Microbes strongly impact human health and the ecosystem of which they are a part. Rapid improvements and decreasing costs in sequencing technologies have revolutionized the field of genomics and ...enabled important insights into microbial genome biology and microbiomes. However, new tools and approaches are needed to facilitate the efficient analysis of large sets of genomes and to associate genomic features with phenotypic characteristics better. Here, we built and utilized several tools for large-scale whole-genome analysis for different microbial characteristics, such as antimicrobial resistance and pathogenicity, that are important for human health. Chapters 2 and 3 demonstrate the needs and challenges of population genomics in associating antimicrobial resistance with genomic features. Our results highlight important limitations of reference database-driven analysis for genotype-phenotype association studies and demonstrate the utility of whole-genome population genomics in uncovering novel genomic factors associated with antimicrobial resistance. Chapter 4 describes PRAWNS, a fast and scalable bioinformatics tool that generates compact pan-genomic features. Existing approaches are unable to meet the needs of large-scale whole-genome analyses, either due to scalability limitations or the inability of the genomic features generated to support a thorough whole-genome assessment. We demonstrate that PRAWNS scales to thousands of genomes and provides a concise collection of genomic features which support the downstream analyses. In Chapter 5, we assess whether the combination of long and short-read sequencing can expedite the accurate reconstruction of a pathogen genome from a microbial community. We describe the challenges for pathogen detection in current foodborne illness outbreak monitoring. Our results show that the recovery of a pathogen genome can be accelerated using a combination of long and short-read sequencing after limited culturing of the microbial community. We evaluated several popular genome assembly approaches and identified areas for improvement. In Chapter 6, we describe SIMILE, a fast and scalable bioinformatics tool that enables the detection of genomic regions shared between several assembled metagenomes. In metagenomics, microbial communities are sequenced directly without culturing. Although metagenomics has furthered our understanding of the microbiome, comparing metagenomic samples is extremely difficult. We describe the need and challenges in comparing several metagenomic samples and present an approach that facilitates large-scale metagenomic comparisons.
Best offer recommendation service Javkar, Kiran Gajanan; Vora, Siddharth Hasmukh; Rodge, Amit Someshwarrao ...
2016 International Conference on Advances in Computing, Communications and Informatics (ICACCI),
2016-Sept.
Conference Proceeding
There are multiple online offer aggregators, which can aggregate deals, coupons and offers from multiple parties. However, these aggregators generally cannot determine the best deal/s available among ...the existing deals. Many deals or coupons specify the percentage of discount or cashback on purchase of the item using the user's credit card, where the percentage varies between different cards. This makes it difficult to determine the best offer for a given credit card. In this paper we propose a service which can determine which offers would be relevant for a user with a given profile and/or online payment mechanism. The cloud server stores relevant data about available offers using crawlers and publicly available APIs, and given a desired product determines the best set of coupons or offers available given a user profile and payment mechanism such as credit card. This enables the service to recommend the best deals to the user. We have implemented a simple proof of concept for our service using a cloud server component and a component that is part of the web browser application on a device. We also discuss a revenue sharing model for our service.
Variable Feature Sets in Grid-based Layouts Javkar, Kiran Gajanan; Mali, Pravin Kumar Ramesh; Kumar, Ashutosh ...
Proceedings of the 8th Annual ACM India Conference,
10/2015
Conference Proceeding
As the digital data continues to grow unbounded, users expect intelligent processing and accurate coverage of all its domains. Advances in display technology have led to a variety of viewing devices, ...each with its own characteristic sizes and resolutions. Thus, a single layout on different sized devices would degrade the user experience. Moreover, the information shown on display does not need to have same features. So, it becomes very crucial to develop a user interface which can cope up with different sized viewing devices and different data set information. To facilitate the same, we hereby present a novel approach to identify key information from various data sets and display the same on wide range of devices using comparable but different grid-based layouts.