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Otauri_degradation_rates.csv
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Ot gene Idb,Deg rate (h-1),Half life (h) OtCpg00590,0.00962882402351,71.9866910921 OtCpg00100,0.00763488062914,90.7869047637 Ot18g02040,0.0031925173468,217.11618302 Ot08g01880,0.00125773571453,551.107178202 Ot05g03850,0.000910345528873,761.41108906 Ot12g01070,0.00119947118214,577.877310338 Ot03g04370,0.0029310842501,236.481493337 OtCpg00470,0.0184074083192,37.6558811833 Ot13g00910,0.0021453705963,323.089717811 Ot01g06200,0.000785434806596,882.501227013 Ot04g02690,0.00789126692109,87.8372493912 Ot14g01370,0.00154559043526,448.467566018 OtCpg00250,0.00633320923591,109.446436197 Ot13g00230,0.00250750314805,276.429236429 Ot01g03020,0.00445604504573,155.552103591 Ot10g03300,0.00541945719916,127.899742555 Ot05g01790,0.00341126778215,203.193423919 Ot16g02550,0.00100411285724,690.308042131 Ot10g03520,0.00679321131254,102.035274434 OtCpg00010,0.0114801961257,60.3776427658 Ot10g02850,0.00219304913353,316.065504399 Ot01g01490,0.00565832211765,122.500480911 OtCpg00040 ,0.00543609905352,127.508195442 Ot07g04240,0.0041296731442,167.845530713 Ot03g00210,0.00393559162891,176.122739836 Ot14g00200,0.00192772077429,359.568247541 Ot12g00400,0.00273246758283,253.670779085 Ot04g01880,0.00230883724522,300.214829779 Ot18g01370 ,0.00219163720591,316.269124603 Ot02g06800,0.0341435790653,20.3009526106 Ot14g02820,0.00944291240001,73.4039617438 Ot16g01660,0.00167314625342,414.277699361 Ot16g00030,0.00189505848562,365.765587616 Ot04g02900,0.00288021290534,240.658313583 Ot01g04890,0.00120502363842,575.21459203 Ot02g00850,0.00186819909026,371.024257625 Ot18g01390,0.00137602467568,503.731650174 OtCpg00180,0.00417792497675,165.907043429 Ot09g04190,0.00120103133059,577.126643498 OtMtg00170,0.00203283049833,340.976378075
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Created: 15th Jan 2018 at 21:07
Last updated: 20th Feb 2018 at 22:03
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Version 1 (earliest) Created 15th Jan 2018 at 21:07 by Daniel Seaton
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https://orcid.org/0000-0002-5222-3893
The Centre for Engineering Biology is the University of Edinburgh's research organisation in interdisciplinary, Synthetic and Systems Biology, founded in 2023 as the successor to SynthSys, itself founded in 2012 as the successor to the Centre for Systems Biology at Edinburgh (CSBE). CSBE was newly founded in 2007. The Centre for Engineering Biology is a hub organisation that links across multiple, major funding awards, including an Engineering Biology Mission Hub, and EPSRC C-loop.
Projects: Millar group, PHYTOCAL: Phytochrome Control of Resource Allocation and Growth in Arabidopsis and in Brassicaceae crops, TiMet, POP - the Parameter Optimisation Problem, Regulation of flowering time in natural conditions, PlaSMo model repository, BioDare1
Web page: https://biology.ed.ac.uk/centre-engineering-biology
Andrew Millar's research group, University of Edinburgh
Programme: Centre for Engineering Biology (prev. SynthSys)
Public web page: http://www.amillar.org
Click on Snapshot 2 to download data, models and analysis for Daniel Seaton et al. biorXiv 2017 https://doi.org/10.1101/182071 and Molecular Systems Biology, accepted Jan 2018, https://doi.org/10.15252/msb.20177962. Note that the published paper cannot be fully linked into this record as the DOI above was not live when we made the Research Object from this Investigation on FAIRDOMHub.
Submitter: Andrew Millar
Studies: Modelling and analysis of translational coincidence, Photoperiod-specific proteome data for Arabidopsis, Proteome and translation rate data for the Ostreococcus alga and for cya..., Rhythmic and photoperiod-specific transcriptome datasets for Arabidopsis
Assays: Aryal et al, 2011, metabolic labelling of Cyanothece protein synthesis, Blasing et al, 2005, diurnal microarray in 12L:12D, Estimation of rates of translation and turnover from proteomics datasets, Martin et al, 2012, Ostreococcus N15 labelling proteomics data, Photoperiod proteomics, Stitt lab, TiMet photoperiod microarrays, Translational coincidence model
Literature data and associated scripts analysed in the Seaton et al. 2017 study; data processing by Daniel Seaton.
Submitter: Andrew Millar
Investigation: Photoperiodic control of the Arabidopsis proteo...
Assays: Aryal et al, 2011, metabolic labelling of Cyanothece protein synthesis, Estimation of rates of translation and turnover from proteomics datasets, Martin et al, 2012, Ostreococcus N15 labelling proteomics data
Data and Python scripts to run the analysis of literature data that estimates rates of protein synthesis in the light and dark, and overall rates of protein turnover, in Cyanothece and Ostrecoccus tauri.
Submitter: Daniel Seaton
Biological problem addressed: Model Analysis Type
Investigation: Photoperiodic control of the Arabidopsis proteo...
