Filipi N. Silva
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View article: Detectability threshold in weighted modular networks
Detectability threshold in weighted modular networks Open
We study the necessary condition to detect, by means of spectral modularity optimization, the ground-truth partition in networks generated according to the weighted planted-partition model with two equally sized communities. We analyticall…
View article: Recovering link-weight structure in complex networks with weight-aware random walks
Recovering link-weight structure in complex networks with weight-aware random walks Open
Using edge weights is essential for modeling real-world systems where links possess relevant information, and preserving this information in low-dimensional representations is relevant for classification and prediction tasks. This paper sy…
View article: Leveraging GANs for citation intent classification and its impact on citation network analysis
Leveraging GANs for citation intent classification and its impact on citation network analysis Open
Citations play a fundamental role in the scientific ecosystem, serving as a foundation for tracking the flow of knowledge, acknowledging prior work, and assessing scholarly influence. In scientometrics, they are also central to the constru…
View article: Editorial: Science of science: a complex network perspective
Editorial: Science of science: a complex network perspective Open
View article: Cell Type Differentiation Using Network Clustering Algorithms
Cell Type Differentiation Using Network Clustering Algorithms Open
Single cell RNA-seq (scRNA-seq) technologies provide unprecedented resolution representing transcriptomics at the level of single cell. One of the biggest challenges in scRNA-seq data analysis is the cell type annotation, which is usually …
View article: Measuring Research Interest Similarity with Transition Probabilities
Measuring Research Interest Similarity with Transition Probabilities Open
We introduce a family of paper and author similarity measures based on the concept that papers are more similar if they are more likely to be retrieved during a literature search following backward and forward citations. Since this browsin…
View article: Predicting citation impact of research papers using GPT and other text embeddings
Predicting citation impact of research papers using GPT and other text embeddings Open
The impact of research papers, typically measured in terms of citation counts, depends on several factors, including the reputation of the authors, journals, and institutions, in addition to the quality of the scientific work. In this pape…
View article: Author Correction: brainlife.io: a decentralized and open-source cloud platform to support neuroscience research
Author Correction: brainlife.io: a decentralized and open-source cloud platform to support neuroscience research Open
View article: Comparing biased random walks in graph embedding and link prediction
Comparing biased random walks in graph embedding and link prediction Open
Random walks find extensive application across various complex network domains, including embedding generation and link prediction. Despite the widespread utilization of random walks, the precise impact of distinct biases on embedding gene…
View article: Identifying the perceived local properties of networks reconstructed from biased random walks
Identifying the perceived local properties of networks reconstructed from biased random walks Open
Many real-world systems give rise to a time series of symbols. The elements in a sequence can be generated by agents walking over a networked space so that whenever a node is visited the corresponding symbol is generated. In many situation…
View article: Recovering network topology and dynamics via sequence characterization
Recovering network topology and dynamics via sequence characterization Open
Sequences arise in many real-world scenarios; thus, identifying the mechanisms behind symbol generation is essential to understanding many complex systems. This paper analyzes sequences generated by agents walking on a networked topology. …
View article: Analyzing the influence of prolific collaborations on authors productivity and visibility
Analyzing the influence of prolific collaborations on authors productivity and visibility Open
Science has become more collaborative over the past years, a phenomenon that is related to the increase in the number of authors per paper and the emergence of interdisciplinary works featuring specialists of different fields. In such a en…
View article: Data for: On the Stability of Communities in Citation Networks
Data for: On the Stability of Communities in Citation Networks Open
Citation networks can reveal many important information regarding the development of science and the relationship between different areas of knowledge. Thus, many studies have analyzed the topological properties of such networks. Frequentl…
View article: FURY: advanced scientific visualization
FURY: advanced scientific visualization Open
Free Unified Rendering in pYthon (FURY), is a community-driven, open-source, and highperformance scientific visualization library that harnesses the graphics processing unit (GPU) for improved speed, precise interactivity, and visual clari…
View article: A pattern recognition approach for distinguishing between prose and poetry
A pattern recognition approach for distinguishing between prose and poetry Open
Poetry and prose are written artistic expressions that help us to appreciate the reality we live. Each of these styles has its own set of subjective properties, such as rhyme and rhythm, which are easily caught by a human reader's eye and …
View article: Visualizing big science projects - Institution collaboration maps
Visualizing big science projects - Institution collaboration maps Open
Big Science This repository contains data and code used for data analyses and visualizations discussed in the “Visualizing big science projects” paper. Four High Energy Physics and Astrophysics projects were studied: ATLAS, Ba…
View article: On the Stability of Citation Networks
On the Stability of Citation Networks Open
Citation networks can reveal many important information regarding the development of science and the relationship between different areas of knowledge. Thus, many studies have analyzed the topological properties of such networks. Frequentl…
View article: Enriching and analyzing small citation networks: A case study on transistor’s history
Enriching and analyzing small citation networks: A case study on transistor’s history Open
View article: INSPIRE HEP Dataset on 2021-01-08 for the paper Embracing data-driven decision making to manage and communicate the impact of big science collaborations
INSPIRE HEP Dataset on 2021-01-08 for the paper Embracing data-driven decision making to manage and communicate the impact of big science collaborations Open
This repository contains original data used for data analyses and visualizations discussed in the “Embracing data-driven decision making to manage and communicate the impact of big science collaborations” paper. Four High Energy Physics an…
View article: INSPIRE HEP Dataset on 2021-01-08 for the paper Embracing data-driven decision making to manage and communicate the impact of big science collaborations
INSPIRE HEP Dataset on 2021-01-08 for the paper Embracing data-driven decision making to manage and communicate the impact of big science collaborations Open
This repository contains original data used for data analyses and visualizations discussed in the “Embracing data-driven decision making to manage and communicate the impact of big science collaborations” paper. Four High Energy Physics an…
View article: A comparative analysis of knowledge acquisition performance in complex networks
A comparative analysis of knowledge acquisition performance in complex networks Open
View article: Precipitation and Temperature Anomalies from MERRA-2 dataset
Precipitation and Temperature Anomalies from MERRA-2 dataset Open
Anomalies in Precipitation and Temperature for tiles around the globe. Data derived from the reanalysis MERRA-2 project [1]. The dataset covers the period from 1980 to 2018, between 80ºN and 80ºS. The spatial resolution is 1.0º x 1.0º resu…
View article: Precipitation and Temperature Anomalies from MERRA-2 dataset
Precipitation and Temperature Anomalies from MERRA-2 dataset Open
Anomalies in Precipitation and Temperature for tiles around the globe. Data derived from the reanalysis MERRA-2 project [1]. The dataset covers the period from 1980 to 2018, between 80ºN and 80ºS. The spatial resolution is 1.0º x 1.0º resu…
View article: Transistors: A Network Science-Based Historical Perspective
Transistors: A Network Science-Based Historical Perspective Open
The development of modern electronics was to a large extent related to the advent and popularization of bipolar junction technology. The present work applies science of science concepts and methodologies in order to develop a relatively sy…
View article: How are scientific works viewed
How are scientific works viewed Open
With the expansion of electronic publishing, a new dynamics of scientific articles dissemination was initiated. Still substantially important, citations became a longer term effect. Nowadays, many works become widely disseminated even befo…
View article: Complex systems: Features, similarity and connectivity
Complex systems: Features, similarity and connectivity Open
View article: Human Networks and Data Science (NSF 19-608): Uncovering the "dark matter" of research
Human Networks and Data Science (NSF 19-608): Uncovering the "dark matter" of research Open
With funding from the National Science Foundation, the Center for Open Science (COS) and Indiana University will create a dynamic, distributed, and heterogeneous data source for the advancement of science of science research. This will be …
View article: Opinion diversity and social bubbles in adaptive Sznajd networks
Opinion diversity and social bubbles in adaptive Sznajd networks Open
Among the several approaches that have been attempted at studying opinion dynamics, the Sznajd model provides some particularly interesting features, such as its simplicity and ability to represent some of the mechanisms believed to be inv…
View article: Malleability of complex networks
Malleability of complex networks Open
Most complex networks are not static, but evolve along time. Given a specific configuration of one such changing network, it becomes a particularly interesting issue to quantify the diversity of possible unfoldings of its topology. In this…
View article: Dynamic Gene Network Analysis of Caco-2 Cell Response to Shiga Toxin-Producing Escherichia coli-Associated Hemolytic–Uremic Syndrome
Dynamic Gene Network Analysis of Caco-2 Cell Response to Shiga Toxin-Producing Escherichia coli-Associated Hemolytic–Uremic Syndrome Open
Shiga toxin-producing Escherichia coli (STEC) O113:H21 strains are associated with human diarrhea and some strains may cause hemolytic–uremic syndrome (HUS). In Brazil, these strains are commonly found in cattle but, so far, were not isola…