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Tariq Abdullah

Tariq Abdullah has 19 articles published.

Tutorial: Vina Output Analysis Using PyMol

in Docking/Featured by

The analysis of Autodock Vina [1] results is a bit tricky in the sense of viewing all interactions and selecting the best pose. In our last video tutorial, we explained how to analyze docking results obtained from Vina using PyMol. This article is the written guide for the same. Continue reading “Tutorial: Vina Output Analysis Using PyMol” »

Raccoon2: A GUI facilitating virtual screenings with Autodock and Autodock Vina

in Bioinformatics Programming/Docking/Drug Discovery by

In the previous article, a new plugin called ‘Raccoon’ was mentioned, which helps in preparing virtual screening using Autodock. It provides a simple graphical user interface (GUI) where you can easily load the ligand and protein files in Autodock and perform virtual screening. An advanced version of Raccoon called, ‘Raccoon2’ has been introduced by Forli et al., (2016) [1] as GUI to prepare and analyze Autodock and Autodock Vina virtual screenings. Continue reading “Raccoon2: A GUI facilitating virtual screenings with Autodock and Autodock Vina” »

McPAS-TCR: A database of TCR sequences associated with pathology and antigens

in Databases by

T-cells, also known as T-lymphocytes, play important role in the cell-mediated immune system. T-cells consist of a T-cell receptor (TCR) at their surface which recognizes the foreign and self- origin antigens. These TCRs composed of two chains, namely, TCRα and TCRβ chains which are produced by a random process of DNA rearrangement [1,2]. These TCR repertoires are highly diverse ensuring an effective immune system which cannot be even captured in a blood sample [3]. Continue reading “McPAS-TCR: A database of TCR sequences associated with pathology and antigens” »

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