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Updated: Apr 1, 2026

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

Published on: April 11, 2016

CRCDA--Comprehensive resources for cancer NGS data analysis.

Manonanthini Thangam¹, Ramesh Kumar Gopal²

¹AU-KBC Research Centre, MIT Campus of Anna University, Chromepet, Chennai, India.

Database : the Journal of Biological Databases and Curation

|October 10, 2015

Summary

Next-generation sequencing (NGS) has transformed cancer research. This portal offers a comprehensive, user-friendly collection of NGS tools and data analysis pipelines specifically for cancer genomics, transcriptomics, and epigenomics, aiding researchers in clinical oncology.

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Area of Science:

Bioinformatics
Genomics
Oncology

Background:

Next-generation sequencing (NGS) has revolutionized life sciences and clinical oncology.
NGS enables advanced diagnosis and treatment strategies for cancer.
Efficient analysis of NGS data is crucial for cancer research progress.

Purpose of the Study:

To create a comprehensive resource portal for cancer next-generation sequencing data analysis (CRCDA).
To consolidate diverse NGS tools, pipelines, cancer pathways, databases, and literature from PubMed.
To simplify the selection and configuration of NGS analysis tools for researchers.

Main Methods:

Categorization of NGS tools into cancer genomics, transcriptomics, epigenomics, quality control, and visualization.
Inclusion of pipelines for variant detection, quality control, and data analysis.
Development of an extensive search page querying data type (literature, gene, SRA) and cancer type (18 common cancers).

Main Results:

A curated collection of NGS tools and analysis pipelines for cancer research is presented.
The portal organizes resources for 18 common cancer types, including breast and colon cancer.
A user-friendly interface facilitates easy access to relevant tools and data for biologists and oncologists.

Conclusions:

The CRCDA portal provides a valuable, centralized resource for the NGS cancer research community.
It addresses the challenge of navigating and utilizing the vast array of available NGS analysis tools.
The website aims to streamline NGS data analysis, accelerating cancer research and clinical applications.