Data from: Immune response genes and pathogen presence predict migration survival in wild salmon smolts

Jeffries KM, Hinch SG, Gale MK, Clark TD, Lotto AG, Casselman MT, Li S, Rechisky EL, Porter AD, Welch DW, Miller KM

Date Published: October 29, 2014

DOI: http://dx.doi.org/10.5061/dryad.rn5c0

 

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Title RMark Survival Estimation for Chilko 2012
Downloaded 9 times
Description This file contains the R script used to estimate survival of Chilko Lake sockeye smolts with a Cormack-Jolly-Seber model using Program MARK via RMark.
Download Survival_Estimation_for_Chilko2012_compare_...us.r (4.303 Kb)
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Title CH_RMark Chilko sockeye survival
Downloaded 4 times
Description This file contains the capture histories (CH), or technically the detection histories, for acoustic tagged Chilko Lake sockeye. This file is called by the accompanying R script to produce survival and detection probabilities.
Download CH_RMark2013-08-13_V7_NO_FAR_or_MISS.txt (8.161 Kb)
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Title Delta_Method_for_Chilko2012
Downloaded 6 times
Description This file contains the R script used to estimate the variance on the Chilko sockeye cumulative survival estimates using the delta method.
Download Delta_Method_for_Chilko2012_compare_clip_status.r (3.558 Kb)
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Title Chilko Lake sockeye survival estimates
Downloaded 3 times
Description This file contains the Chilko Lake sockeye CJS survival estimates which are used to calculate cumulative survival. This file is called by the accompanying delta method R script.
Download Estimates_V7_p67.csv (282 bytes)
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Title VCV matrix
Downloaded 4 times
Description This file contains the Chilko Lake sockeye CJS variance-covariance estimates which are used to calculate the variance on cumulative survival estimates. This file is called by the accompanying delta method R script.
Download realVCmatrix_V7_p67.csv (3.118 Kb)
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Title Jeffries et al. Chilko Lake Sockeye Salmon Smolt data summary
Downloaded 5 times
Description This file summarizes data collected on acoustic tagged Chilko Lake sockeye salmon smolts including tag ID, length, weight, fish IDs for qPRC analysis, survival group and detection history.
Download Jeffries et al. Chilko Lake Sockeye Salmo...ry.txt (32.23 Kb)
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Title Jeffries et al. Data from laboratory gill sampling validation study
Downloaded 3 times
Description This file contains the data from a preliminary study on smolt-sized sockeye salmon to validate that gill sampling and tagging fish would have minimal effect on survival.
Download Jeffries et al. Data from laboratory gill...dy.txt (8.655 Kb)
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Title Jeffries et al. qPCR results for Pathogen screening
Downloaded 9 times
Description This file contains the qPCR results from the pathogen screening conducted on gill samples from 2012 2 year old Chilko Lake sockeye salmon smolts, and archived gill samples of fish from the same cohort, a co-migrating cohort, or the parent generation.
Download Jeffries et al. qPCR results for Pathogen...ng.txt (29.63 Kb)
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Title Jeffries et al. qPCR results for 2012 2 yr old smolt gene expression assays
Downloaded 4 times
Description This file contains the qPCR results from the 50 genes that were assayed in gill tissue collected from 2 year old Chilko Lake sockeye salmon smolts in 2012.
Download Jeffries et al. qPCR results for 2012 2 y...ys.txt (67.68 Kb)
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When using this data, please cite the original publication:

Jeffries KM, Hinch SG, Gale MK, Clark TD, Lotto AG, Casselman MT, Li S, Rechisky EL, Porter AD, Welch DW, Miller KM (2014) Immune response genes and pathogen presence predict migration survival in wild salmon smolts. Molecular Ecology 23(23): 5803-5815. http://dx.doi.org/10.1111/mec.12980

Additionally, please cite the Dryad data package:

Jeffries KM, Hinch SG, Gale MK, Clark TD, Lotto AG, Casselman MT, Li S, Rechisky EL, Porter AD, Welch DW, Miller KM (2014) Data from: Immune response genes and pathogen presence predict migration survival in wild salmon smolts. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.rn5c0
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