A comprehensive survey of C. elegans argonaute proteins reveals organism-wide gene regulatory networks and functions
Argonaute (AGO) proteins associate with small RNAs to direct their effector function on
complementary transcripts. The nematode Caenorhabditis elegans contains an expanded family …
complementary transcripts. The nematode Caenorhabditis elegans contains an expanded family …
[HTML][HTML] Evolution of microsporidia: An extremely successful group of eukaryotic intracellular parasites
L Wadi, AW Reinke - PLoS pathogens, 2020 - journals.plos.org
Microsporidia are obligate intracellular parasites that can infect a wide range of hosts. They
cause death and disease in both humans and agriculturally important animals. They have …
cause death and disease in both humans and agriculturally important animals. They have …
Pathway enrichment analysis and visualization of omics data using g: Profiler, GSEA, Cytoscape and EnrichmentMap
…, M Kucera, C Tannus-Lopes, A Rostamianfar, L Wadi… - Nature protocols, 2019 - nature.com
Pathway enrichment analysis helps researchers gain mechanistic insight into gene lists
generated from genome-scale (omics) experiments. This method identifies biological pathways …
generated from genome-scale (omics) experiments. This method identifies biological pathways …
[HTML][HTML] Analyses of non-coding somatic drivers in 2,658 cancer whole genomes
…, HM Umer, L Uusküla-Reimand, C Wadelius, L Wadi… - Nature, 2020 - nature.com
The discovery of drivers of cancer has traditionally focused on protein-coding genes 1 , 2 , 3
– 4 . Here we present analyses of driver point mutations and structural variants in non-…
– 4 . Here we present analyses of driver point mutations and structural variants in non-…
Impact of outdated gene annotations on pathway enrichment analysis
To the Editor: Pathway enrichment analysis is a common technique for interpreting gene
lists derived from high-throughput experiments1. Its success depends on the quality of gene …
lists derived from high-throughput experiments1. Its success depends on the quality of gene …
[HTML][HTML] Pathway and network analysis of more than 2500 whole cancer genomes
…, S Pulido-Tamayo, J Barenboim, L Wadi… - Nature …, 2020 - nature.com
The catalog of cancer driver mutations in protein-coding genes has greatly expanded in the
past decade. However, non-coding cancer driver mutations are less well-characterized and …
past decade. However, non-coding cancer driver mutations are less well-characterized and …
[PDF][PDF] Candidate cancer driver mutations in distal regulatory elements and long-range chromatin interaction networks
A comprehensive catalog of cancer driver mutations is essential for understanding tumorigenesis
and developing therapies. Exome-sequencing studies have mapped many protein-…
and developing therapies. Exome-sequencing studies have mapped many protein-…
A parental transcriptional response to microsporidia infection induces inherited immunity in offspring
Parental infection can result in the production of offspring with enhanced immunity phenotypes.
Critically, the mechanisms underlying inherited immunity are poorly understood. Here, …
Critically, the mechanisms underlying inherited immunity are poorly understood. Here, …
[HTML][HTML] Notch1 regulates the initiation of metastasis and self-renewal of Group 3 medulloblastoma
Medulloblastoma is the most common malignant brain tumor of childhood. Group 3
medulloblastoma, the most aggressive molecular subtype, frequently disseminates through the …
medulloblastoma, the most aggressive molecular subtype, frequently disseminates through the …
Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes
…, HM Umer, L Uusküla-Reimand, C Wadelius, L Wadi… - BioRxiv, 2017 - biorxiv.org
Discovery of cancer drivers has traditionally focused on the identification of protein-coding
genes. Here we present a comprehensive analysis of putative cancer driver mutations in both …
genes. Here we present a comprehensive analysis of putative cancer driver mutations in both …