Algal Functional Annotation Tool statistics

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Algal Functional Annotation Tool specifications

Information


Unique identifier OMICS_02226
Name Algal Functional Annotation Tool
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for Algal Functional Annotation Tool

Algal Functional Annotation Tool citations

 (5)
library_books

Genetic Engineering: A Promising Tool to Engender Physiological, Biochemical, and Molecular Stress Resilience in Green Microalgae

2016
Front Plant Sci
PMCID: 4815356
PMID: 27066043
DOI: 10.3389/fpls.2016.00400

[…] roteomic, and metabolomic studies will be crucial in demarcating gateways to metabolic flux for boosting algal strain-engineering strategies (). In addition, a battery of bioinformatic softwares like Algal Functional Annotation Tool, GreenCut2, AlgaGEM, Bag2D, PredAlgo (; ; ; ; ), and in silico kinetic and metabolic reconstruction models are now available for gene/protein characterization, gene me […]

library_books

Stress responses of the oil producing green microalga Botryococcus braunii Race B

2016
PeerJ
PMCID: 5144741
PMID: 27957393
DOI: 10.7717/peerj.2748

[…] B. braunii. Additionally, C. reinhardtii genes classified by their functional annotations as defense, stress, or cell death related were used to identify orthologous sequences in B. braunii with the Algal Functional Annotation Tool () in the B. braunii Race B transcriptome database housed at the University of California, Los Angeles (http://pathways-pellegrini.mcdb.ucla.edu/botryo1/). The resulti […]

call_split

System level network analysis of nitrogen starvation and recovery in Chlamydomonas reinhardtii reveals potential new targets for increased lipid accumulation

2014
Biotechnol Biofuels
PMCID: 4320484
PMID: 25663847
DOI: 10.1186/s13068-014-0171-1
call_split See protocol

[…] nsidered for this work. Protein functions were identified using the BioMart tool available at Phytozome (http://www.phytozome.org), Mercator (http://MapMan.gabipd.org/web/guest/app/mercator), and the Algal Functional Annotation Tool [].The identified proteins were quantitated by a label-free approach based on total ion count followed by an NSAF normalization strategy:NSAFk=PSM/Lk∑i=1NPSM/Liin whic […]

library_books

Phosphoprotein SAK1 is a regulator of acclimation to singlet oxygen in Chlamydomonas reinhardtii

2014
eLife
PMCID: 4067076
PMID: 24859755
DOI: 10.7554/eLife.02286.025

[…] 1O2, 515 genes were up-regulated at least twofold with a false discovery rate (FDR) smaller than 1% (, C1), and 33% of these could be categorized into functional classes based on MapMan () using the Algal Functional Annotation Tool () (). The enriched classes are marked with asterisks, and the genes within those classes are listed in . Genes involved in sterol/squalene/brassinosteroid metabolism […]

library_books

Bio crude transcriptomics: Gene discovery and metabolic network reconstruction for the biosynthesis of the terpenome of the hydrocarbon oil producing green alga, Botryococcus braunii race B (Showa)*

2012
BMC Genomics
PMCID: 3533583
PMID: 23110428
DOI: 10.1186/1471-2164-13-576

[…] ning environments are commonly used to facilitate the analysis of large-scale datasets and to provide a public repository of functional data. Several such tools are available for algae, including the Algal Functional Annotation Tool, which allows visualization of sets of transcripts on pathway maps and provides for statistically rigorous functional analysis of large sets of transcripts [].Economic […]


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Algal Functional Annotation Tool institution(s)
Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA

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