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Papers: 10.1186/s13073-020-0710-2

https://doi.org/10.1186/s13073-020-0710-2

Interactions between the gut microbiome and host gene regulation in cystic fibrosis

Cited by: 65
Author(s): Gargi Dayama, Sambhawa Priya, David Niccum, Alexander Khoruts, Ran Blekhman
Published: almost 7 years ago

Software Mentions 10

bioconductor: decontam
Identify Contaminants in Marker-gene and Metagenomics Sequencing Data
Papers that mentioned: 76
Very Likely Science (100)
bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583
Very Likely Science (100)
bioconductor: phyloseq
Handling and analysis of high-throughput microbiome census data
Papers that mentioned: 1,702
Very Likely Science (75)
bioconductor: qvalue
Q-value estimation for false discovery rate control
Papers that mentioned: 248
Very Likely Science (100)
bioconductor: tximport
Import and summarize transcript-level estimates for transcript- and gene-level analysis
Papers that mentioned: 367
Very Likely Science (100)
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
Very Likely Science (100)
cran: vegan
Community Ecology Package
Papers that mentioned: 6,903
Very Likely Science (100)
pypi: decontam
Decontaminate paired-end DNA sequencing data
Papers that mentioned: 76
Very Likely Science (75)
pypi: kallisto
The Kallisto software enables the efficient calculation of atomic features that can be used within a quantitative structure-activity relationship (QSAR) approach. Furthermore, several modelling helpers are implemented.
Papers that mentioned: 307
Very Likely Science (100)
pypi: sleuth
Papers that mentioned: 59
Very Likely Science (65)