InfernoRDN statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool InfernoRDN
info

Tool usage distribution map

This map represents all the scientific publications referring to InfernoRDN per scientific context
info info

Associated diseases

This word cloud represents InfernoRDN usage per disease context
info

Popular tool citations

chevron_left Label-free protein quantification chevron_right
Want to access the full stats & trends on this tool?

Protocols

InfernoRDN specifications

Information


Unique identifier OMICS_18443
Name InfernoRDN
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Programming languages Java
License GNU General Public License version 3.0
Computer skills Medium
Version 1.1.6109
Stability Stable
Maintained Yes

Download


download.png

Versioning


No version available

Maintainer


  • person_outline Matthew Monroe

Additional information


InfernoRDN is an updated version of Inferno (which used StatconnDCOM). InfernoRDN supersedes all previous DAnTE (Data Analysis Tool Extension), DanteR, and Inferno versions.

InfernoRDN citations

 (14)
call_split

Insights into the Evolution of Host Association through the Isolation and Characterization of a Novel Human Periodontal Pathobiont, Desulfobulbus oralis

2018
MBio
PMCID: 5850319
PMID: 29535201
DOI: 10.1128/mBio.02061-17
call_split See protocol

[…] d by summing together the intensities of all identified peptides and normalized by their respective protein lengths. Protein abundances were log2 transformed and median centered across all samples in InfernoRDN version 1.1 ().To investigate enriched secreted proteins, we performed Student’s t tests between the cell pellet and the spent medium (supernatant) samples using the Perseus software platfo […]

library_books

Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves

2018
PLoS One
PMCID: 5813909
PMID: 29447168
DOI: 10.1371/journal.pone.0190019

[…] lerance of 10 ppm; no retention time alignment. Protein abundances were calculated by summing together their respective peptide intensities. Log 2-transformed protein intensities were loaded into the InfernoRDN v1.1 [] software and values were normalized by median centering adjustments across the global dataset. […]

library_books

Multi omics Comparative Analysis Reveals Multiple Layers of Host Signaling Pathway Regulation by the Gut Microbiota

2017
mSystems
PMCID: 5655592
PMID: 29085914
DOI: 10.1128/mSystems.00107-17

[…] e Consortium database (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository () with data set identifier PXD003177.The protein group abundance values were log2 transformed, and InfernoRDN (https://omics.pnl.gov/software/infernordn) () was used to perform 3-way ANOVAs. As with the transcriptomics InfernoRDN 3-way ANOVAs (described above), each ANOVA produced a q value for eac […]

library_books

Enhanced differential expression statistics for data independent acquisition proteomics

2017
Sci Rep
PMCID: 5517573
PMID: 28724900
DOI: 10.1038/s41598-017-05949-y

[…] om the peptide-level to improve the accuracy of the results by estimating the significance of median peptide-level p-values using the beta distribution. This approach is different from tools, such as InfernoRDN (formerly known as DAnTE), which roll up already the peptide-level abundances before applying any statistical testing. To demonstrate the benefits of ROPECA over the previously published ap […]

call_split

Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells

2017
Sci Rep
PMCID: 5327387
PMID: 28240279
DOI: 10.1038/srep43583
call_split See protocol

[…] g Myrimatch v. 2.1. Peptide spectrum matches were filtered by IDPicker v.3 (FDR < 1%), assigned matched-ion intensities, and peptide abundance distributions normalized and assembled to proteins using InfernoRDN, as previously described. For statistical analyses, missing protein abundance values were first imputed with a distribution of values near the limit of detection and one way ANOVA performed […]

call_split

Bursaphelenchus xylophilus and B. mucronatus secretomes: a comparative proteomic analysis

2016
Sci Rep
PMCID: 5150578
PMID: 27941947
DOI: 10.1038/srep39007
call_split See protocol

[…] umming all the filtered transitions from all the filtered peptides for a given protein and normalized to the total intensity within the same experimental condition. Correlation analysis, performed in InfernoRDN (version 1.1.5581.33355), was used to identify and excluded the less correlated replicates from the posterior analyses. Statistical analysis was performed in MarkerViewTM (version 1.2.1.1, […]


Want to access the full list of citations?

InfernoRDN reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review InfernoRDN