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Related Concept Videos

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
Synthetic Biology02:55

Synthetic Biology

Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...

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Related Experiment Video

Updated: May 20, 2026

Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms
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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms

Published on: May 9, 2017

Anvaya: a workflows environment for automated genome analysis.

Bhakti Limaye1, Ruma Banerjee, Avik Datta

  • 1Bioinformatics Group, Centre for Development of Advanced Computing, Pune University Campus, Ganesh Khind, Pune - 411007, Maharashtra, India.

Journal of Bioinformatics and Computational Biology
|July 20, 2012
PubMed
Summary

Anvaya is a novel workflow environment for automated genome analysis. It streamlines complex bioinformatics tasks, offering custom tools and automated data flow for efficient biological data processing.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Automated genome analysis requires integrating diverse bioinformatics tools and databases.
  • Existing workflows often lack efficient pre- and post-processing capabilities.
  • Manual intervention is frequently needed for data flow between tools.

Purpose of the Study:

  • To introduce Anvaya, a client-server workflow environment for automated genome analysis.
  • To enhance efficiency and reduce manual intervention in complex bioinformatics pipelines.
  • To provide a comprehensive, user-friendly platform for biologists.

Main Methods:

  • Developed a loosely coupled, coordinated system of bioinformatics tools and databases.
  • Implemented extensive pre- and post-processing functionalities.
  • Integrated custom tools with novel functionalities and built-in PERL parsers for automated data flow.

Main Results:

  • Anvaya enables series or parallel execution of analysis tools.
  • Novel functionalities include custom tools and automated data flow via PERL parsers.
  • Offers 11 pre-defined workflows for common genome analysis pipelines.

Conclusions:

  • Anvaya serves as a single-stop solution for comprehensive genome analysis.
  • Reduces the need for manual intervention, tool installation, and format conversions.
  • Empowers biologists to perform complex analyses without deep technical expertise.