Sagar Gupta

Sagar Gupta
CSIR - Institute of Himalayan Bioresource Technology | IHBT · Bioinformatics Research Area

Master of Science (Bioinformatics)

About

9
Publications
553
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1
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Introduction
Currently works as PhD student at the Studio of Computational Biology and Bioinformatics, CSIR-IHBT, Palampur.

Publications

Publications (9)
Preprint
Full-text available
Identifying RBP binding sites and mechanistic factors determining the interactions remain a big challenge. Besides the sparse binding motifs across the RNAs, it also requires a suitable sequence context for binding. The present work describes an approach to detect RBP binding sites while using an ultra-fast BWT/FM-indexing coupled inexact k-mer spe...
Article
Full-text available
Formation of mature miRNAs and their expression is a highly controlled process. It is very much dependent upon the post-transcriptional regulatory events. Recent findings suggest that several RNA binding proteins beyond Drosha/Dicer are involved in the processing of miRNAs. Deciphering of conditional networks for these RBP-miRNA interactions may he...
Article
Full-text available
Identifying the factors determining the RBP-RNA interactions remains a big challenge. It involves sparse binding motifs and a suitable sequence context for binding. The present work describes an approach to detect RBP binding sites in RNAs using an ultra-fast inexact k-mers search for statistically significant seeds. The seeds work as an anchor to...
Preprint
Full-text available
s Various noncoding elements of genome have gained attention for their regulatory roles where the lncRNAs are very recent and most intriguing for their possible functions. Due to limited information about lncRNAs, their characterization remains a big challenge, especially in plants. Plant lncRNAs differ a lot from others even in the mode of transcr...
Article
We present here a bi-modal CNN based deep-learning system, DeepPlnc, to identify plant lncRNAs with high accuracy while using sequence and structural properties. Unlike most of the existing software, it works accurately even in conditions with ambiguity of boundaries and incomplete sequences. It scored consistently high for performance metrics whil...
Preprint
miRNAs are major post-transcriptional regulators. Discovering pre-miRNAs is the core of locating miRNAs and their genomic annotations. Using traditional sequence/structural features many tools have been published to discover miRNAs. However, in practical applications like genomic annotation, their actual performance has been far away from acceptabl...
Poster
Full-text available
Improvement and acceleration in sequencing technology and the discovery of metagenomic and bioinformatics concepts have opened up a few modern gates to understand the microorganisms living in the human bowel. They play an essential role in wellness and several disease condition of the human body are being found to extend beyond the gastrointestinal...
Poster
Full-text available
The rapid exponential growth of biological data including genome structure and functionalities, encouraged by the advent of Next Generation Sequencing (NGS) technologies, expands the golden chance to highlight still hidden molecular perspectives in several fields. One such field is plant genomics which uses bioinformatics based data repositories, t...
Poster
Full-text available
Next-Generation sequencing(NGS) revolutionizes the era of biological fields. The low-cost next-generation sequencing has made it possible to understand and manipulate DNA, cells and systems biology as never before. Analysis of big data reveals mystical patterns, correlations, and different insights from the study of high-throughput NGS data sets. W...

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