Computational identification of non-synonymous polymorphisms within regions corresponding to protein interaction sites. - Blaz Skrlj; Tanja Kunej (Comput. Biol. Medicine, 2016)

Community-Based Semantic Subgroup Discovery. - Blaz Skrlj; Jan Kralj; Anze Vavpetic; Nada Lavrac (NFMCP@PKDD/ECML, 2017)

BoBER: web interface to the base of bioisosterically exchangeable replacements. - Samo Lesnik; Blaz Skrlj; Nika Erzen; Urban Bren; Stanislav Gobec; Janez Konc; Dusanka Janezic (J. Cheminformatics, 2017)

GenProBiS: web server for mapping of sequence variants to protein binding sites. - Janez Konc; Blaz Skrlj; Nika Erzen; Tanja Kunej; Dusanka Janezic (Nucleic Acids Res., 2017)

Multilingual Gender Classification with Multi-view Deep Learning: Notebook for PAN at CLEF 2018. - Matej Martinc; Blaz Skrlj; Senja Pollak (CLEF (Working Notes), 2018)

Py3plex: A Library for Scalable Multilayer Network Analysis and Visualization. - Blaz Skrlj; Jan Kralj; Nada Lavrac (COMPLEX NETWORKS (1), 2018)

Targeted End-to-End Knowledge Graph Decomposition. - Blaz Skrlj; Jan Kralj; Nada Lavrac (ILP, 2018)

Who is Hot and Who is Not? Profiling Celebs on Twitter. - Matej Martinc; Blaz Skrlj; Senja Pollak (CLEF (Working Notes), 2019)

Fake or Not: Distinguishing between Bots, Males and Females. - Matej Martinc; Blaz Skrlj; Senja Pollak (CLEF (Working Notes), 2019)

Patterns of Multiplex Layer Entanglement Across Real and Synthetic Networks. - Blaz Skrlj; Benjamin Renoust (COMPLEX NETWORKS (2), 2019)

Symbolic Graph Embedding Using Frequent Pattern Mining. - Blaz Skrlj; Nada Lavrac; Jan Kralj (DS, 2019)

Prediction Uncertainty Estimation for Hate Speech Classification. - Kristian Miok; Dong Nguyen Doan; Blaz Skrlj; Daniela Zaharie; Marko Robnik-Sikonja (SLSP, 2019)

Language Comparison via Network Topology. - Blaz Skrlj; Senja Pollak (SLSP, 2019)

RaKUn: Rank-based Keyword Extraction via Unsupervised Learning and Meta Vertex Aggregation. - Blaz Skrlj; Andraz Repar; Senja Pollak (SLSP, 2019)

Py3plex toolkit for visualization and analysis of multilayer networks. - Blaz Skrlj; Jan Kralj; Nada Lavrac (Appl. Netw. Sci., 2019)

Deep Node Ranking: an Algorithm for Structural Network Embedding and End-to-End Classification. - Blaz Skrlj; Jan Kralj; Janez Konc; Marko Robnik-Sikonja; Nada Lavrac (CoRR, 2019)

CBSSD: community-based semantic subgroup discovery. - Blaz Skrlj; Jan Kralj; Nada Lavrac (J. Intell. Inf. Syst., 2019)

Towards Robust Text Classification with Semantics-Aware Recurrent Neural Architecture. - Blaz Skrlj; Jan Kralj; Nada Lavrac; Senja Pollak (Mach. Learn. Knowl. Extr., 2019)

Multilingual Detection of Fake News Spreaders via Sparse Matrix Factorization. - Boshko Koloski; Senja Pollak; Blaz Skrlj (CLEF (Working Notes), 2020)

Know your Neighbors: Efficient Author Profiling via Follower Tweets. - Boshko Koloski; Senja Pollak; Blaz Skrlj (CLEF (Working Notes), 2020)

Prediction of the Effects of Epidemic Spreading with Graph Neural Networks. - Sebastian Meznar; Nada Lavrac; Blaz Skrlj (COMPLEX NETWORKS (1), 2020)

COVID-19 Therapy Target Discovery with Context-Aware Literature Mining. - Matej Martinc; Blaz Skrlj; Sergej Pirkmajer; Nada Lavrac; Bojan Cestnik; Martin Marzidovsek; Senja Pollak (DS, 2020)

Feature Importance Estimation with Self-Attention Networks. - Blaz Skrlj; Saso Dzeroski; Nada Lavrac; Matej Petkovic (ECAI, 2020)

SNoRe: Scalable Unsupervised Learning of Symbolic Node Representations. - Sebastian Meznar; Nada Lavrac; Blaz Skrlj (IEEE Access, 2020)

Layer entanglement in multiplex, temporal multiplex, and coupled multilayer networks. - Blaz Skrlj; Benjamin Renoust (Appl. Netw. Sci., 2020)

AttViz: Online exploration of self-attention for transparent neural language modeling. - Blaz Skrlj; Nika Erzen; Shane Sheehan; Saturnino Luz; Marko Robnik-Sikonja; Senja Pollak (CoRR, 2020)

Predicting Generalization in Deep Learning via Metric Learning - PGDL Shared task. - Sebastian Meznar; Blaz Skrlj (CoRR, 2020)

Propositionalization and embeddings: two sides of the same coin. - Nada Lavrac; Blaz Skrlj; Marko Robnik-Sikonja (Mach. Learn., 2020)

Embedding-based Silhouette community detection. - Blaz Skrlj; Jan Kralj; Nada Lavrac (Mach. Learn., 2020)

Identification of COVID-19 Related Fake News via Neural Stacking. - Boshko Koloski; Timen Stepisnik Perdih; Senja Pollak; Blaz Skrlj (CONSTRAINT@AAAI, 2021)

Unsupervised Feature Ranking via Attribute Networks. - Urh Primozic; Blaz Skrlj; Saso Dzeroski; Matej Petkovic (DS, 2021)

Prioritization of COVID-19-Related Literature via Unsupervised Keyphrase Extraction and Document Representation Learning. - Blaz Skrlj; Marko Jukic; Nika Erzen; Senja Pollak; Nada Lavrac (DS, 2021)

BERT meets Shapley: Extending SHAP Explanations to Transformer-based Classifiers. - Enja Kokalj; Blaz Skrlj; Nada Lavrac; Senja Pollak; Marko Robnik-Sikonja (EACL (Hackashop), 2021)

Extending Neural Keyword Extraction with TF-IDF tagset matching. - Boshko Koloski; Senja Pollak; Blaz Skrlj; Matej Martinc (EACL (Hackashop), 2021)

Interesting cross-border news discovery using cross-lingual article linking and document similarity. - Boshko Koloski; Elaine Zosa; Timen Stepisnik Perdih; Blaz Skrlj; Tarmo Paju; Senja Pollak (EACL (Hackashop), 2021)

Zero-shot Cross-lingual Content Filtering: Offensive Language and Hate Speech Detection. - Andraz Pelicon; Ravi Shekhar; Matej Martinc; Blaz Skrlj; Matthew Purver; Senja Pollak (EACL (Hackashop), 2021)

EMBEDDIA Tools, Datasets and Challenges: Resources and Hackathon Contributions. - Senja Pollak; Marko Robnik-Sikonja; Matthew Purver; Michele Boggia; Ravi Shekhar; Marko Pranjic; Salla Salmela; Ivar Krustok; Tarmo Paju; Carl-Gustav Linden; Leo Leppänen; Elaine Zosa; et al. (EACL (Hackashop), 2021)

Exploring Neural Language Models via Analysis of Local and Global Self-Attention Spaces. - Blaz Skrlj; Shane Sheehan; Nika Erzen; Marko Robnik-Sikonja; Saturnino Luz; Senja Pollak (EACL (Hackashop), 2021)

Compressibility of Distributed Document Representations. - Blaz Skrlj; Matej Petkovic (ICDM, 2021)

JSI at the FinSim-2 task: Ontology-Augmented Financial Concept Classification. - Timen Stepisnik Perdih; Senja Pollak; Blaz Skrlj (WWW (Companion Volume), 2021)

Fuzzy Jaccard Index: A robust comparison of ordered lists. - Matej Petkovic; Blaz Skrlj; Dragi Kocev; Nikola Simidjievski (Appl. Soft Comput., 2021)

CaNDis: a web server for investigation of causal relationships between diseases, drugs and drug targets. - Blaz Skrlj; Nika Erzen; Nada Lavrac; Tanja Kunej; Janez Konc (Bioinform., 2021)

A comprehensive comparison of molecular feature representations for use in predictive modeling. - Tomaz Stepisnik; Blaz Skrlj; Jörg Wicker; Dragi Kocev (Comput. Biol. Medicine, 2021)

Transfer Learning for Node Regression Applied to Spreading Prediction. - Sebastian Meznar; Nada Lavrac; Blaz Skrlj (Complex Syst., 2021)

Semantic Reasoning from Model-Agnostic Explanations. - Timen Stepisnik Perdih; Nada Lavrac; Blaz Skrlj (CoRR, 2021)

Link Analysis meets Ontologies: Are Embeddings the Answer? - Sebastian Meznar; Matej Bevec; Nada Lavrac; Blaz Skrlj (CoRR, 2021)

tax2vec: Constructing Interpretable Features from Taxonomies for Short Text Classification. - Blaz Skrlj; Matej Martinc; Jan Kralj; Nada Lavrac; Senja Pollak (Comput. Speech Lang., 2021)

PubMed-Scale Chemical Concept Embeddings Reconstruct Physical Protein Interaction Networks. - Blaz Skrlj; Enja Kokalj; Nada Lavrac (Frontiers Res. Metrics Anal., 2021)

Ensemble- and distance-based feature ranking for unsupervised learning. - Matej Petkovic; Dragi Kocev; Blaz Skrlj; Saso Dzeroski (Int. J. Intell. Syst., 2021)

ProBiS-Dock Database: A Web Server and Interactive Web Repository of Small Ligand-Protein Binding Sites for Drug Design. - Janez Konc; Samo Lesnik; Blaz Skrlj; Dusanka Janezic (J. Chem. Inf. Model., 2021)

autoBOT: evolving neuro-symbolic representations for explainable low resource text classification. - Blaz Skrlj; Matej Martinc; Nada Lavrac; Senja Pollak (Mach. Learn., 2021)

Investigating cross-lingual training for offensive language detection. - Andraz Pelicon; Ravi Shekhar; Blaz Skrlj; Matthew Purver; Senja Pollak (PeerJ Comput. Sci., 2021)

Early detection of depression with linear models using hand-crafted and contextual features. - Ilija Tavchioski; Blaz Skrlj; Senja Pollak; Boshko Koloski (CLEF (Working Notes), 2022)

Retrieval-Efficiency Trade-Off of Unsupervised Keyword Extraction. - Blaz Skrlj; Boshko Koloski; Senja Pollak (DS, 2022)

Out of Thin Air: Is Zero-Shot Cross-Lingual Keyword Detection Better Than Unsupervised? - Boshko Koloski; Senja Pollak; Blaz Skrlj; Matej Martinc (LREC, 2022)

E8-IJS@LT-EDI-ACL2022 - BERT, AutoML and Knowledge-graph backed Detection of Depression. - Ilija Tavchioski; Boshko Koloski; Blaz Skrlj; Senja Pollak (LT-EDI, 2022)

Dynamic Surrogate Switching: Sample-Efficient Search for Factorization Machine Configurations in Online Recommendations. - Blaz Skrlj; Adi Schwartz; Jure Ferlez; Davorin Kopic; Naama Ziporin (RecSys, 2022)

To BAN or Not to BAN: Bayesian Attention Networks for Reliable Hate Speech Detection. - Kristian Miok; Blaz Skrlj; Daniela Zaharie; Marko Robnik-Sikonja (Cogn. Comput., 2022)

Deep node ranking for neuro-symbolic structural node embedding and classification. - Blaz Skrlj; Jan Kralj; Janez Konc; Marko Robnik-Sikonja; Nada Lavrac (Int. J. Intell. Syst., 2022)

Knowledge graph informed fake news classification via heterogeneous representation ensembles. - Boshko Koloski; Timen Stepisnik Perdih; Marko Robnik-Sikonja; Senja Pollak; Blaz Skrlj (Neurocomputing, 2022)

ProBiS-Dock: A Hybrid Multitemplate Homology Flexible Docking Algorithm Enabled by Protein Binding Site Comparison. - Janez Konc; Samo Lesnik; Blaz Skrlj; Matej Sova; Matic Proj; Damijan Knez; Stanislav Gobec; Dusanka Janezic (J. Chem. Inf. Model., 2022)

Relational tree ensembles and feature rankings. - Matej Petkovic; Michelangelo Ceci; Gianvito Pio; Blaz Skrlj; Kristian Kersting; Saso Dzeroski (Knowl. Based Syst., 2022)

ReliefE: feature ranking in high-dimensional spaces via manifold embeddings. - Blaz Skrlj; Saso Dzeroski; Nada Lavrac; Matej Petkovic (Mach. Learn., 2022)

TNT-KID: Transformer-based neural tagger for keyword identification. - Matej Martinc; Blaz Skrlj; Senja Pollak (Nat. Lang. Eng., 2022)

Ontology Completion with Graph-Based Machine Learning: A Comprehensive Evaluation. - Sebastian Meznar; Matej Bevec; Nada Lavrac; Blaz Skrlj (Mach. Learn. Knowl. Extr., 2022)

Inducing Document Representations from Graphs: A Blueprint. - Boshko Koloski; Marko Pranjic; Nada Lavrac; Blaz Skrlj; Senja Pollak (Tiny Papers @ ICLR, 2023)

Drifter: Efficient Online Feature Monitoring for Improved Data Integrity in Large-Scale Recommendation Systems. - Blaz Skrlj; Nir Ki-Tov; Lee Edelist; Natalia Silberstein; Hila Weisman-Zohar; Blaz Mramor; Davorin Kopic; Naama Ziporin (ORSUM@RecSys, 2023)

OutRank: Speeding up AutoML-based Model Search for Large Sparse Data sets with Cardinality-aware Feature Ranking. - Blaz Skrlj; Blaz Mramor (RecSys, 2023)

DDeMON: Ontology-based function prediction by Deep Learning from Dynamic Multiplex Networks. - Jan Kralj; Blaz Skrlj; Ziva Ramsak; Nada Lavrac; Kristina Gruden (CoRR, 2023)

Measuring Catastrophic Forgetting in Cross-Lingual Transfer Paradigms: Exploring Tuning Strategies. - Boshko Koloski; Blaz Skrlj; Marko Robnik-Sikonja; Senja Pollak (CoRR, 2023)

Latent Graph Powered Semi-Supervised Learning on Biomedical Tabular Data. - Boshko Koloski; Blaz Skrlj; Senja Pollak; Nada Lavrac (CoRR, 2023)

Multimodal AutoML via Representation Evolution. - Blaz Skrlj; Matej Bevec; Nada Lavrac (Mach. Learn. Knowl. Extr., 2023)

A Bag of Tricks for Scaling CPU-based Deep FFMs to more than 300m Predictions per Second. - Blaz Skrlj; Benjamin Ben-Shalom; Grega Gaspersic; Adi Schwartz; Ramzi Hoseisi; Naama Ziporin; Davorin Kopic; Andraz Tori (AdKDD@KDD, 2024)

AutoML-Guided Fusion of Entity and LLM-Based Representations for Document Classification. - Boshko Koloski; Senja Pollak; Roberto Navigli; Blaz Skrlj (DS (1), 2024)

AHAM: Adapt, Help, Ask, Model Harvesting LLMs for Literature Mining. - Boshko Koloski; Nada Lavrac; Bojan Cestnik; Senja Pollak; Blaz Skrlj; Andrej Kastrin (IDA (1), 2024)

Generating Diverse Synthetic Datasets for Evaluation of Real-life Recommender Systems. - Miha Malensek; Blaz Skrlj; Blaz Mramor; Jure Demsar (NORMalize@RecSys, 2024)

AutoML-guided Fusion of Entity and LLM-based representations. - Boshko Koloski; Senja Pollak; Roberto Navigli; Blaz Skrlj (CoRR, 2024)

ICML Topological Deep Learning Challenge 2024: Beyond the Graph Domain. - Guillermo Bernárdez; Lev Telyatnikov; Marco Montagna; Federica Baccini; Mathilde Papillon; Miquel Ferriol Galmés; Mustafa Hajij; Theodore Papamarkou; Maria Sofia Bucarelli; Olga Zaghen; Johan Mathe; Audun Myers; et al. (CoRR, 2024)

From Unimodal to Multimodal Machine Learning - An Overview - Blaz Skrlj (Springer, 2024)

Measuring Catastrophic Forgetting in Cross-Lingual Classification: Transfer Paradigms and Tuning Strategies. - Boshko Koloski; Blaz Skrlj; Marko Robnik-Sikonja; Senja Pollak (IEEE Access, 2025)

LLM Embeddings for Deep Learning on Tabular Data. - Boshko Koloski; Andrei Margeloiu; Xiangjian Jiang; Blaz Skrlj; Nikola Simidjievski; Mateja Jamnik (CoRR, 2025)

HorNets: learning from discrete and continuous signals with routing neural networks. - Boshko Koloski; Nada Lavrac; Blaz Skrlj (Mach. Learn., 2025)

From Symbolic to Neural and Back: Exploring Knowledge Graph-Large Language Model Synergies. - Blaz Skrlj; Boshko Koloski; Senja Pollak; Nada Lavrac (CoRR, 2025)

DCN^2: Interplay of Implicit Collision Weights and Explicit Cross Layers for Large-Scale Recommendation. - Blaz Skrlj; Yonatan Karni; Grega Gaspersic; Blaz Mramor; Yulia Stolin; Martin Jakomin; Jasna Urbancic; Yuval Dishi; Natalia Silberstein; Ophir Friedler; Assaf Klein (CoRR, 2025)

FuDoBa: Fusing Document and Knowledge Graph-based Representations with Bayesian Optimisation. - Boshko Koloski; Senja Pollak; Roberto Navigli; Blaz Skrlj (CoRR, 2025)

Agent0: Leveraging LLM Agents to Discover Multi-value Features from Text for Enhanced Recommendations. - Blaz Skrlj; Benoît Guilleminot; Andraz Tori (CoRR, 2025)

TT-XAI: Trustworthy Clinical Text Explanations via Keyword Distillation and LLM Reasoning. - Kristian Miok; Blaz Skrlj; Daniela Zaharie; Marko Robnik-Sikonja (CoRR, 2025)