WikiPathways 2024: next generation pathway database
WikiPathways (wikipathways. org) is an open-source biological pathway database.
Collaboration and open science are pivotal to the success of WikiPathways. Here we …
Collaboration and open science are pivotal to the success of WikiPathways. Here we …
PathDIP 5: improving coverage and making enrichment analysis more biologically meaningful
C Pastrello, M Kotlyar, M Abovsky, R Lu… - Nucleic Acids …, 2024 - academic.oup.com
Abstract Pathway Data Integration Portal (PathDIP) is an integrated pathway database that
was developed to increase functional gene annotation coverage and reduce bias in …
was developed to increase functional gene annotation coverage and reduce bias in …
Inference of differential key regulatory networks and mechanistic drug repurposing candidates from scRNA-seq data with SCANet
Motivation The reconstruction of small key regulatory networks that explain the differences in
the development of cell (sub) types from single-cell RNA sequencing is a yet unresolved …
the development of cell (sub) types from single-cell RNA sequencing is a yet unresolved …
[HTML][HTML] Proteomic meta-study harmonization, mechanotyping and drug repurposing candidate prediction with ProHarMeD
Proteomics technologies, which include a diverse range of approaches such as mass
spectrometry-based, array-based, and others, are key technologies for the identification of …
spectrometry-based, array-based, and others, are key technologies for the identification of …
[HTML][HTML] ODAMNet: A Python package to identify molecular relationships between chemicals and rare diseases using overlap, active module and random walk …
Environmental factors are external conditions that can affect the health of living organisms.
For a number of rare genetic diseases, an interplay between genetic and environmental …
For a number of rare genetic diseases, an interplay between genetic and environmental …
Pan-cancer proteogenomic landscape of whole-genome doubling reveals putative therapeutic targets in various cancer types
E Chang, HS Hwang, KJ Song, K Kim, MS Kim… - medRxiv, 2024 - medrxiv.org
Background: Whole-genome doubling (WGD) is prevalent in cancer and drives tumor
development and chromosomal instability. Driver mutations in mitotic cell cycle genes and …
development and chromosomal instability. Driver mutations in mitotic cell cycle genes and …
HerpesFolds: A proteome-wide structural systems approach reveals insights into protein families and activities of all nine human herpesviruses
Structure predictions have become invaluable tools for wet lab science by accelerating the
generation of structure-based hypotheses. While AlphaFold-predicted structures are …
generation of structure-based hypotheses. While AlphaFold-predicted structures are …
DysRegNet: Patient-specific and confounder-aware dysregulated network inference
Gene regulation is frequently altered in diseases in unique and often patient-specific ways.
Hence, personalized strategies have been proposed to infer patient-specific gene-regulatory …
Hence, personalized strategies have been proposed to infer patient-specific gene-regulatory …
SCANET for single-cell network-based drug repurposing candidate extraction
Reconstructing small regulatory networks is essential for understanding cellular functions
and mechanisms. Performing this task with single-cell RNA sequencing data poses a …
and mechanisms. Performing this task with single-cell RNA sequencing data poses a …