Browsing by Author "RAHUL, CHANDRASEKAR NARAYANAN"

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    Finding identical sequence repeats in multiple protein sequences: An algorithm
    (The Indian Academy of Sciences, 2024-02) MAURYA, VIKAS KUMAR; SANJEEVI, MADHUMATHI; RAHUL, CHANDRASEKAR NARAYANAN; MOHAN, AJITHA; RAMACHANDRAN, DHANALAKSHMI; SIDDALINGAPPA, RASHMI; RAUNIYAR, ROSHAN; KANAGARAJ, SEKAR
    In recent years, several experimental evidences suggest that amino acid repeats are closely linked to many disease conditions, as they have a significant role in evolution of disordered regions of the polypeptide segments. Even though many algorithms and databases were developed for such analysis, each algorithm has some caveats, like limitation on the number of amino acids within the repeat patterns and number of query protein sequences. To this end, in the present work, a new method called the internal sequence repeats across multiple protein sequences (ISRMPS) is proposed for the first time to identify identical repeats across multiple protein sequences. It also identifies distantly located repeat patterns in various protein sequences. Our method can be applied to study evolutionary relationships, epitope mapping, CRISPR-Cas sequencing methods, and other comparative analytical assessments of protein sequences.
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    A novel search engine for proteins involved in Notch crosstalk signaling pathways
    (The Indian Academy of Sciences, 2023-12) SANJEEVI, MADHUMATHI; RAJENDRAN, SANTHOSH; RAMACHANDRAN, DHANALAKSHMI; RAHUL, CHANDRASEKAR NARAYANAN; JEYARAMAN, JEYAKANTHAN; KANAGARAJ, SEKAR
    To regulate biological activity in humans, the Notch signaling pathway (NSP) plays an essential role in a wide array of cellular development and differentiation process. In recent years, many studies have reported that aberrant activation of Notch is associated with the tumor process; but no appropriate database exists to fill this significant gap. To address this, we created a pioneering database NCSp, which is open access and comprises intercommunicating pathways and related protein mutations. This allows scientists to understand better the cause of single amino acid mutations in proteins. Therefore, NCSp provides information on the predicted functional effect of human protein mutations, which aids in understanding the importance of mutations linked to the Notch crosstalk signaling pathways in cancerous and non-cancerous systems. This database might be helpful for therapeutic mutation analysis, molecular biology, and structural biology researchers. The NCSp database can be accessed through https://bioserver3.physics.iisc.ac.in/cgi-bin/nccspd/.