This is an indigenously developed web-based application designed by Dr. Samrat Chatterjee and his group, for the identification of triggers (proteins in the interactome) which are possible causal agents between pathological or pathophysiological conditions. konnect2prot (k2p) contains data curated from various databases with multidimensional information to built network relevant to the end user. This platform is also equipped with network algorithms that can further enhances the decision making process.
We study biological systems in their entirety or in fragments through the lens of system biology. The former covers topics such as network biology, machine learning-based drug discovery, and so forth, while the latter covers various differential equation based kinetic models. The group is supervised by Dr. Samrat Chatterjee and consists of post doctoral fellows, PhD student and research fellows. They are mainly from mathematical and computational backgrounds keen to work on biological problems in an interdisciplinary environment.Read More
Some significant recent publications from the group.
He is a Mathematician. He uses mathematical modelling and system biology to understand biological problems. He formulated and supervised the project.
He is a Computational Biophysicist. His main area of research is structural bioinformatics and drug discovery. He helped in the supervision of the project.
He is doing PhD in Computational Biology. His major work domain is to develop pattern recognition algorithms using AI/ML. He designed and developed the web application.
Other contributers: Ekant Sharma, Komal Sharma, Krishna
We would like to thank DBT for proving us the finanical support for this project
Funding body by Govt. of India
We would like to thank signor for providing directional relationship of protein pairs
Directional database for PPI
We would like to thank disgenet for providing disease information related to protein
We would like to thank uniprot for providing detailed information of protein charaterstics including its functions and pathways.
Protein information database
We would like to thank Enrichr for providing enrichment score of pathway, functions and diseases.
Protein enrichment webserver
We would like to thank PDB for providing structure related information.
Protein structure database
We would also like to pass our gratitude to open source software develpers of Flask, Python, Dash (Plotly), MongoDB.
k2p is a one-stop junction for identifying the triggers in a PPI network constructed from user-given inputs. It is a web-based application of directional PPI which can be filtered according to user-driven context. Currently, context-specificity is defined as filtering the network through the use of localization, pathways, biological processes, and molecular networks. Additionally, it also displays structural insights into the proteins and their available ligands.
Currently it contains only proteins from human interactome.
k2p extracts causal information data from signor. The cellular localization, pathways, biological process, and molecular function information is curated from UniProt. Disease-based information is curated from DisGeNet and the structural information is curated from the PDB database.
We have identified the influential spreaders in the network and augmented it with other auxiliary information to collectively define them as triggers of any pathological condition. Identifying a set of influential spreaders in complex networks plays a crucial role in effective information spreading which are identified using the voterank algorithm. In this approach, all nodes vote in a spreader in each turn, and the voting ability of neighbors of the elected spreader will be decreased in subsequent turns. During investigation the identified triggers could be explored for various applications such as potential drug targets.
k2p only allows the extraction of various network images and statistical information generated from the network. The complete data is available upon request.
k2p has used Enrichr for the enrichment of biological pathways and ontological enrichment.
k2p is a non-commercial open-access web application for academic purposes only. It is copyright protected under Indian Copyright Dairy No.: 14303/2020-CO/SW and funded by the Department of Biotechnology (DBT) (Ministry of Science and Technology, Govt. of India). Grant number: BT/PR15426/BRB/10/1459/2015.
No. You only have to cite our publication.
Our manuscript is currently under communication.
We have made this far on our own, collectively we can accomplish much more !!!