CFinder: locating cliques and overlapping modules in biological networks. - Balázs Adamcsek; Gergely Palla; Illés J. Farkas; Imre Derényi; Tamás Vicsek (Bioinform., 2006)

Topological basis of signal integration in the transcriptional-regulatory network of the yeast, Saccharomyces cerevisiae. - Illés J. Farkas; Chuang Wu; Chakra Chennubhotla 001; Ivet Bahar; Zoltán N. Oltvai (BMC Bioinform., 2006)

Human microRNAs co-silence in well-separated groups and have different predicted essentialities. - Gábor Boross; Katalin Orosz; Illés J. Farkas (Bioinform., 2009)

Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery. - Tamás Korcsmáros; Illés J. Farkas; Mate S. Szalay; Petra Rovó; Dávid Fazekas; Zoltán Spiró; Csaba Böde; Katalin Lenti; Tibor Vellai; Peter Csermely (Bioinform., 2010)

SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks. - Dávid Fazekas; Mihály Koltai; Dénes Türei; Dezsö Módos; Máté Pálfy; Zoltán Dúl; Lilian Zsákai; Máté Szalay-Beko; Katalin Lenti; Illés J. Farkas; Tibor Vellai; Peter Csermely; et al. (BMC Syst. Biol., 2013)

Scientometrics: Untangling the topics. - Adam Szanto-Varnagy; Péter Pollner; Tamás Vicsek; Illés J. Farkas (CoRR, 2014)

Collective Crowd Formation Transform with Mutual Information-Based Runtime Feedback. - Mingliang Xu; Yunpeng Wu; Yangdong Ye; Illés J. Farkas; Hao Jiang 013; Zhigang Deng 001 (Comput. Graph. Forum, 2015)

Quantifying the changing role of past publications. - Katalin Orosz; Illés J. Farkas; Péter Pollner (Scientometrics, 2016)

SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks. - Luca Csabai; Dávid Fazekas; Tamás Kadlecsik; Máté Szalay-Beko; Balázs Bohár; Matthew Madgwick; Dezsö Módos; Marton Olbei; Lejla Gul; Padhmanand Sudhakar; János Kubisch; Oyebode J. Oyeyemi; et al. (Nucleic Acids Res., 2022)