XPEHH/UGS.BFS/2/3

This page describes a signal of selection found in the Uganda An. gambiae 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 2R between positions 57,280,000 and 57,620,000. 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 39 genes overlap the focal region: AGAP004517 (huckebein), AGAP004518, AGAP004519 (sideroflexin 1,2,3), AGAP004520 (Ran-binding protein 3), AGAP004521 (SNW domain-containing protein 1), AGAP004522 (TBC1 domain family member 22B), AGAP004523, AGAP004524, AGAP004527 (N-acylneuraminate cytidylyltransferase), AGAP004528, AGAP004529, AGAP004530, AGAP004531 (cathepsin B precursor), AGAP004532 (3-ketoacyl-CoA reductase), AGAP004533 (cathepsin B), AGAP004534 (cathepsin B precursor), AGAP004535 (exportin 7), AGAP004537, AGAP004541, AGAP004543, AGAP004544 (solute carrier family 35, member F3/4), AGAP028407, AGAP004545, AGAP004546 (RNA-binding protein 25), AGAP004548 (LIM domain-containing protein), AGAP004549 (Protein yellow), AGAP004550 (dolichol-phosphate mannosyltransferase subunit 3), AGAP004551 (gamma-interferon-inducible lysosomal thiol reductase), AGAP004552, AGAP004553, AGAP004554, AGAP004555, AGAP004556 (ribosome biogenesis protein SSF1/2), AGAP004557 (U3 small nucleolar RNA-associated protein 21), AGAP004558 (nucleoporin NDC1), AGAP004559 (Ras-related protein), AGAP004560 (cohesin complex subunit SCC1), AGAP004562 (MFS transporter, PCFT/HCP family, solute carrier family 46 (folate transporter)), AGAP004563 (ANCE9 - angiotensin-converting enzyme 9).

The following 14 genes are within 50 kbp of the focal region: AGAP004513 (4-hydroxybenzoate hexaprenyltransferase), AGAP004514 (nuclear GTP-binding protein), AGAP004515, AGAP004516, AGAP004564 (soluble guanylate cyclase 89Da), AGAP013164, AGAP013254, AGAP004566 (Clipd1), AGAP004567 (Transmembrane protease serine 11B), AGAP004568 (Serine protease like protein), AGAP004569 (epidermis specific serine protease), AGAP004570 (Clipd1), AGAP004571 (Oviductin), AGAP013278.

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

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   = 58
    # data points      = 281
    # variables        = 4
    chi-square         = 181.687
    reduced chi-square = 0.656
    Akaike info crit   = -114.535
    Bayesian info crit = -99.982
[[Variables]]
    center:      0 (fixed)
    amplitude:   3.72244470 +/- 0.131779 (3.54%) (init= 3)
    sigma:       1.27679901 +/- 0.061390 (4.81%) (init= 0.5)
    skew:       -0.48151437 +/- 0.051450 (10.69%) (init= 0)
    baseline:    1.57988649 +/- 0.071674 (4.54%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, baseline)       = -0.459
    C(sigma, baseline)           = -0.459
    C(amplitude, sigma)          = -0.224

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 11
    # data points      = 280
    # variables        = 1
    chi-square         = 707.697
    reduced chi-square = 2.537
    Akaike info crit   = 261.623
    Bayesian info crit = 265.258
[[Variables]]
    c:   2.75811159 +/- 0.095177 (3.45%) (init= 1)

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