H12/GNS/3/2

This page describes a signal of selection found in the Guinea An. gambiae populationusing the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 3R between positions 4,600,000 and 5,060,000. The evidence supporting this signal is moderate (\Delta_{i} >= 50 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 41 genes overlap the focal region: AGAP028427, AGAP008033, AGAP013760, AGAP008034 (solute carrier family 39 (zinc transporter), member 7), AGAP008035, AGAP008036, AGAP008037 (KDEL (Lys-Asp-Glu-Leu) containing 1, isoform CRA_a), AGAP008039 (protein kinase A), AGAP008040, AGAP008041 (RING finger protein 121), AGAP0080421 (pyridine nucleotide-disulfide oxidoreductase domain 1), AGAP008043 (mRpS18B - 28S ribosomal protein S18B, mitochondrial), AGAP0080441 (programmed cell death 8 (apoptosis-inducing factor)), AGAP008045 (transcription initiation factor TFIID subunit 13), AGAP013736, AGAP008046 (protein kinase C and casein kinase substrate in neurons 2 protein), AGAP013713, AGAP008047 (integrator complex subunit 1), AGAP008048, AGAP008049 (cell division cycle 123 homolog), AGAP008050 (phosphorylated adapter RNA export protein), AGAP008051 (SAP1 - sensory appendage protein 1), AGAP008052 (SAP2 - sensory appendage protein 2), AGAP008053 (sphingomyelin phosphodiesterase 2), AGAP008054 (SAP3 - sensory appendage protein 3), AGAP008055 (CSP3 - chemosensory protein 3), AGAP008056, AGAP029127 (CSP5 - chemosensory protein 5), AGAP008059 (CSP1 - chemosensory protein 1), AGAP008060 (IDGF2 - imaginal disc growth factor 2), AGAP008061 (IDGF4 - imaginal disc growth factor 4), AGAP008062 (CSP4 - chemosensory protein 4), AGAP008063 (exosome complex component CSL4), AGAP008064 (uroporphyrinogen-III synthase), AGAP008065, AGAP013757, AGAP008067, AGAP028713, AGAP028712, AGAP028714, AGAP028715.

The following 10 genes are within 50 kbp of the focal region: AGAP028720, AGAP028593, AGAP008070 (carboxypeptidase B), AGAP008071, AGAP0080721, AGAP008073, AGAP008074 (phosphatidylinositol glycan, class U), AGAP013103, AGAP008075 (cellular nucleic acid-binding protein), AGAP008077.

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
IHS/GNS/3/2 IHS Guinea An. gambiae 3R:4,400,000-4,960,000 508 99.0% nan
IHS/BFS/3/2 IHS Burkina Faso An. gambiae 3R:4,340,000-4,740,000 504 95.7% 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   = 68
    # data points      = 399
    # variables        = 4
    chi-square         = 0.018
    reduced chi-square = 0.000
    Akaike info crit   = -3976.968
    Bayesian info crit = -3961.012
[[Variables]]
    center:      0 (fixed)
    amplitude:   0.02443027 +/- 0.001436 (5.88%) (init= 0.5)
    sigma:       0.77651897 +/- 0.055356 (7.13%) (init= 0.5)
    skew:        0.28567065 +/- 0.080002 (28.01%) (init= 0)
    baseline:    0.02370022 +/- 0.000398 (1.68%) (init= 0.03)
    ceiling:     1 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, sigma)          = -0.466
    C(sigma, baseline)           = -0.323
    C(amplitude, baseline)       = -0.196
    C(sigma, skew)               = -0.152

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 9
    # data points      = 398
    # variables        = 1
    chi-square         = 0.034
    reduced chi-square = 0.000
    Akaike info crit   = -3723.947
    Bayesian info crit = -3719.961
[[Variables]]
    c:   0.02664466 +/- 0.000465 (1.75%) (init= 0.03)

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