[HTML][HTML] BlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences

M Kanehisa, Y Sato, K Morishima - Journal of molecular biology, 2016 - Elsevier
BlastKOALA and GhostKOALA are automatic annotation servers for genome and
metagenome sequences, which perform KO (KEGG Orthology) assignments to characterize …

OrthoDB v11: annotation of orthologs in the widest sampling of organismal diversity

D Kuznetsov, F Tegenfeldt, M Manni… - Nucleic Acids …, 2023 - academic.oup.com
OrthoDB provides evolutionary and functional annotations of genes in a diverse sampling of
eukaryotes, prokaryotes, and viruses. Genomics continues to accelerate our exploration of …

OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs

EV Kriventseva, D Kuznetsov, F Tegenfeldt… - Nucleic acids …, 2019 - academic.oup.com
Abstract OrthoDB (https://www. orthodb. org) provides evolutionary and functional
annotations of orthologs. This update features a major scaling up of the resource coverage …

Molecular pathway activation–new type of biomarkers for tumor morphology and personalized selection of target drugs

A Buzdin, M Sorokin, A Garazha, M Sekacheva… - Seminars in cancer …, 2018 - Elsevier
Anticancer target drugs (ATDs) specifically bind and inhibit molecular targets that play
important roles in cancer development and progression, being deeply implicated in …

OrthoDB in 2020: evolutionary and functional annotations of orthologs

EM Zdobnov, D Kuznetsov, F Tegenfeldt… - Nucleic acids …, 2021 - academic.oup.com
OrthoDB provides evolutionary and functional annotations of orthologs, inferred for a vast
number of available organisms. OrthoDB is leading in the coverage and genomic diversity …

eggNOG v4. 0: nested orthology inference across 3686 organisms

S Powell, K Forslund, D Szklarczyk… - Nucleic acids …, 2014 - academic.oup.com
With the increasing availability of various 'omics data, high-quality orthology assignment is
crucial for evolutionary and functional genomics studies. We here present the fourth version …

Genome of wild olive and the evolution of oil biosynthesis

T Unver, Z Wu, L Sterck, M Turktas… - Proceedings of the …, 2017 - National Acad Sciences
Here we present the genome sequence and annotation of the wild olive tree (Olea europaea
var. sylvestris), called oleaster, which is considered an ancestor of cultivated olive trees …

[HTML][HTML] Alterations of immune response of non-small cell lung cancer with azacytidine

J Wrangle, W Wang, A Koch, H Easwaran… - Oncotarget, 2013 - ncbi.nlm.nih.gov
Innovative therapies are needed for advanced Non-Small Cell Lung Cancer (NSCLC). We
have undertaken a genomics based, hypothesis driving, approach to query an emerging …

OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software

EV Kriventseva, F Tegenfeldt, TJ Petty… - Nucleic acids …, 2015 - academic.oup.com
Orthology, refining the concept of homology, is the cornerstone of evolutionary comparative
studies. With the ever-increasing availability of genomic data, inference of orthology has …

Insights into microalga and bacteria interactions of selected phycosphere biofilms using metagenomic, transcriptomic, and proteomic approaches

I Krohn-Molt, M Alawi, KU Förstner… - Frontiers in …, 2017 - frontiersin.org
Microalga are of high relevance for the global carbon cycling and it is well-known that they
are associated with a microbiota. However, it remains unclear, if the associated microbiota …