagnostics

DNA Nanopore Sequencing Basecaller

Detection of Modified Nucleotide Clusters in Nanopore Sequenced RNA Reads

Detection of Modified Nucleotide Clusters in Nanopore Sequenced RNA Reads

Poopćenje algoritma za poravnanje parcijalnog uređaja

Deep learning approach to determining the type of long reads

De Novo Metagenome Assembly Using Third Generation Sequencing Dana

Pipeline for Detection Clusters of Modified Nucleotides in Nanopore Sequenced RNA Reads

Microbe Detection Using Signal Processing and Locality Sensitive Hashing

Detecting Base Modifications in DNA Sequences

Microbe Detection Using Deep Learning

Sustav za praćenje ispitanika tijekom pretraživanja Google tražilicom

De Novo Diploid Assembly Using Third-Generation Sequencing Data

Popravljanje djelomično sastavljenoga genoma pomoći Hi-C očitanja

Benchmarking metagenomic classification tools for long read sequencing data

A step towards neural genome assembly

Overlapping Single Molecule High-Fidelity Sequencing Data

Using Reference Database for Plasmid Prediction

Mapiranje kratkih očitanja

Yet another de novo genome assembler

Mapiranje slijeda na graf

Klasifikacija očitanja koristeći metode dubokog učenja

Classification of 1D-Signal Types Using Deep Learning

Izgradnja biblioteke za poravnavanje parova dugačkih RNA o čitanja

Hybrid metagenomic assembly enables high- resolution analysis of resistance determinants and mobile elements in human microbiomes

Poliranje DNA slijeda koristeći metode dubokog učenja

Algorithms for de novo assembly of large genomes

Approaches to metagenomic classification and assembly

De novo sastavljanje genoma vođeno referencom

RNA Splice Aware Mapper

Ocjena alata za identifikaciju vrsta u metagenomskim uzorcima

Early Screening for Preeclampsia

Ocjena alata za identifikaciju vrsta u metagenomskim uzorcima

Mapiranje dugačkih očitanja

Statistical inference of exogenous and endogenous information propagation in social networks

Pronalaženje varijanti gena iz podataka dobivenih sekvenciranjem

Gornja granica u sastavljanju genoma

Supervised learning approach to long read classification

Disentangling Sources of Influence in Online Social Networks

Protein Database Search Using Partial Order Alignment

Sustav za pohranu DNA

End-to-End Deep Learning Model for Base Calling of MinION Nanopore Reads

Približni algoritam za brzo računanje poravnanja dvaju dugačkih nizova

Scaffolding Assembled Genomes with Long Reads

Hidden Markov Model for Base Calling of MinION Nanopore Reads

Landau-Vishkin-Nussinov algoritam za poravnanje dva niza

Brzo pretraživanje sličnih proteinskih sljedova

De Novo Metagenome Assembly Using Read Clustering

Mobilna aplikacija za prikupljanje podataka o korisničkoj aktivnosti

Horizontal silicon nanowires for surface-enhanced Raman spectroscopy

Naučene indeksne strukture

Scaffolding Assembled Genomes with Long Reads

Procjena očekivanog stupnja potpunosti genoma iz dostupnih očitanja

Ra – Rapid de novo genome assembler

Algoritam za određivanje ukupnog poravnanja dva grafa poravnanja parcijalnog uređaja

Fast and accurate de novo genome assembly from long uncorrected reads

Silicon Nanowires Substrates Fabrication for Ultra-Sensitive Surface Enhanced Raman Spectroscopy Sensors

Edlib: a C/C ++ library for fast, exact sequence alignment using edit distance

Analiza metagenomskog uzorka dobivenog sekvenciranjem koristeći uređaje treće generacije

Evaluation of tools for long read RNA-seq splice- aware alignment

Read classification using semi-supervised deep learning

De Novo Assembly using Unsupervised Read Categorization

Ručno određivanje lažnih preklapanja koja nastaju pri sastavljanju genoma

Modeling Peer and External Influence in Online Social Networks: Case of 2013 Referendum in Croatia

Identification of 1D-Signal Types Using Unsupervised Deep Learning

Informatika - materijali za predavanja na Vojnom studijskom programu

Classification of 1D-Signal Types Using Semi- Supervised Deep Learning

Differentiating between Exogenous and Endogenous Information Propagation in Social Networks

RNA Transcriptome Mapping with GraphMap

De Novo Assembly using Semi-Supervised Read Categorization

Rala - Rapid layout module for de novo genome assembly

Inference of influence in social networks

Algorithms for Layout Phase of De Novo Genome Assembly

MinCall | MinION end2end convolutional deep learning basecaller

Trade-offs in query and target indexing for the selection of candidates in protein homology searches

Unsupervised Learning of Sequencing Read Types

dna2vec: vektorska reprezentacija k-torki različite duljine

Classification of Large-Scale Biological Annotations Using Word Embeddings Derived from Corpora of Biomedical Research Literature

Deep Learning Model for Base Calling of MinION Nanopore Reads

Computing the Error Profiles of Third Generation Sequencing Technologies

TGTP-DB – a database for extracting genome, transcriptome and proteome data using taxonomy

Poravnanje dugačkih RNA očitanja

Evaluation of hybrid and non-hybrid methods for de novo assembly of nanopore reads

SIFT missense predictions for genomes

De novo assembly using long error-prone reads

ALGORITHMS FOR DE NOVO GENOME ASSEMBLY FROM THIRD GENERATION SEQUENCING DATA

Real-Time Analysis of a Metagenomic Sample Obtained by Nanopore Based Sequencing Technology

SWORD—a highly efficient protein database search

Detectability of Patient Zero Depending on its Position in the Network

Big data in the age of genomics

Fast and sensitive mapping of nanopore sequencing reads with GraphMap

SWORD—a highly efficient protein database search

Racon - Rapid consensus module for raw de novo genome assembly of long uncorrected reads

Stablo Bloomovih filtara za spremanje sljedova

Poravnanje RNA očitanja na poznate gene

De novo transcriptome assembly

Poboljšano sufiksno polje

Continuum model of gene expression

A reduced gene database for precision species detection

Generiranje konsenzusnog slijeda iz grafova djelomicno uređenih višestrukih poravnanja

Identification of Patient Zero in Static and Temporal Networks : Robustness and Limitations

REKONSTRUKCIJA FILOGENETSKOG STABLA KORISTEĆI METODU UDRUŽIVANJA SUSJEDA

EAGLER - Eliminating Assembly Gaps by Long Extending Reads

Scaffolding using long error-prone reads

Statistical inference algorithms for epidemic processes on complex networks

Sufiksno stablo

Alat za poravnanje dugackih očitanja

Long Read RNA-seq Mapper

Splice isoform identification from transcript graphs

Global sequence alignment tool

SW#db: GPU-Accelerated Exact Sequence Similarity Database Search

Rekonstrukcija filogenetskog stabla metodom maksimalne uštede uz razgranaj-ograniči optimizaciju

Some new results on assessment of Q-gram filter efficiency

Information propagation in online social networks

Simplification of the Overlap Graph

Identify pathogen organisms from a stream of RNA sequences

Otkrivanje preklapajućih DNA očitanja

RNA-seq mapper

Alat za poravnanje genoma

Alat za brzo pretraživanje baza bioloških sljedova

ExoLocator—an online view into genetic makeup of vertebrate proteins

De novo metagenomic assembly using Bayesian model-based clustering

Računalne metode za poboljšanje i validaciju sastavljenih genoma

Statistical Inference Framework for Source Detection of Contagion Processes on Arbitrary Network Structures

An SIMD dynamic programming C/C++ library

Epidemic centrality — is there an underestimated epidemic impact of network peripheral nodes?

Evaluacija aplikacija za pretraživanje baze proteinskih sljedova

Računalna metoda za računanje proteinskih interakcija

Tool for aligning long DNA reads

SW# - Biblioteka za poravnanje sljedova korištenjem grafičkih procesora

SW#–GPU-enabled exact alignments on genome scale

Alternativno spajanje eksona

Sastavljanje optičkih mapa: modul za korekciju grafa

FastSIR algorithm : A fast algorithm for the simulation of the epidemic spread in large networks by using the susceptible–infected–recovered compartment model

Web sučelje za poravnanje sljedova

Protein database search optimization based on CUDA and MPI

Proteini i nukleinske kiseline u vremenu i prostoru

Aspects of DNA Assembly Acceleration on Reconfigurable Platforms

From Short to Long Reads: Benchmarking Assembly Tools

GPU implementacija vremenski i memorijski učinkovitoga paralelnog algoritma za poravnanje slijedova

Approaches to DNA de novo Assembly

Evaluacija metode za ispravljanje pogrešaka kod dugačkih očitanja

Program za simulaciju pročitanih nizova nukleotida

Make Me Move - didaktička računalna igra za učenje strukturne molekularne biologije

Large-Scale Functional Organization of Long-Range Chromatin Interaction Networks

SWIG - Poravnanje struktura korištenjem iterativne primjene Smith-Waterman algoritma

GPU implementacija vremenski učinkovitog algoritma za lokalno poravnavanje s linearnom memorijskom složenosti

Program za automatsku analizu protein kodirajućih gena

Implementacija FM indeksa

GPU implementacija vremenski efikasnog algoritma za lokalno poravnavanje s linearnom memorijskom složenosti

Web aplikacija za usporednu analizu proteinskih paraloga

CUDA implementation of the algorithm for simulating the epidemic spreading over large networks

Prediction of interacting protein residues using sequence and structure data.

Orthobalancer: aplikacija za kreiranje skupova bioloških vrsta usporedive taksonomske širine

Implementacija komprimirane podatkovne strukture za pretraživanje teksta temeljene na FMindeksu

BioMe - web sučelje baze biološki važnih metala

BioMe : biologically relevant metals

Alat za prianjanje proteina: modul za vizualizaciju

Phase diagram of epidemic spreading — unimodal vs. bimodal probability distributions

Implementacija Smith Waterman algoritma koristeći grafičke kartice s CUDA arhitekturom

Implementacija algoritma za računanje proteinskih interakcija

Poboljšani algoritam za izbor i provjeru kvalitete najboljih multivarijacijskih modela odnosa strukture i svojstava molekula

Optimiranje sigurnosnih pravila vatrozida

Pronalaženje epistatskih interakcija pomoću algoritma kolonije mrava

Epidemic centrality – identifying “superspreaders” in complex networks

CUDA implementacija računanja elektrostatske raspodjele naboja

Predviđanje površine dostupne otapalu iz slijeda aminokiselinskih ostataka

Adaptivna valićna transformacija ostvarena na CUDA arhitekturi

Predviđanje mjesta proteinskih interakcija koristeći algoritam slučajnih šuma

Baza podataka metala u proteinima

Simulacija utjecaja okupljanja zaraženih gripom na širenje epidemije

Alat za prianjanje proteina: moduli za rotaciju i vrednovanje rezultata

Sustav za pristup poslužiteljima u pokretnim mrežama

Multiresolution analysis of macromolecular structures

Baza zastupljenosti metala u proteinima

Alat za prianjanje proteina: modul za pripremu prianjanja

Predviđanje mjesta sekundarne strukture protein iz slijeda aminokiselinskih ostataka

Analiza sekundarne strukture proteina metodom obrade signala

Simulacija utjecaja karantena na smanjenje širenja epidemije

Alat za prianjanje proteina: modul za utvrđivanje interakcija

Parallel Protein Docking Tool

Analiza kodirajućih regija u genomu

Prediction of Protein-Protein Interaction Sites in Sequences and 3D Structures by Random Forests

Klasifikacija kodirajućih regija u genomu

PSAIA - Protein Structure and Interaction Analyzer

Metals in proteins: correlation between the metal- ion type, coordination number and the amino-acid residues involved in the coordination

Računalna metoda za predviđanje mjesta proteinskih interakcija

Identifikacija ključnih igrača u kompleksnim mrežama blogova

Vizualizacija makromolekula

Automatska izrada testnog skupa za predvidanje proteinskih interakcija

Utjecaj zaraze na svojstva kompleksne mreže

Comparison of the RADIUS and Diameter Protocols

Prediction of protein-protein hetero interaction sites from local sequence information using Random Forest

Correlating protein surface shape and hydrophobicity using spherical harmonical expansions

Protecting and controlling Virtual LANs by Linux router-firewall

Efikasno upravljanje e-mailom

Model naplate sadržaja i usluga u mobilnim paketskim mrežama

Mobile content efficiency and business model

Sigurnost bežičnih LAN-ova

Modeli naplate sadržaja u mobilnim paketskim mrežama