Venn diagrams in bioinformatics

A Jia, L Xu, Y Wang - Briefings in bioinformatics, 2021 - academic.oup.com
Venn diagrams are widely used tools for graphical depiction of the unions, intersections and
distinctions among multiple datasets, and a large number of programs have been developed …

DiVenn: an interactive and integrated web-based visualization tool for comparing gene lists

L Sun, S Dong, Y Ge, JP Fonseca, ZT Robinson… - Frontiers in …, 2019 - frontiersin.org
Gene expression data generated from multiple biological samples (mutant, double mutant,
and wild-type) are often compared via Venn diagram tools. It is of great interest to know the …

InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams

H Heberle, GV Meirelles, FR da Silva, GP Telles… - BMC …, 2015 - Springer
Background Set comparisons permeate a large number of data analysis workflows, in
particular workflows in biological sciences. Venn diagrams are frequently employed for such …

OrthoVenn: a web server for genome wide comparison and annotation of orthologous clusters across multiple species

Y Wang, D Coleman-Derr, G Chen… - Nucleic acids …, 2015 - academic.oup.com
Genome wide analysis of orthologous clusters is an important component of comparative
genomics studies. Identifying the overlap among orthologous clusters can enable us to …

BioVenn–a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

T Hulsen, J de Vlieg, W Alkema - BMC genomics, 2008 - Springer
Background In many genomics projects, numerous lists containing biological identifiers are
produced. Often it is useful to see the overlap between different lists, enabling researchers to …

Dauer-independent insulin/IGF-1-signalling implicates collagen remodelling in longevity

CY Ewald, JN Landis, JP Abate, CT Murphy… - Nature, 2015 - nature.com
Interventions that delay ageing mobilize mechanisms that protect and repair cellular
components,,, but it is unknown how these interventions might slow the functional decline of …

Regulation of the histone demethylase JMJD1A by hypoxia-inducible factor 1α enhances hypoxic gene expression and tumor growth

AJ Krieg, EB Rankin, D Chan… - … and cellular biology, 2010 - Taylor & Francis
The hypoxia-inducible transcription factors (HIFs) directly and indirectly mediate cellular
adaptation to reduced oxygen tensions. Recent studies have shown that the histone …

The WRKY transcription factor GmWRKY12 confers drought and salt tolerance in soybean

WY Shi, YT Du, J Ma, DH Min, LG Jin, J Chen… - International Journal of …, 2018 - mdpi.com
WRKYs are important regulators in plant development and stress responses. However,
knowledge of this superfamily in soybean is limited. In this study, we characterized the …

Dynamic changes to lipid mediators support transitions among macrophage subtypes during muscle regeneration

N Giannakis, BE Sansbury, A Patsalos, TT Hays… - Nature …, 2019 - nature.com
Muscle damage elicits a sterile immune response that facilitates complete regeneration.
Here, we used mass spectrometry–based lipidomics to map the mediator lipidome during …

Elevated MMP9 expression in breast cancer is a predictor of shorter patient survival

C Joseph, M Alsaleem, N Orah, PL Narasimha… - Breast cancer research …, 2020 - Springer
Purpose MMP9 is a matricellular protein associated with extracellular matrix (ECM)
remodelling, that promotes tumour progression, and modulates the activity of cell adhesion …