A travel guide to Cytoscape plugins

R Saito, ME Smoot, K Ono, J Ruscheinski, PL Wang… - Nature …, 2012 - nature.com
Cytoscape is open-source software for integration, visualization and analysis of biological
networks. It can be extended through Cytoscape plugins, enabling a broad community of …

Q-instruct: Improving low-level visual abilities for multi-modality foundation models

H Wu, Z Zhang, E Zhang, C Chen… - Proceedings of the …, 2024 - openaccess.thecvf.com
Multi-modality large language models (MLLMs) as represented by GPT-4V have introduced
a paradigm shift for visual perception and understanding tasks that a variety of abilities can …

The social and structural architecture of the yeast protein interactome

AC Michaelis, AD Brunner, M Zwiebel, F Meier… - Nature, 2023 - nature.com
Cellular functions are mediated by protein–protein interactions, and mapping the
interactome provides fundamental insights into biological systems. Affinity purification …

[HTML][HTML] Membrane cholesterol efflux drives tumor-associated macrophage reprogramming and tumor progression

P Goossens, J Rodriguez-Vita, A Etzerodt, M Masse… - Cell metabolism, 2019 - cell.com
Macrophages possess intrinsic tumoricidal activity, yet tumor-associated macrophages
(TAMs) rapidly adopt an alternative phenotype within the tumor microenvironment that is …

[PDF][PDF] Therapeutic inhibition of inflammatory monocyte recruitment reduces steatohepatitis and liver fibrosis

O Krenkel, T Puengel, O Govaere, AT Abdallah… - …, 2018 - Wiley Online Library
Macrophages are key regulators of liver fibrosis progression and regression in nonalcoholic
steatohepatitis (NASH). Liver macrophages comprise resident phagocytes, Kupffer cells …

Fifty‐two years of consumer research based on social exchange theory: A review and research agenda using topic modeling

M Mishra, P Mund - International Journal of Consumer Studies, 2024 - Wiley Online Library
Social exchange theory (SET) is a leading sociopsychological theory that has enriched
understanding of consumers' behavior. In this study, we examine application of SET in …

[PDF][PDF] Optimal threshold of controlled attenuation parameter with MRI‐PDFF as the gold standard for the detection of hepatic steatosis

C Caussy, MH Alquiraish, P Nguyen… - …, 2018 - Wiley Online Library
The optimal threshold of controlled attenuation parameter (CAP) for the detection of hepatic
steatosis using both M and XL probe is unknown in nonalcoholic fatty liver disease (NAFLD) …

Twitter data sentiment analysis of tourism in Thailand during the COVID-19 pandemic using machine learning

N Leelawat, S Jariyapongpaiboon, A Promjun… - Heliyon, 2022 - cell.com
Abstract The coronavirus disease 2019 (COVID-19) pandemic has severely affected
Thailand's economy, which relies heavily on tourism. In this study, we labeled the sentiment …

Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake

M Malinsky, RJ Challis, AM Tyers, S Schiffels, Y Terai… - Science, 2015 - science.org
The genomic causes and effects of divergent ecological selection during speciation are still
poorly understood. Here we report the discovery and detailed characterization of early-stage …

[HTML][HTML] AutoAnnotate: A Cytoscape app for summarizing networks with semantic annotations

M Kucera, R Isserlin, A Arkhangorodsky… - F1000Research, 2016 - ncbi.nlm.nih.gov
Networks often contain regions of tightly connected nodes, or clusters, that highlight their
shared relationships. An effective way to create a visual summary of a network is to identify …