At BioBam we are proud to see OmicsBox supporting scientific research. It is always rewarding to witness our users making significant advances in their respective fields and publishing their findings in esteemed journals such as Nature Scientific Data.
These publications reinforce OmicsBox’s role as a valuable tool in bioinformatics, helping researchers analyze complex datasets with precision and efficiency.
A recent study, Proteomic dataset of sorghum leaf and root responses to single and combined drought and heat stress by Ali Elnaeim Elbasheir Ali et al., investigates the proteomic responses of sorghum under various stress conditions. Given the increasing impact of climate change on global agriculture, understanding how crops like sorghum adapt to extreme conditions is critical. By identifying differentially expressed proteins and annotating biological processes through GO and KEGG pathways, the research sheds light on the molecular mechanisms driving sorghum’s adaptation to environmental stressors.
OmicsBox played a key role in this study by enabling efficient protein annotation and functional analysis. As Ali Elnaeim Elbasheir Ali note:
“In our study, we explored how two different sorghum genotypes respond to drought, heat, and combined drought and heat stress at the proteomic level. One of the biggest challenges we faced was making sense of the large amount of data we generated and figuring out the roles of the proteins we identified. Despite that sorghum has a reference proteome, a significant portion of its proteome is still unannotated. In our study, of the 4020 proteins we identified, 1457 were uncharacterized, making it difficult to understand their role in stress responses.
OmicsBox allowed us to annotate our proteins of interest using Diamond Blast and InterProScan, which helped us link potential homologs and domains with functional annotations from well-curated databases such as UniProt and the Gene Ontology consortia. The Blast2GO enabled us to assign reliable functional labels to our query sequences while taking into account the quality of source annotations and ontology hierarchies.
Together, these features were very helpful in understanding the biological roles of the proteins of interest and their contributions to sorghum stress response.
Overall, OmicsBox made the whole process more efficient. Its user-friendly interface, powerful annotation pipelines, and excellent data integration tools saved us a lot of time and effort. “
It is an honor to have OmicsBox recognized as a valuable tool in this important study. Our thanks go to Ali Elnaeim Elbasheir Ali and his team for trusting OmicsBox in their research.
