Completed PhDs

Revealing the Cancer Epigenome: Computational Analysis of Biological Networks

Visakh R, Dr. Abdul Nazeer K A.

Dr. Visakh R

Identifying epigenetic patterns that are conservedacross cancer pathways is worth investigating, as it helps in molecular classification ofcancer. However, existing computational models try to align protein-protein interactionnetworks based on sequence similarity information, which is of little use in epigenetic pro-filing, as the changes in epigenome are not reflected in the DNA sequence. Computationalmethods to identify gene clusters, integrate multiple heterogeneous omic data types intoa single scaffold network. However, the exact relationship between gene expression andmethylation has not been elucidated clearly. Keeping in mind the above aspects, thisthesis proposes three significant contributions in order to reveal the complex epigeneticmechanism underlying one of the most intricate and dreadful diseases affecting humans,namely cancer. Read More

Enhanced Deterministic Clustering Methods for Cancer Subtype Prediction and Discovery from Genomic Data

Nidheesh N, Dr. Abdul Nazeer, Dr. Ameer P M

Dr. Nidheesh N

There is apressing need for easy-to-use clustering methods having high accuracy and an abilityto produce stable results. Moreover, cancer subtype discovery from genomic data isan exploratory analysis. It demands an automatic estimation of the number ofnat-uralclusters in the data which is a challenging task. Therefore, it is quite relevantto explore more effective and easy-to-use clustering methods that would facilitate‘cancer subtype prediction and discovery’ from genomic data. The research workcarried out in this direction has resulted in three significant contributions. Read More

Identification of LncRNA Characteristics and Associations Using HIN Based Techniques

Sunil Kumar P V, Dr. Gopakumar G

Dr. Sunil Kumar

Long non-coding RNA (LncRNA) has become one of the most sought-after terminologiesin current day biological research. Until a decade ago, the non-coding regions of RNA werebroadly considered as transcriptional noise with no defined functions. Recent studies refuted themisconceptions and categorically revealed that lncRNAs are actively involved in innumerablebiological processes and associated to a wide variety of diseases. This knowledge promptedbiological experiments to focus on lncRNAs with an aim to decipher their activities in cellularprocesses and diseases. Read More