Publications

@article{info:hdl:2013/296188b,

title = {Digenic inheritance of human primary microcephaly delineates centrosomal and non centrosomal pathways.},

author = {Sarah Duerinckx and Valérie Jacquemin and Séverine Drunat and Yoann Vial and Sandrine Passemard and Camille Perazzolo and Annick Massart and Julie Soblet and Judith Racapé and Laurence Desmyter and Cindy Badoer and Sofia Papadimitriou and Yann-A"el Le Borgne and Anne Lefort and Frédérick Libert and Viviane De Maertelaer and Marianne Rooman and Sabine Costagliola and Alain Verloes and Tom Lenaerts and Isabelle Pirson and Marc Abramowicz},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/296188},

year  = {2020},

date = {2020-01-01},

journal = {Human mutation},

volume = {41},

number = {2},

pages = {512-524},

note = {DOI: 10.1002/humu.23948},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/305060b,

title = {Retinal endothelial cell phenotypic modifications during experimental autoimmune uveitis: A transcriptomic approach},

author = {Deborah Lipski and Vincent Foucart and Remi Dewispelaere and Laure Caspers and Matthieu Defrance and Catherine Bruyns and Francois Willermain},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/305060},

year  = {2020},

date = {2020-01-01},

journal = {BMC ophthalmology},

volume = {20},

number = {1},

note = {DOI: 10.1186/s12886-020-1333-5},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/319033b,

title = {To regulate or not: A social dynamics analysis of an idealised ai race},

author = {The Anh T. A. H. Han and Luís Marcelo Pereira and Francisco C. Santos and Tom Lenaerts},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/319033},

year  = {2020},

date = {2020-01-01},

journal = {The journal of artificial intelligence research},

volume = {69},

pages = {881-921},

note = {DOI: 10.1613/JAIR.1.12225},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316017b,

title = {Combining single-cell RNA-sequencing with a molecular atlas unveils new markers for Caenorhabditis elegans neuron classes},

author = {Ramiro Lorenzo and Michiho Onizuka and Matthieu Defrance and Patrick Laurent},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/316017},

year  = {2020},

date = {2020-01-01},

journal = {Nucleic acids research},

note = {DOI: 10.1093/nar/gkaa486},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/312458,

title = {Circulating unmethylated CHTOP and INS DNA fragments provide evidence of possible islet cell death in youth with obesity and diabetes},

author = {Farooq Syed and Sarah SA Tersey and Jean Valéry Turatsinze and Jamie J. L. Felton and Nicole Jiyun Kang and Jennifer J. B. Nelson and Emily EK Sims and Matthieu Defrance and Martin Bizet and Franccois Fuks and Miriam Cnop and Marco Bugliani and Piero Marchetti and Anette Gabriele Ziegler and Ezio Bonifacio and Bobbie Jo B. J. M. Webb-Robertson and Appakalai A. N. Balamurugan and Carmella Evans-Molina and Decio L. Eizirik and Kieren K. J. Mather and Silva Arslanian and Raghavendra R. G. Mirmira},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/312458},

year  = {2020},

date = {2020-01-01},

journal = {Clinical Epigenetics},

volume = {12},

number = {1},

pages = {116},

note = {DOI: 10.1186/s13148-020-00906-5},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/313051b,

title = {Do people imitate when making decisions? Evidence from a spatial Prisoner's Dilemma experiment: Do people imitate when making decisions},

author = {Jelena Grujić and Tom Lenaerts},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/313051},

year  = {2020},

date = {2020-01-01},

journal = {Royal Society open science},

volume = {7},

number = {7},

note = {DOI: 10.1098/rsos.200618},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/312667b,

title = {Infiltrative tumour growth pattern correlates with poor outcome in oesophageal cancer.},

author = {Ma"elle Anciaux and Pieter Demetter and Roland De Wind and Maria Gomez Galdon and Sylvie Vande Velde and Gaspard Lens and Ligia Ioana Ruscas-Craciun and Amélie Deleruelle and Denis Larsimont and Tom Lenaerts and Francesco Sclafani and Amélie Deleporte and Vincent Donckier and Alain Hendlisz and Caroline Vandeputte},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/312667},

year  = {2020},

date = {2020-01-01},

journal = {BMJ open gastroenterology},

volume = {7},

number = {1},

note = {DOI: 10.1136/bmjgast-2020-000431},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316645,

title = {Correction for Optimisation Bias in Structured Sparse High-Dimensional Variable Selection},

author = {Bastien Marquis and Maarten Jansen},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/316645},

year  = {2020},

date = {2020-01-01},

journal = {Springer Proceedings in Mathematics and Statistics},

volume = {339},

pages = {357-365},

note = {DOI: 10.1007/978-3-030-57306-5_32},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316619,

title = {Density Estimation Using Multiscale Local Polynomial Transforms},

author = {Maarten Jansen},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/316619},

year  = {2020},

date = {2020-01-01},

journal = {Springer Proceedings in Mathematics and Statistics},

volume = {339},

pages = {249-260},

note = {DOI: 10.1007/978-3-030-57306-5_23},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/314435b,

title = {Robust Assessment of Short-Term Wind Power Forecasting Models on Multiple Time Horizons},

author = {Fabrizio De Caro and Jacopo De Stefani and Gianluca Bontempi and Alfredo A. Vaccaro and Domenico D. Villacci},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/314435},

year  = {2020},

date = {2020-01-01},

journal = {Technology and Economics of Smart Grids and Sustainable Energy},

volume = {5},

number = {1},

note = {DOI: 10.1007/s40866-020-00090-8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/322914b,

title = {Mg deficiency interacts with the circadian clock and phytochromes pathways in Arabidopsis},

author = {Quentin Rivi`ere and Qiying Xiao and Annelie Gutsch and Matthieu Defrance and A. A. R. Webb and Nathalie Verbruggen},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/322914},

year  = {2020},

date = {2020-01-01},

journal = {Annals of Applied Biology},

volume = {178},

number = {2},

pages = {387-399},

note = {DOI: 10.1111/aab.12659},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/313950,

title = {Robust Assessment of Short-Term Wind Power Forecasting Models on Multiple Time Horizons},

author = {Fabrizio De Caro and Jacopo De Stefani and Gianluca Bontempi and Alfredo A. Vaccaro and Domenico D. Villacci},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/313950},

year  = {2020},

date = {2020-01-01},

journal = {Technology and Economics of Smart Grids and Sustainable Energy},

volume = {5},

number = {1},

note = {DOI: 10.1007/s40866-020-00090-8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/317394b,

title = {Hyperscanning EEG and Classification Based on Riemannian Geometry for Festive and Violent Mental State Discrimination},

author = {Cédric Simar and Ana Maria Cebolla and Ga"elle Chartier and Mathieu Petieau and Gianluca Bontempi and Alain Berthoz and Guy Cheron},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/317394},

year  = {2020},

date = {2020-01-01},

journal = {Frontiers in Neuroscience},

volume = {14},

note = {DOI: 10.3389/fnins.2020.588357},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/301750b,

title = {Interpreting pathways to discover cancer driver genes with Moonlight},

author = {Antonio Colaprico and Catharina Olsen and Matthew Bailey and Gabriel G. J. Odom and Thilde Terkelsen and Tiago Chedraoui Silva and André Vidas Olsen and Laura Cantini and Andrey Zinovyev and Emmanuel Barillot and Houtan Noushmehr and Gloria Bertoli and Isabella Castiglioni and Claudia Cava and Gianluca Bontempi and Xi Steven Chen and Elena Papaleo},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/301750},

year  = {2020},

date = {2020-01-01},

journal = {Nature communications},

volume = {11},

number = {1},

note = {DOI: 10.1038/s41467-019-13803-0},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/336088,

title = {From digenic combinations to oligogenic networks via a new predictive approach},

author = {Tom Lenaerts},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/336088},

year  = {2020},

date = {2020-01-01},

journal = {European journal of human genetics},

volume = {28},

number = {1},

note = {DOI: 10.1038/s41431-020-00740-6},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/315240b,

title = {Timing Uncertainty in Collective Risk Dilemmas Encourages Group Reciprocation and Polarization},

author = {Elias Fernández Domingos and Jelena Grujić and Juan J. C. Burguillo and Georg Kirchsteiger and Francisco C. Santos and Tom Lenaerts},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/315240},

year  = {2020},

date = {2020-01-01},

journal = {iScience},

volume = {23},

number = {12},

note = {DOI: 10.1016/j.isci.2020.101752},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/308993b,

title = {Dynamic contact networks of patients and MRSA spread in hospitals},

author = {Luis Mateus Rocha and Vikramjit Singh and Markus Esch and Tom Lenaerts and Fredrik Liljeros and Anna Thorson},

url = {http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/308993},

year  = {2020},

date = {2020-01-01},

journal = {Scientific reports},

volume = {10},

number = {1},

note = {DOI: 10.1038/s41598-020-66270-9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/314435,

title = {Robust Assessment of Short-Term Wind Power Forecasting Models on Multiple Time Horizons},

author = {Fabrizio De Caro and Jacopo De Stefani and Gianluca Bontempi and Alfredo A Vaccaro and Domenico D Villacci},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/314435/1/doi_298079.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Technology and Economics of Smart Grids and Sustainable Energy},

volume = {5},

number = {1},

abstract = {The massive penetration of renewable power generation in modern power grids is an effective way to reduce the impact of energy production on global warming. Unfortunately, the wind power generation may affect the regular operation of electrical systems, due to the stochastic and intermittent nature of the wind. For this reason, reducing the uncertainty about the wind evolution, e.g. by using short-term wind power forecasting methodologies, is a priority for system operators and wind producers to implement low-carbon power grids. Unfortunately, though the complexity of this task implies the comparison of several alternative forecasting methodologies and dimensionality reduction techniques, a general and robust procedure of model assessment still lacks in literature. In this paper the authors propose a robust methodology, based on extensive statistical analysis and resampling routines, to supply the most effective wind power forecasting method by testing a vast ensemble of methodologies over multiple time-scales and on a real case study. Experimental results on real data collected in an Italian wind farm show the potential of ensemble approaches integrating both statistical and machine learning methods.},

note = {DOI: 10.1007/s40866-020-00090-8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/317394,

title = {Hyperscanning EEG and Classification Based on Riemannian Geometry for Festive and Violent Mental State Discrimination},

author = {Cédric Simar and Ana Maria Cebolla and Ga{"e}lle Chartier and Mathieu Petieau and Gianluca Bontempi and Alain Berthoz and Guy Cheron},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/317394/3/pdf},

year  = {2020},

date = {2020-01-01},

journal = {Frontiers in Neuroscience},

volume = {14},

abstract = {Interactions between two brains constitute the essence of social communication. Daily movements are commonly executed during social interactions and are determined by different mental states that may express different positive or negative behavioral intent. In this context, the effective recognition of festive or violent intent before the action execution remains crucial for survival. Here, we hypothesize that the EEG signals contain the distinctive features characterizing movement intent already expressed before movement execution and that such distinctive information can be identified by state-of-the-art classification algorithms based on Riemannian geometry. We demonstrated for the first time that a classifier based on covariance matrices and Riemannian geometry can effectively discriminate between neutral, festive, and violent mental states only on the basis of non-invasive EEG signals in both the actor and observer participants. These results pave the way for new electrophysiological discrimination of mental states based on non-invasive EEG recordings and cutting-edge machine learning techniques.},

note = {DOI: 10.3389/fnins.2020.588357},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/301750,

title = {Interpreting pathways to discover cancer driver genes with Moonlight},

author = {Antonio Colaprico and Catharina Olsen and Matthew Bailey and Gabriel G J Odom and Thilde Terkelsen and Tiago Chedraoui Silva and André Vidas Olsen and Laura Cantini and Andrey Zinovyev and Emmanuel Barillot and Houtan Noushmehr and Gloria Bertoli and Isabella Castiglioni and Claudia Cava and Gianluca Bontempi and Xi Steven Chen and Elena Papaleo},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/301750/1/doi_285394.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Nature communications},

volume = {11},

number = {1},

abstract = {Cancer driver gene alterations influence cancer development, occurring in oncogenes, tumor suppressors, and dual role genes. Discovering dual role cancer genes is difficult because of their elusive context-dependent behavior. We define oncogenic mediators as genes controlling biological processes. With them, we classify cancer driver genes, unveiling their roles in cancer mechanisms. To this end, we present Moonlight, a tool that incorporates multiple -omics data to identify critical cancer driver genes. With Moonlight, we analyze 8000+ tumor samples from 18 cancer types, discovering 3310 oncogenic mediators, 151 having dual roles. By incorporating additional data (amplification, mutation, DNA methylation, chromatin accessibility), we reveal 1000+ cancer driver genes, corroborating known molecular mechanisms. Additionally, we confirm critical cancer driver genes by analysing cell-line datasets. We discover inactivation of tumor suppressors in intron regions and that tissue type and subtype indicate dual role status. These findings help explain tumor heterogeneity and could guide therapeutic decisions.},

note = {DOI: 10.1038/s41467-019-13803-0},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/296188,

title = {Digenic inheritance of human primary microcephaly delineates centrosomal and non centrosomal pathways.},

author = {Sarah Duerinckx and Valérie Jacquemin and Séverine Drunat and Yoann Vial and Sandrine Passemard and Camille Perazzolo and Annick Massart and Julie Soblet and Judith Racapé and Laurence Desmyter and Cindy Badoer and Sofia Papadimitriou and Yann-A{"e}l Le Borgne and Anne Lefort and Frédérick Libert and Viviane De Maertelaer and Marianne Rooman and Sabine Costagliola and Alain Verloes and Tom Lenaerts and Isabelle Pirson and Marc Abramowicz},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/296188/4/Supp_Mat.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Human mutation},

volume = {41},

number = {2},

pages = {512-524},

abstract = {Primary Microcephaly (PM) is characterized by a small head since birth and is vastly heterogeneous both genetically and phenotypically. While most cases are monogenic, genetic interactions between Aspm and Wdr62 have recently been described in a mouse model of PM. Here, we used two complementary, holistic in vivo approaches: high throughput DNA sequencing of multiple PM genes in human PM patients, and genome-edited zebrafish modeling for digenic inheritance of PM. Exomes of PM patients showed a significant burden of variants in 75 PM genes, that persisted after removing monogenic causes of PM (e.g., biallelic pathogenic variants in CEP152). This observation was replicated in an independent cohort of PM patients, where a PM gene panel showed in addition that the burden was carried by six centrosomal genes. Allelic frequencies were consistent with digenic inheritance. In zebrafish, non-centrosomal gene casc5 -/- produced a severe PM phenotype, that was not modified by centrosomal genes aspm or wdr62 invalidation. A digenic, quadriallelic PM phenotype was produced by aspm and wdr62. Our observations provide strong evidence for digenic inheritance of human PM, involving centrosomal genes. Absence of genetic interaction between casc5 and aspm or wdr62 further delineates centrosomal and non-centrosomal pathways in PM. This article is protected by copyright. All rights reserved.},

note = {DOI: 10.1002/humu.23948},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/308993,

title = {Dynamic contact networks of patients and MRSA spread in hospitals},

author = {Luis Mateus Rocha and Vikramjit Singh and Markus Esch and Tom Lenaerts and Fredrik Liljeros and Anna Thorson},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/308993/1/doi_292637.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Scientific reports},

volume = {10},

number = {1},

abstract = {Methicillin-resistant Staphylococcus aureus (MRSA) is a difficult-to-treat infection. Increasing efforts have been taken to mitigate the epidemics and to avoid potential outbreaks in low endemic settings. Understanding the population dynamics of MRSA is essential to identify the causal mechanisms driving the epidemics and to generalise conclusions to different contexts. Previous studies neglected the temporal structure of contacts between patients and assumed homogeneous behaviour. We developed a high-resolution data-driven contact network model of interactions between 743,182 patients in 485 hospitals during 3,059 days to reproduce the exact contact sequences of the hospital population. Our model captures the exact spatial and temporal human contact behaviour and the dynamics of referrals within and between wards and hospitals at a large scale, revealing highly heterogeneous contact and mobility patterns of individual patients. A simulation exercise of epidemic spread shows that heterogeneous contacts cause the emergence of super-spreader patients, slower than exponential polynomial growth of the prevalence, and fast epidemic spread between wards and hospitals. In our simulated scenarios, screening upon hospital admittance is potentially more effective than reducing infection probability to reduce the final outbreak size. Our findings are useful to understand not only MRSA spread but also other hospital-acquired infections.},

note = {DOI: 10.1038/s41598-020-66270-9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/312667,

title = {Infiltrative tumour growth pattern correlates with poor outcome in oesophageal cancer.},

author = {Ma{"e}lle Anciaux and Pieter Demetter and Roland De Wind and Maria Gomez Galdon and Sylvie Vande Velde and Gaspard Lens and Ligia Craciun and Amélie Deleruelle and Denis Larsimont and Tom Lenaerts and Francesco Sclafani and Amélie Deleporte and Vincent Donckier and Alain Hendlisz and Caroline Vandeputte},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/312667/1/doi_296311.pdf},

year  = {2020},

date = {2020-01-01},

journal = {BMJ open gastroenterology},

volume = {7},

number = {1},

abstract = {Oesophageal cancer (OEC) is an aggressive disease with a poor survival rate. Prognostic markers are thus urgently needed. Due to the demonstrated prognostic value of histopathological growth pattern (HGP) in other cancers, we performed a retrospective assessment of HGP in patients suffering from invasive OEC.},

note = {DOI: 10.1136/bmjgast-2020-000431},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/313051,

title = {Do people imitate when making decisions? Evidence from a spatial Prisoner's Dilemma experiment: Do people imitate when making decisions},

author = {Jelena Gruji{'c} and Tom Lenaerts},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/313051/3/rsos.200618.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Royal Society open science},

volume = {7},

number = {7},

abstract = {How do people decide which action to take? This question is best answered using Game Theory, which has proposed a series of decision-making mechanisms that people potentially use. In network simulations, wherein games are repeated and pay-off differences can be observed, those mechanisms often rely on imitation of successful behaviour. Surprisingly, little to no evidence has been provided about whether people actually imitate more successful opponents when altering their actions in that context. By comparing two experimental treatments wherein participants play the iterated Prisoner's Dilemma game in a lattice, we aim to answer whether more successful actions are imitated. While in the first treatment, participants have the possibility to use pay-off differences in making their decision, the second treatment hinders such imitation as no information about the gains is provided. If imitation of the more successful plays a role then there should be a difference in how players switch from cooperation to defection between both treatments. Although, cooperation and pay-off levels do not appear to be significantly different between both treatments, detailed analysis shows that there are behavioural differences: when confronted with a more successful co-player, the focal player will imitate her behaviour as the switching is related to the experienced pay-off inequality.},

note = {DOI: 10.1098/rsos.200618},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/315240,

title = {Timing Uncertainty in Collective Risk Dilemmas Encourages Group Reciprocation and Polarization},

author = {Elias Fernández Domingos and Jelena Gruji{'c} and Juan J C Burguillo and Georg Kirchsteiger and Francisco C Santos and Tom Lenaerts},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/315240/1/doi_298884.pdf},

year  = {2020},

date = {2020-01-01},

journal = {iScience},

volume = {23},

number = {12},

abstract = {Social dilemmas are often shaped by actions involving uncertain returns only achievable in the future, such as climate action or voluntary vaccination. In this context, uncertainty may produce non-trivial effects. Here, we assess experimentally --- through a collective risk dilemma --- the effect of timing uncertainty, i.e. how uncertainty about when a target needs to be reached affects the participants' behaviors. We show that timing uncertainty prompts not only early generosity but also polarized outcomes, where participants' total contributions are distributed unevenly. Furthermore, analyzing participants' behavior under timing uncertainty reveals an increase in reciprocal strategies. A data-driven game-theoretical model captures the self-organizing dynamics underpinning these behavioral patterns. Timing uncertainty thus casts a shadow on the future that leads participants to respond early, whereas reciprocal strategies appear to be important for group success. Yet, the same uncertainty also leads to inequity and polarization, requiring the inclusion of new incentives handling these societal issues.},

note = {DOI: 10.1016/j.isci.2020.101752},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316598,

title = {How Expert Confidence Can Improve Collective Decision-Making in Contextual Multi-Armed Bandit Problems},

author = {Axel Abels and Tom Lenaerts and Vito Trianni and Ann Nowe},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/316598/4/howexpertconfidence.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Lecture notes in computer science},

volume = {12496 LNAI},

pages = {125-138},

abstract = {In collective decision-making (CDM) a group of experts with a shared set of values and a common goal must combine their knowledge to make a collectively optimal decision. Whereas existing research on CDM primarily focuses on making binary decisions, we focus here on CDM applied to solving contextual multi-armed bandit (CMAB) problems, where the goal is to exploit contextual information to select the best arm among a set. To address the limiting assumptions of prior work, we introduce confidence estimates and propose a novel approach to deciding with expert advice which can take advantage of these estimates. We further show that, when confidence estimates are imperfect, the proposed approach is more robust than the classical confidence-weighted majority vote.},

note = {DOI: 10.1007/978-3-030-63007-2_10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316605,

title = {Collective Decision-Making as a Contextual Multi-armed Bandit Problem},

author = {Axel Abels and Tom Lenaerts and Vito Trianni and Ann Nowe},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/316605/5/colascdm.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Lecture notes in computer science},

volume = {12496 LNAI},

pages = {113-124},

abstract = {Collective decision-making (CDM) processes -- wherein the knowledge of a group of individuals with a common goal must be combined to make optimal decisions -- can be formalized within the framework of the deciding with expert advice setting. Traditional approaches to tackle this problem focus on finding appropriate weights for the individuals in the group. In contrast, we propose here meta-CMAB, a meta approach that learns a mapping from expert advice to expected outcomes. In summary, our work reveals that, when trying to make the best choice in a problem with multiple alternatives, meta-CMAB assures that the collective knowledge of experts leads to the best outcome without the need for accurate confidence estimates.},

note = {DOI: 10.1007/978-3-030-63007-2_9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/319033,

title = {To regulate or not: A social dynamics analysis of an idealised ai race},

author = {The Anh T A H Han and Lu{'i}s Marcelo Pereira and Francisco C Santos and Tom Lenaerts},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/319033/17/1907-12393.pdf},

year  = {2020},

date = {2020-01-01},

journal = {The journal of artificial intelligence research},

volume = {69},

pages = {881-921},

abstract = {Rapid technological advancements in Artificial Intelligence (AI), as well as the growing deployment of intelligent technologies in new application domains, have generated serious anxiety and a fear of missing out among different stake-holders, fostering a racing narrative. Whether real or not, the belief in such a race for domain supremacy through AI, can make it real simply from its consequences, as put forward by the Thomas theorem. These consequences may be negative, as racing for technological supremacy creates a complex ecology of choices that could push stake-holders to underestimate or even ignore ethical and safety procedures. As a consequence, different actors are urging to consider both the normative and social impact of these technological advancements, contemplating the use of the precautionary principle in AI innovation and research. Yet, given the breadth and depth of AI and its advances, it is difficult to assess which technology needs regulation and when. As there is no easy access to data describing this alleged AI race, theoretical models are necessary to understand its potential dynamics, allowing for the identification of when procedures need to be put in place to favour outcomes beneficial for all. We show that, next to the risks of setbacks and being reprimanded for unsafe behaviour, the time-scale in which domain supremacy can be achieved plays a crucial role. When this can be achieved in a short term, those who completely ignore the safety precautions are bound to win the race but at a cost to society, apparently requiring regulatory actions. Our analysis reveals that imposing regulations for all risk and timing conditions may not have the anticipated effect as only for specific conditions a dilemma arises between what is individually preferred and globally beneficial. Similar observations can be made for the long-term development case. Yet different from the short-term situation, conditions can be identified that require the promotion of risk-taking as opposed to compliance with safety regulations in order to improve social welfare. These results remain robust both when two or several actors are involved in the race and when collective rather than individual setbacks are produced by risk-taking behaviour. When defining codes of conduct and regulatory policies for applications of AI, a clear understanding of the time-scale of the race is thus required, as this may induce important non-trivial effects.},

note = {DOI: 10.1613/JAIR.1.12225},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/316017,

title = {Combining single-cell RNA-sequencing with a molecular atlas unveils new markers for Caenorhabditis elegans neuron classes},

author = {Ramiro Lorenzo and Michiho Onizuka and Matthieu Defrance and Patrick Laurent},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/316017/1/doi_299661.pdf},

year  = {2020},

date = {2020-01-01},

journal = {Nucleic acids research},

abstract = {Abstract Single-cell RNA-sequencing (scRNA-seq) of the Caenorhabditis elegans nervous system offers the unique opportunity to obtain a partial expression profile for each neuron within a known connectome. Building on recent scRNA-seq data and on a molecular atlas describing the expression pattern of ∼800 genes at the single cell resolution, we designed an iterative clustering analysis aiming to match each cell-cluster to the ∼100 anatomically defined neuron classes of C. elegans. This heuristic approach successfully assigned 97 of the 118 neuron classes to a cluster. Sixty two clusters were assigned to a single neuron class and 15 clusters grouped neuron classes sharing close molecular signatures. Pseudotime analysis revealed a maturation process occurring in some neurons (e.g. PDA) during the L2 stage. Based on the molecular profiles of all identified neurons, we predicted cell fate regulators and experimentally validated unc-86 for the normal differentiation of RMG neurons. Furthermore, we observed that different classes of genes functionally diversify sensory neurons, interneurons and motorneurons. Finally, we designed 15 new neuron class-specific promoters validated in vivo. Amongst them, 10 represent the only specific promoter reported to this day, expanding the list of neurons amenable to genetic manipulations.},

note = {DOI: 10.1093/nar/gkaa486},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{info:hdl:2013/305060,

title = {Retinal endothelial cell phenotypic modifications during experimental autoimmune uveitis: A transcriptomic approach},

author = {D Lipski and Vincent Foucart and Remi Dewispelaere and Laure Caspers and Matthieu Defrance and Catherine Bruyns and Francois Willermain},

url = {https://dipot.ulb.ac.be/dspace/bitstream/2013/305060/1/doi_288704.pdf},

year  = {2020},

date = {2020-01-01},

journal = {BMC ophthalmology},

volume = {20},

number = {1},

abstract = {Background: Blood-retinal barrier cells are known to exhibit a massive phenotypic change during experimental autoimmune uveitis (EAU) development. In an attempt to investigate the mechanisms of blood-retinal barrier (BRB) breakdown at a global level, we studied the gene regulation of total retinal cells and retinal endothelial cells during non-infectious uveitis. Methods: Retinal endothelial cells were isolated by flow cytometry either in Tie2-GFP mice (CD31+ CD45- GFP+ cells), or in wild type C57BL/6 mice (CD31+ CD45- endoglin+ cells). EAU was induced in C57BL/6 mice by adoptive transfer of IRBP1-20-specific T cells. Total retinal cells and retinal endothelial cells from na"ive and EAU mice were sorted and their gene expression compared by RNA-Seq. Protein expression of selected genes was validated by immunofluorescence on retinal wholemounts and cryosections and by flow cytometry. Results: Retinal endothelial cell sorting in wild type C57BL/6 mice was validated by comparative transcriptome analysis with retinal endothelial cells sorted from Tie2-GFP mice, which express GFP under the control of the endothelial-specific receptor tyrosine kinase promoter Tie2. RNA-Seq analysis of total retinal cells mainly brought to light upregulation of genes involved in antigen presentation and T cell activation during EAU. Specific transcriptome analysis of retinal endothelial cells allowed us to identify 82 genes modulated in retinal endothelial cells during EAU development. Protein expression of 5 of those genes (serpina3n, lcn2, ackr1, lrg1 and lamc3) was validated at the level of inner BRB cells. Conclusion: Those data not only confirm the involvement of known pathogenic molecules but further provide a list of new candidate genes and pathways possibly implicated in inner BRB breakdown during non-infectious posterior uveitis.},

note = {DOI: 10.1186/s12886-020-1333-5},

keywords = {},

pubstate = {published},

tppubtype = {article}

}