prof. dr. sc. Mile Šikić

External associate, Department of Electronic Systems and Information Processing

Location:
Public phone number:
6129-781
Internal phone number:
281

Disentangling Sources of Influence in Online Social Networks

Piškorec, Matija ; Šmuc, Tomislav ; Šikić, Mile
Znanstveni i pregledni radovi, 2019.

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

Bertrand, Denis ; Shaw, Jim ; Kalathiyappan, Manesh ; Ng, Amanda Hui Qi ; Kumar, M. Senthil ; Li, Chenhao ; Dvornicic, Mirta ; Soldo, Janja Paliska ; Koh, Jia Yu ; Tong, Chengxuan ; Ng, Oon Tek ; Barkham, Timothy ; Young, Barnaby ; Marimuthu, Kalisvar ; Chng, Kern Rei ; Sikic, Mile ; Nagarajan, Niranjan
Znanstveni i pregledni radovi, 2019.

Horizontal silicon nanowires for surface-enhanced Raman spectroscopy

Gebavi, Hrvoje ; Ristić, Davor ; Baran, Nikola ; Mikac, Lara ; Mohaček-Grošev, Vlasta ; Gotić, Marijan ; Šikić, Mile ; Ivanda, Mile
Znanstveni i pregledni radovi, 2018.

Informatics

Džapo, Hrvoje ; Podobnik, Vedran ; Pribanić, Tomislav ; Seder, Marija ; Šikić, Mile
Ostalo, 2017.

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

Piškorec, Matija ; Antulov-Fantulin, Nino ; Miholić, Iva ; Šmuc, Tomislav ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2017.
Complex Networks 2017

Differentiating between Exogenous and Endogenous Information Propagation in Social Networks

Piškorec, Matija ; Šmuc, Tomislav ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
Second International Workshop on Data Science

Unsupervised Learning of Sequencing Read Types

Tomljanović, Jan ; Šebrek, Tomislav ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2017.
ICCBB 2017

Algorithms for Layout Phase of De Novo Genome Assembly

Vaser, Robert ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
Second International Workshop on Data Science

De Novo Assembly using Semi-Supervised Read Categorization

Šebrek, Tomislav ; Tomljanović, Jan ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
Second International Workshop on Data Science

De Novo Assembly using Unsupervised Read Categorization

Tomljanović, Jan ; Šebrek, Tomislav ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
Second International Workshop on Data Science

MinCall | MinION end2end convolutional deep learning basecaller

Miculinić, Neven ; Ratković, Marko ; Šikić, Mile
Druga sudjelovanja na skupovima, 2017.
2nd International workshop on deep learning for precision medicine, ECML-PKDD 2017

Read classification using semi-supervised deep learning

Šebrek, Tomislav ; Tomljanović, Jan ; Krapac, Josip ; Šikić, Mile
Druga sudjelovanja na skupovima, 2017.
2nd International workshop on deep learning for precision medicine, ECML-PKDD 2017

Ra – Rapid de novo genome assembler

Vaser, Robert ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
ISMB/ECCB 2017

Rala - Rapid layout module for de novo genome assembly

Vaser, Robert ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
ISMB/ECCB 2017

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

Križanović, Krešimir ; Echchiki, Amina ; Roux, Julien ; Šikić, Mile
Znanstveni i pregledni radovi, 2017.

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

Gebavi, Hrvoje ; Mikac, Lara ; Marciuš, Marijan ; Šikić, Mile ; Mohaček-Grošev, Vlasta ; Janči, Tibor ; Vidaček, Sanja ; Hasanspahić, Emina ; Omanović Miklićanin, Enisa ; Ivanda, Mile
Znanstveni i pregledni radovi, 2017.

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

Ristov, Strahil ; Vaser Robert ; Šikić Mile
Znanstveni radovi u zbornicima skupova, 2017.
The Prague Stringology Conference

Inference of influence in social networks

Matija Piškorec, Nino Antulov-Fantulin, Iva Miholić, Tomislav Šmuc, Mile Šikić
Sažeci u zbornicima i časopisima, 2017.
CompleNet 2017

RNA Transcriptome Mapping with GraphMap

Križanović, Krešimir ; Sović, Ivan ; Krpelnik, Ivan ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2017.
13th International Symposium, ISBRA 2017

Fast and accurate de novo genome assembly from long uncorrected reads

Vaser, Robert ; Sović, Ivan ; Nagaranjan, Niranjan ; Šikić, Mile
Znanstveni i pregledni radovi, 2017.

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

Šošić, Martin ; Šikić, Mile
Znanstveni i pregledni radovi, 2017.

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

Vaser, Robert ; Sović, Ivan ; Nagarajan, Niranjan ; Šikić, Mile
Druga sudjelovanja na skupovima, 2016.
London calling conference 2016

SWORD—a highly efficient protein database search

Vaser, Robert ; Pavlović, Dario ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2016.
ECCB 2016: THE 15TH EUROPEAN CONFERENCE ON COMPUTATIONAL BIOLOGY

Big data in the age of genomics

Šikić, Mile
Druga sudjelovanja na skupovima, 2016.
Data Science Monetization 2016 Conference

SWORD—a highly efficient protein database search

Vaser, Robert ; Pavlović, Dario ; Šikić, Mile
Znanstveni i pregledni radovi, 2016.

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

Križanović, Krešimir ; Marinović, Mladen ; Bulović, Ana ; Vaser, Robert ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2016.
39th International Convention Mipro 2016, Distributed Computing, Visualization and Biomedical Engineering /DC VIS

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

Sović, Ivan ; Križanović, Krešimir ; Skala, Karolj ; Šikić, Mile
Znanstveni i pregledni radovi, 2016.

Fast and sensitive mapping of nanopore sequencing reads with GraphMap

Sović, Ivan ; Šikić, Mile ; Wilm Andreas ; Fenlon, Shannon Nicole ; Chen, Swaine
Znanstveni i pregledni radovi, 2016.

SIFT missense predictions for genomes

Vaser, Robert ; Adusumalli, Swarnaseetha ; Ngak Leng, Sim ; Šikić, Mile ; Ng, Pauline C.
Znanstveni i pregledni radovi, 2016.

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

Korpar, Matija ; Šošić, Martin ; Blažeka, Dino ; Šikić, Mile
Znanstveni i pregledni radovi, 2015.

Continuum model of gene expression

Novak, Andrej, Racz, Gabriela C. ; Sedmak, Goran ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2015.
Thirteenth International Seminar: Mathematical Models & Modeling in Laser Plasma Processes & Advanced Science Technologies

Some new results on assessment of Q-gram filter efficiency

Novak, Andrej ; Križanović, Krešimir ; Lančić, Alen ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2015.
International Symposium on Image and Signal Processing and Analysis (9 ; 2015))

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

Antulov-Fantulin, Nino ; Lančić, Alen ; Šmuc, Tomislav ; Štefančić, Hrvoje ; Šikić, Mile
Znanstveni i pregledni radovi, 2015.

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

Antulov-Fantulin, Nino ; Lančić, Alen ; Štefančić, Hrvoje ; Šikić, Mile ; Šmuc, Tomislav
Znanstveni radovi u zbornicima skupova, 2015.
IEEE Eighth International Conference on Self-Adaptive and Self-Organizing Systems Workshops

ExoLocator—an online view into genetic makeup of vertebrate proteins

Khoo, Aik-Aun ; Ogrizek-Tomaš, Mario ; Bulović, Ana ; Korpar, Matija ; Gurler, Ece ; Slijepčević, Ivan ; Šikić, Mile ; Mihalek, Ivana
Znanstveni i pregledni radovi, 2014.

Aspects of DNA Assembly Acceleration on Reconfigurable Platforms

Sović, Ivan ; Šikić, Mile ; Skala, Karolj
Znanstveni radovi u zbornicima skupova, 2013.
IT SYSTEMS 2013

Proteins and Nucleic Acids in Space and Time

Tomić, Sanja ; Brkić, Hrvoje ; Grabar Branilović, Marina ; Tomić, Antonija ; Branimir, Bertoša ; Mile, Šikić
Drugi radovi u zbornicima skupova, 2013.
Bioinformatics and biological physics

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

Šikić, Mile ; Lančić, Alen ; Antulov-Fantulin, Nino ; Štefančić, Hrvoje
Znanstveni i pregledni radovi, 2013.

Protein database search optimization based on CUDA and MPI

Pavlović, Dario ; Vaser, Robert ; Korpar, Matija ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2013.
The 36th international ICT convention MIPRO

SW#–GPU-enabled exact alignments on genome scale

Korpar, Matija ; Šikić, Mile
Znanstveni i pregledni radovi, 2013.

From Short to Long Reads: Benchmarking Assembly Tools

Sović, Ivan ; Skala, Karolj ; Šikić, Mile
Sažeci u zbornicima i časopisima, 2013.
ISMB/ECCB 2013

Approaches to DNA de novo Assembly

Sović, Ivan ; Skala, Karolj ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2013.
MIPRO

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

Antulov-Fantulin, Nino ; Lančić, Alen ; Štefančić, Hrvoje ; Šikić, Mile
Znanstveni i pregledni radovi, 2013.

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

Sandhu, Kuljeet Singh ; Li, Guoliang ; Poh, Huay Mei ; Quek , Yu Ling Kelly ; Sia , Yee Yen ; Peh, Su Qin ; Mulawadi, Fabianus Hendriyan ; Lim , Joanne ; Šikić, Mile ; Menghi, Francesca ; Thalamuthu, Anbupalam ; Sung , Wing Kin ; Ruan, Xiaoan ; Fullwood, Melissa Jane ; Liu, Edison ; Csermely , Peter ; Ruan, Yijun
Znanstveni i pregledni radovi, 2012.

BioMe : biologically relevant metals

Tus, Alan ; Rakipović, Alen ; Peretin, Goran ; Tomić, Sanja ; Šikić, Mile
Znanstveni i pregledni radovi, 2012.

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

Šošić, Matija ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2012.
35. međunarodni skup MIPRO

Prediction of interacting protein residues using sequence and structure data.

Franke, Vedran ; Šikić, Mile ; Vlahoviček, Kristian
Poglavlja u knjigama, 2012.

Epidemic centrality – identifying “superspreaders” in complex networks

Šikić, Mile ; Lančić, Alen ; Antulov-Fantulin, Nino ; Štefančić, Hrvoje
Sažeci u zbornicima i časopisima, 2011.
European Conference on Complex Systems 2011

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

Lančić, Alen ; Antulov-Fantulin, Nino ; Šikić, Mile ; Štefančić, Hrvoje
Znanstveni i pregledni radovi, 2011.

Parallel Protein Docking Tool

Sović, Ivan ; Antulov-Fantulin, Nino ; Čanadi, Igor ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2010.
International Convention on Information and Communication Technology, Electronics and Microelectronics (33 ; 2010)

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

Šikić, Mile ; Tomić, Sanja ; Vlahoviček, Kristian
Znanstveni i pregledni radovi, 2009.

Computational method for prediction of protein-protein interaction sites

Šikić, Mile
Doktorske disertacije, 2008.

Comparison of the RADIUS and Diameter Protocols

Stanke, Mladen ; Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2008.
Information Technology Interfaces, 2008. ITI 2008. 30th International Conference on

PSAIA - Protein Structure and Interaction Analyzer

Mihel, Josip ; Šikić, Mile ; Tomić, Sanja ; Jeren Branko ; Vlahoviček, Kristian
Znanstveni i pregledni radovi, 2008.

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

Dokmanić, Ivan ; Šikić, Mile ; Tomić, Sanja
Znanstveni i pregledni radovi, 2008.

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

Šikić, Mile ; Jeren, Branko ; Vlahoviček, Kristian
Sažeci u zbornicima i časopisima, 2007.
The 2nd Opatija Meeting on Computational Solutions in the Life Sciences

Correlating protein surface shape and hydrophobicity using spherical harmonical expansions

Dokmanić, Ivan ; Šikić, Mile ; Tomić, Sanja
Sažeci u zbornicima i časopisima, 2007.
The 2nd Opatija Meeting on Computational Solutions in the Life Sciences

Protecting and controlling Virtual LANs by Linux router-firewall

Katić, Tihomir ; Šikić, Mile ; Šikić, Krešimir
Znanstveni radovi u zbornicima skupova, 2005.
Information Technology Interfaces

Guidline to maintain an efficient email working environment

Šikić, Mile
Stručni radovi u zbornicima skupova, 2004.
E-biz 2004

Mobile content efficiency and business model

Šikić, Mile
Drugi radovi u zbornicima skupova, 2003.
Major Cities of Europe IT User's Group

WLAN securtiy

Šikić, Mile
Stručni radovi u zbornicima skupova, 2003.
KOM 2003, Komunikacijske tehnologije i norme u informatici

The content charging model in mobile packet networks

Šikić, Mile
Znanstveni radovi u zbornicima skupova, 2003.
MIPRO-2003

Content charging models in mobile packet networks

Šikić, Mile
Magistarski radovi, 2002.

Teaching duties

University undergraduate

University graduate

Postgraduate doctoral study programme

Competences

  • Computational and artificial intelligence
    Artificial intelligence Computation theory
  • Computers and information processing
    Network theory (graphs) DNA computing

Personal data

Graduation year:
1996.
mr.sc. graduation year:
2002.
PhD graduation year:
2008.
Employed in this institution since:
1997.