| Title |
CRCDA—Comprehensive resources for cancer NGS data analysis
|
|---|---|
| Published in |
Database: The Journal of Biological Databases & Curation, October 2015
|
| DOI | 10.1093/database/bav092 |
| Pubmed ID | |
| Authors |
Manonanthini Thangam, Ramesh Kumar Gopal |
| Abstract |
Next generation sequencing (NGS) innovations put a compelling landmark in life science and changed the direction of research in clinical oncology with its productivity to diagnose and treat cancer. The aim of our portal comprehensive resources for cancer NGS data analysis (CRCDA) is to provide a collection of different NGS tools and pipelines under diverse classes with cancer pathways and databases and furthermore, literature information from PubMed. The literature data was constrained to 18 most common cancer types such as breast cancer, colon cancer and other cancers that exhibit in worldwide population. NGS-cancer tools for the convenience have been categorized into cancer genomics, cancer transcriptomics, cancer epigenomics, quality control and visualization. Pipelines for variant detection, quality control and data analysis were listed to provide out-of-the box solution for NGS data analysis, which may help researchers to overcome challenges in selecting and configuring individual tools for analysing exome, whole genome and transcriptome data. An extensive search page was developed that can be queried by using (i) type of data [literature, gene data and sequence read archive (SRA) data] and (ii) type of cancer (selected based on global incidence and accessibility of data). For each category of analysis, variety of tools are available and the biggest challenge is in searching and using the right tool for the right application. The objective of the work is collecting tools in each category available at various places and arranging the tools and other data in a simple and user-friendly manner for biologists and oncologists to find information easier. To the best of our knowledge, we have collected and presented a comprehensive package of most of the resources available in cancer for NGS data analysis. Given these factors, we believe that this website will be an useful resource to the NGS research community working on cancer.Database URL: http://bioinfo.au-kbc.org.in/ngs/ngshome.html. |
X Demographics
The data shown below were collected from the profiles of 5 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 1 | 20% |
| Unknown | 4 | 80% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 5 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 58 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 2 | 3% |
| China | 1 | 2% |
| Canada | 1 | 2% |
| Brazil | 1 | 2% |
| Unknown | 53 | 91% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 15 | 26% |
| Student > Ph. D. Student | 7 | 12% |
| Student > Master | 7 | 12% |
| Student > Bachelor | 5 | 9% |
| Student > Doctoral Student | 3 | 5% |
| Other | 12 | 21% |
| Unknown | 9 | 16% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 13 | 22% |
| Agricultural and Biological Sciences | 12 | 21% |
| Computer Science | 8 | 14% |
| Medicine and Dentistry | 4 | 7% |
| Engineering | 3 | 5% |
| Other | 5 | 9% |
| Unknown | 13 | 22% |
Attention Score in Context
This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 10 October 2015.
All research outputs
#16,046,765
of 25,373,627 outputs
Outputs from Database: The Journal of Biological Databases & Curation
#611
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Outputs of similar age
#154,507
of 290,035 outputs
Outputs of similar age from Database: The Journal of Biological Databases & Curation
#13
of 25 outputs
Altmetric has tracked 25,373,627 research outputs across all sources so far. This one is in the 34th percentile – i.e., 34% of other outputs scored the same or lower than it.
So far Altmetric has tracked 1,043 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 6.3. This one is in the 36th percentile – i.e., 36% of its peers scored the same or lower than it.
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We're also able to compare this research output to 25 others from the same source and published within six weeks on either side of this one. This one is in the 36th percentile – i.e., 36% of its contemporaries scored the same or lower than it.