What are protein interaction networks?
The protein-protein interaction (PPI) network within an organism forms the backbone of its signaling pathways, enabling cells to react to both environmental and genetic signals. A comprehensive understanding of this network, including the mapping of PPIs and the direction in which signals flow, could significantly enhance our ability to predict gene functions and cellular responses to various stimuli. Despite considerable advancements in identifying human PPIs over recent years, the directionality of these interactions largely remains uncharted, posing a barrier to further analysis and modeling. In this context, we introduce a methodical strategy to define the directionality of the human PPI network by leveraging data on drug responses and cancer genomics. Our diffusion-based technique for determining interaction directionality outperforms existing methods, leading to better identification of key cancer genes and drug targets. Understanding PPIs is vital for grasping cell behavior in health and disease and plays a crucial role in drug discovery since medications can influence PPIs. Represented mathematically, PPI networks detail the physical contacts between proteins within a cell, encompassing both stable and transient interactions essential for various cellular processes. Knowledge of these interactions aids in deducing functions for unknown proteins, detailing signaling pathways, and understanding multi-protein complexes like the proteasome. The interactome encompasses all PPIs within a cell, organism, or specific biological setting, with advancements in high-throughput screening and predictive algorithms leading to an exponential increase in available PPI data.
What are protein interaction networks for SLC35A2?
Human Related Genes and Biological Process
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Zebrafish Related Genes and Biological Process
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Generation of Catalytic Spliceosome (Second Transesterification )
mRNA splicing Nucleobase-containing Compound Metabolic Process |
Ribosome-associated Ubiquitin-dependent Protein
Rescue of Stalled Ribosome Carbohydrate transport |
Discussion
The protein-protein interaction networks for SLC35A2 proteins, as depicted in the image, reveal complex interrelations between SLC35A2 and various other proteins within human and zebrafish systems. In humans, SLC35A2's network involves proteins associated with the generation of the catalytic spliceosome, mRNA splicing, and nucleobase-containing compound metabolic processes. These interactions suggest a potential role in post-transcriptional gene regulation and metabolism. In zebrafish, SLC35A2 appears connected to proteins involved in ribosome-associated ubiquitin-dependent protein degradation, rescue of stalled ribosomes, and carbohydrate transport, indicating a critical involvement in protein quality control mechanisms and energy metabolism.
Reference:
[1]Embl-Ebi. (n.d.-a). Protein-protein interaction networks | Network analysis of protein interaction data. https://www.ebi.ac.uk/training/online/courses/network-analysis-of-protein-interaction-data-an-introduction/protein-protein-interaction-networks/
[2]Silverbush, D., & Sharan, R. (2019). A systematic approach to orient the human protein–protein interaction network. Nature Communications, 10(1). https://doi.org/10.1038/s41467-019-10887-6
[3]Wikipedia contributors. (2024b, April 7). Protein–protein interaction. Wikipedia. https://en.wikipedia.org/wiki/Protein%E2%80%93protein_interaction
Image Reference:
https://www.eurekalert.org/multimedia/681592
[1]Embl-Ebi. (n.d.-a). Protein-protein interaction networks | Network analysis of protein interaction data. https://www.ebi.ac.uk/training/online/courses/network-analysis-of-protein-interaction-data-an-introduction/protein-protein-interaction-networks/
[2]Silverbush, D., & Sharan, R. (2019). A systematic approach to orient the human protein–protein interaction network. Nature Communications, 10(1). https://doi.org/10.1038/s41467-019-10887-6
[3]Wikipedia contributors. (2024b, April 7). Protein–protein interaction. Wikipedia. https://en.wikipedia.org/wiki/Protein%E2%80%93protein_interaction
Image Reference:
https://www.eurekalert.org/multimedia/681592