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CircadiOmics specifications

Information


Unique identifier OMICS_13346
Name CircadiOmics
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Pierre Baldi

Publications for CircadiOmics

CircadiOmics citations

 (8)
library_books

Guidelines for Genome Scale Analysis of Biological Rhythms

2017
J Biol Rhythms
PMCID: 5692188
PMID: 29098954
DOI: 10.1177/0748730417728663

[…] atabase: PRoteomics IDEntifications (PRIDE). Metabolomic data are typically deposited in MetaboLights (EBI) or the Metabolomics Workbench (UCSD). Circadian-specific data sets can also be deposited in CircadiOmics (). Similarly, it is recommended that authors upload all custom-built analytical methods to online repositories such as BitBucket, GitHub, or Sourceforge. […]

library_books

Circadian Metabolomics in Time and Space

2017
Front Neurosci
PMCID: 5504240
PMID: 28744188
DOI: 10.3389/fnins.2017.00369

[…] metabolites peak prior to the onset of the dark phase, consistent with an advanced onset of food intake. The circadian metabolomes of these and other circadian models can be found at the website for CircadiOmics (http://circadiomics.igb.uci.edu/). (For data integration and analysis with the corresponding transcriptomes also see Patel et al., , ).Another open issue based on these results is the ex […]

library_books

Circadian Rhythm and Sleep Disruption: Causes, Metabolic Consequences, and Countermeasures

2016
PMCID: 5142605
PMID: 27763782
DOI: 10.1210/er.2016-1083

[…] homeostasis, in addition to identifying novel biomarkers of metabolic dysfunction and circadian system and sleep disruption. Online repositories for omics datasets (for example, Circadi0mics; http://circadiomics.igb.uci.edu/) could facilitate discoveries by integrating multiple omics approaches and displaying temporal aspects of verified and predicted network interactions between key metabolic re […]

library_books

Cross‐talk between circadian clocks, sleep‐wake cycles, and metabolic networks: Dispelling the darkness

2016
BioEssays
PMCID: 4817226
PMID: 26866932
DOI: 10.1002/bies.201500056

[…] tudy by Sassone‐Corsi and colleagues demonstrated synergistic links between oscillations in the circadian transcriptome and metabolic pathways . Furthermore, the same research group has developed the CircadiOmics platform (http://circadiomics.igb.uci.edu/), which is a computational framework that could serve as a repository for metabolomics and other “omics” level high‐throughput data associated w […]

library_books

Interdependence of nutrient metabolism and the circadian clock system: Importance for metabolic health

2016
PMCID: 4770266
PMID: 26977390
DOI: 10.1016/j.molmet.2015.12.006

[…] 08 h and some water soluble vitamins (B and C) are also regulated in a circadian manner and display oscillations in certain tissues examined to date and under certain dietary regimes , , (also see: circadiomics.igbuci.edu).A specific set of molecules receiving attention from a circadian perspective during the last decade is polyphenols, which are found frequently in certain foods and possess a w […]

library_books

Therapeutic applications of circadian rhythms for the cardiovascular system

2015
Front Pharmacol
PMCID: 4400861
PMID: 25941487
DOI: 10.3389/fphar.2015.00077

[…] a liquid chromatography mass spectrometry approach (). This same group subsequently applied their molecular metabolite timetable concept to successfully estimate internal body time in humans (). The CircadiOmics website provides a consolidated model that integrates these metabolomic data with genomics and proteomics, to better understand time-of-day coordination of physiology/pathophysiology (). […]


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CircadiOmics institution(s)
Department of Computer Science, University of California, Irvine (UCI), Irvine, CA, USA; Institute for Genomics and Bioinformatics, UCI, Irvine, CA, USA; Department of Biological Chemistry, UCI, Irvine, CA, USA; Center for Epigenetics and Metabolism, UCI, Irvine, CA, USA
CircadiOmics funding source(s)
This work was supported by US National Institutes of Health National Research Service Award F32 DK083881, NIH GM081634 and AG033888, Sirtris Pharmaceuticals SP-48984, National Science Foundation IIS-0513376, NIH LM010235 and NIH National Library of Medicine T15 LM07443.

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