EU-kalat: Difference between revisions
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==== Initiate conc_pcddf for PFAS disease burden study ==== | ==== Initiate conc_pcddf for PFAS disease burden study ==== | ||
NOTE! This is not a probabilistic approach. Species and area-specific distributions should be created. | |||
<rcode name="pcddf_mean" label="Initiate conc_pcddf (for developers only)" embed=1> | <rcode name="pcddf_mean" label="Initiate conc_pcddf (for developers only)" embed=1> | ||
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library(OpasnetUtils) | library(OpasnetUtils) | ||
conc_pcddf_raw <- Ovariable("conc_pcddf_raw", ddata="Op_en3104", subset="POPs") | |||
conc_pcddf <- Ovariable( | conc_pcddf <- Ovariable( | ||
"conc_pcddf", | "conc_pcddf", | ||
dependencies = data.frame(Name=c("TEF"),Ident=c("Op_en4017/initiate")), # [[Toxic equivalency factor]] | dependencies = data.frame(Name=c("conc_pcddf_raw","TEF"),Ident=c(NA,"Op_en4017/initiate")), # [[Toxic equivalency factor]] | ||
formula = function(...) { | formula = function(...) { | ||
df <- | df <- conc_pcddf_raw # [[EU-kalat]] | ||
df <- df[df$Matrix=="Muscle" & df$Catch_site %in% c("Baltic Sea", "Helsinki, Vanhankaupunginlahti Bay"),c(3,4,6,18)] | df <- df[df$Matrix=="Muscle" & df$Catch_site %in% c("Baltic Sea", "Helsinki, Vanhankaupunginlahti Bay"), | ||
colnames(df) <- c("Compound","Fish","Area | c(1,3,4,6,18)] | ||
colnames(df@output)[1:4] <- c("Sample","Compound","Fish","Area") | |||
# df <- Ovariable("df",data=df, unit="pg/g fresh weight") | |||
out <- df * TEF | out <- df * TEF | ||
out <- oapply(out,c("Fish","Area"),sum) | out <- oapply(out,c("Sample","Fish","Area"),sum) # Sum over congeners | ||
out <- oapply(out,"Fish",mean) | out <- oapply(out,"Fish",mean) # Average over samples | ||
return(out) | return(out) | ||
}, | }, | ||
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) | ) | ||
objects.store(conc_pcddf) | objects.store(conc_pcddf, conc_pcddf_raw) | ||
cat(" | cat("Ovariables conc_pcddf, conc_pcddf_raw stored.\n") | ||
</rcode> | </rcode> | ||
Revision as of 17:00, 25 February 2021
This page is a study.
The page identifier is Op_en3104 |
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Moderator:Arja (see all) |
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EU-kalat is a study, where concentrations of PCDD/Fs, PCBs, PBDEs and heavy metals have been measured from fish
Question
The scope of EU-kalat study was to measure concentrations of persistent organic pollutants (POPs) including dioxin (PCDD/F), PCB and BDE in fish from Baltic sea and Finnish inland lakes and rivers. [1] [2] [3].
Answer
The original sample results can be acquired from Opasnet base. The study showed that levels of PCDD/Fs and PCBs depends especially on the fish species. Highest levels were on salmon and large sized herring. Levels of PCDD/Fs exceeded maximum level of 4 pg TEQ/g fw multiple times. Levels of PCDD/Fs were correlated positively with age of the fish.
Mean congener concentrations as WHO2005-TEQ in Baltic herring can be printed out with this link or by running the codel below.
Rationale
Data
Data was collected between 2009-2010. The study contains years, tissue type, fish species, and fat content for each concentration measurement. Number of observations is 285.
There is a new study EU-kalat 3, which will produce results in 2016.
Calculations
Preprocess
- Preprocess model 22.2.2017 [4]
- Objects used in Benefit-risk assessment of Baltic herring and salmon intake
- Model run 25.1.2017 [5]
- Model run 22.5.2017 with new ovariables euRaw, euAll, euMain, and euRatio [6]
- Model run 23.5.2017 with adjusted ovariables euRaw, eu, euRatio [7]
- Model run 11.10.2017: Small herring and Large herring added as new species [8]
- Model rerun 15.11.2017 because the previous stored run was lost in update [9]
- Model run 21.3.2018: Small and large herring replaced by actual fish length [10]
- Model run 26.3.2018 eu2 moved here [11]
See an updated version of preprocess code for eu on Health effects of Baltic herring and salmon: a benefit-risk assessment#Code for estimating TEQ from chinese PCB7
Bayes model for dioxin concentrations
- Model run 28.2.2017 [12]
- Model run 28.2.2017 with corrected survey model [13]
- Model run 28.2.2017 with Mu estimates [14]
- Model run 1.3.2017 [15]
- Model run 23.4.2017 [16] produces list conc.param and ovariable concentration
- Model run 24.4.2017 [17]
- Model run 19.5.2017 without ovariable concentration [18] ⇤--#: . The model does not mix well, so the results should not be used for final results. --Jouni (talk) 19:37, 19 May 2017 (UTC) (type: truth; paradigms: science: attack)
- Model run 22.5.2017 with TEQdx and TEQpcb as the only Compounds [19]
- Model run 23.5.2017 debugged [20] [21] [22]
- Model run 24.5.2017 TEQdx, TECpcb -> PCDDF, PCB [23]
- Model run 11.10.2017 with small and large herring [24] (removed in update)
- Model run 12.3.2018: bugs fixed with data used in Bayes. In addition, redundant fish species removed and Omega assumed to be the same for herring and salmon. [25]
- Model run 22.3.2018 [26] Model does not mix well. Thinning gives little help?
- Model run 25.3.2018 with conc.param as ovariable [27]
Initiate conc_pcddf for PFAS disease burden study
NOTE! This is not a probabilistic approach. Species and area-specific distributions should be created.
Initiate conc_pcddf for Goherr
- Model run 19.5.2017 [28]
- Model run 23.5.2017 with bugs fixed [29]
- Model run 12.10.2017: TEQ calculation added [30]
- Model rerun 15.11.2017 because the previous stored run was lost in update [31]
- 12.3.2018 adjusted to match the same Omega for all fish species [32]
- 26.3.2018 includes length and time as parameters, lengt ovariable initiated here [33]
⇤--#: . These codes should be coherent with POPs in Baltic herring. --Jouni (talk) 12:14, 7 June 2017 (UTC) (type: truth; paradigms: science: attack)
See also
References
- ↑ A. Hallikainen, H. Kiviranta, P. Isosaari, T. Vartiainen, R. Parmanne, P.J. Vuorinen: Kotimaisen järvi- ja merikalan dioksiinien, furaanien, dioksiinien kaltaisten PCB-yhdisteiden ja polybromattujen difenyylieettereiden pitoisuudet. Elintarvikeviraston julkaisuja 1/2004. [1]
- ↑ E-R.Venäläinen, A. Hallikainen, R. Parmanne, P.J. Vuorinen: Kotimaisen järvi- ja merikalan raskasmetallipitoisuudet. Elintarvikeviraston julkaisuja 3/2004. [2]
- ↑ Anja Hallikainen, Riikka Airaksinen, Panu Rantakokko, Jani Koponen, Jaakko Mannio, Pekka J. Vuorinen, Timo Jääskeläinen, Hannu Kiviranta. Itämeren kalan ja muun kotimaisen kalan ympäristömyrkyt: PCDD/F-, PCB-, PBDE-, PFC- ja OT-yhdisteet. Eviran tutkimuksia 2/2011. ISSN 1797-2981 ISBN 978-952-225-083-4 [3]