XPEHH/GWA.BFS/3/2

This page describes a signal of selection found in the Guinea Bissau population when compared with the Burkina Faso An. gambiae population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 3R between positions 6,320,000 and 6,360,000. The evidence supporting this signal is strong (\Delta_{i} >= 100 on both flanks).

Signal location. Blue markers show the values of the selection statistic. The dashed black line shows the fitted peak model. The shaded red area shows the focus of the selection signal. The shaded blue area shows the genomic region in linkage with the selection event. Use the mouse wheel or the controls at the top right of the plot to zoom in, and hover over genes to see gene names and descriptions.

Genes

The following 2 genes overlap the focal region: AGAP013774, AGAP008168.

The following 24 genes are within 50 kbp of the focal region: AGAP008160 (myb proto-oncogene protein), AGAP008161 (ribonuclease H2 subunit B), AGAP008162 (SNARE-associated protein Snapin), AGAP008163 (U4/U6 small nuclear ribonucleoprotein SNU13), AGAP008164 (La-related protein 7), AGAP008165 (cellular retinaldehyde binding protein), AGAP008166 (heparan sulfate 2-O-sulfotransferase HS2ST1), AGAP008167 (abhydrolase domain containing 4), AGAP013740, AGAP008169, AGAP008170, AGAP028664, AGAP028663, AGAP028692, AGAP028691, AGAP008173, AGAP013765, AGAP008174, AGAP008175, AGAP008176 (dipeptidyl-peptidase 4), AGAP008177, AGAP028550, AGAP008178, AGAP008179 (SCRBQ3 - Class B Scavenger Receptor (CD36 domain).).

Key to insecticide resistance candidate gene types: 1 metabolic; 2 target-site; 3 behavioural; 4 cuticular.

Overlapping selection signals

The following selection signals have a focus which overlaps with the focus of this signal.

Signal Statistic Population Focus Peak model \Delta_{i} Max. percentile Known locus
XPEHH/GWA.UGS/3/2 XPEHH Guinea Bissau 3R:6,280,000-6,340,000 206 99.9% nan
XPEHH/UGS.CMS/3/3 XPEHH Uganda An. gambiae 3R:6,360,000-6,400,000 201 99.9% nan
XPEHH/UGS.BFS/3/4 XPEHH Uganda An. gambiae 3R:6,360,000-6,400,000 137 99.9% nan
XPEHH/UGS.GWA/3/2 XPEHH Uganda An. gambiae 3R:6,360,000-6,400,000 120 99.3% nan

Diagnostics

The information below provides some diagnostics from the Peak modelling algorithm.

Selection signal in context. @@TODO

Peak targetting. @@TODO

Peak fitting diagnostics. @@TODO

Model fit reports

Peak model:

[[Model]]
    Model(skewed_gaussian)
[[Fit Statistics]]
    # function evals   = 52
    # data points      = 787
    # variables        = 4
    chi-square         = 208.975
    reduced chi-square = 0.267
    Akaike info crit   = -1035.572
    Bayesian info crit = -1016.899
[[Variables]]
    center:      0 (fixed)
    amplitude:   1.94501224 +/- 0.107991 (5.55%) (init= 3)
    sigma:       0.28384080 +/- 0.023949 (8.44%) (init= 0.5)
    skew:        0.99999993 +/- 0.104600 (10.46%) (init= 0)
    baseline:    1.42734526 +/- 0.019674 (1.38%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(sigma, skew)               = -0.570
    C(amplitude, sigma)          = -0.459
    C(sigma, baseline)           = -0.167
    C(amplitude, baseline)       = -0.130

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 786
    # variables        = 1
    chi-square         = 305.964
    reduced chi-square = 0.390
    Akaike info crit   = -739.583
    Bayesian info crit = -734.916
[[Variables]]
    c:   1.53944224 +/- 0.022268 (1.45%) (init= 1)

Comments