XPEHH/CMS.UGS/2/1

This page describes a signal of selection found in the Cameroon An. gambiae population when compared with the Uganda An. gambiae population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 41,020,000 and 41,400,000. 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 21 genes overlap the focal region: AGAP003651 (Tyrosine-protein kinase Fes/Fps), AGAP012992, AGAP013502, AGAP0036521 (aldehyde dehydrogenase (NAD )), AGAP003654 (GPRCAL3 - putative calcitonin receptor 3), AGAP003655 (RNA methyltransferase like 1), AGAP013179, AGAP003656 (Terribly reduced optic lobes, isoform B), AGAP003657, AGAP003658 (GPRALS1 - putative allatostatin receptor 1), AGAP003660, AGAP003661, AGAP003662 (Prenylated Rab acceptor protein 1), AGAP013323, AGAP003663 (ATP-dependent RNA helicase DBP2), AGAP013457 (CDC-like kinase 2), AGAP003664 (Envelysin), AGAP013358, AGAP003665, AGAP003666 (E3 ubiquitin-protein ligase RNF139), AGAP003667.

The following 2 genes are within 50 kbp of the focal region: AGAP003649, AGAP003650 (translation initiation factor eIF-2B subunit alpha).

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
H12/BFS/2/4 H12 Burkina Faso An. gambiae 2R:40,640,000-41,060,000 384 95.9% nan
IHS/BFM/2/2 IHS Burkina Faso An. coluzzii 2R:40,880,000-41,160,000 312 99.7% nan
XPEHH/CMS.GAS/2/2 XPEHH Cameroon An. gambiae 2R:41,220,000-41,320,000 236 99.9% 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   = 38
    # data points      = 621
    # variables        = 4
    chi-square         = 198.911
    reduced chi-square = 0.322
    Akaike info crit   = -698.992
    Bayesian info crit = -681.267
[[Variables]]
    center:      0 (fixed)
    amplitude:   3.77883680 +/- 0.089721 (2.37%) (init= 3)
    sigma:       0.66227186 +/- 0.023784 (3.59%) (init= 0.5)
    skew:        0.70319426 +/- 0.042851 (6.09%) (init= 0)
    baseline:    1.45032834 +/- 0.027424 (1.89%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(sigma, skew)               = -0.604
    C(amplitude, sigma)          = -0.408
    C(sigma, baseline)           = -0.294
    C(amplitude, baseline)       = -0.214

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 620
    # variables        = 1
    chi-square         = 916.100
    reduced chi-square = 1.480
    Akaike info crit   = 244.052
    Bayesian info crit = 248.482
[[Variables]]
    c:   2.01451466 +/- 0.048857 (2.43%) (init= 1)

Comments