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Table 3 Random forest analysis of plasticity in seminal fluid composition

From: Sperm competition risk drives plasticity in seminal fluid composition

Protein

Name

Importance

Importance

T-Test

95 % CI

   

p

q

P18242

Cathepsin D

46.398

45.14 - 47.63

0.000

0.002

Q64356

SVS 6

30.231

28.99 - 31.76

0.003

0.038

P48036

Annexin A5

28.445

26.60 - 29.61

0.004

0.038

Q61400

CEACAM 10

12.745

10.64 - 14.67

0.019

0.088

P09411

Phosphoglycerate kinase

12.138

10.16 - 13.86

0.025

0.096

P30933

SVS 5

10.058

7.95 - 12.80

0.014

0.084

O08709

Peroxiredoxin-6

9.683

7.75 - 12.02

0.011

0.082

Q09098

PATE 4 / SVS 7

6.589

4.52 - 8.51

0.033

0.114

Q8CEK3

Spikl

6.043

3.56 - 8.09

0.020

0.088

P07759

Serine protease inhibitor A3K

5.887

3.21 - 7.92

0.062

0.138

P21460

Cystatin-C

4.772

2.65 - 7.28

0.061

0.138

P45376

Aldose reductase

4.673

2.19 - 6.88

0.717

0.793

P12032

Metalloproteinase inhibitor 1

2.288

−0.17 - 4.98

0.160

0.261

Q8BZH1

Transglutaminase 4

2.171

−0.16 - 4.01

0.992

0.992

P01887

Beta-2-microglobulin

2.140

−0.15 - 4.67

0.040

0.123

Q6WIZ7

SVS 1

1.240

−1.16 - 3.92

0.052

0.135

Q3SXH3

SVA

0.291

−1.48 - 2.25

0.111

0.214

P35700

Peroxiredoxin-1

0.199

−2.11 - 2.15

0.649

0.775

P18419

SVS 4

−0.169

−2.44 - 2.50

0.050

0.135

Q62216

SVS 2

−0.467

−2.70 - 2.07

0.070

0.144

Q9QY48

Deoxyribonuclease-2-beta

−0.644

−2.24 - 0.99

0.125

0.228

Q8VI13

SVS 3

−1.856

−3.77 - 0.16

0.135

0.232

Q01768

Nucleoside diphosphate kinase B

−1.949

−3.71 - 0.30

0.314

0.482

P81117

Nucleobindin-2

−2.434

−4.80 - 0.14

0.419

0.564

P20029

78 kDa glucose-regulated protein

−2.990

−5.36 - -1.08

0.446

0.576

P14152

Malate dehydrogenase

−3.549

−5.83 - -1.85

0.822

0.879

Q8BND

Sulfhydryl oxidase

−4.700

−6.64 - -2.85

0.327

0.482

P08228

Superoxide dismutase

−5.600

−7.48 - -3.23

0.370

0.522

Q07235

Glia-derived nexin

−5.685

−7.88 - -3.58

0.650

0.775

P07724

Serum albumin

−5.803

−8.10 - -3.49

0.913

0.943

P09036

Spink 3

−6.798

−8.7 - -5.00

0.703

0.793

  1. The table lists variable importance scores for each secreted seminal vesicle protein from the RF model used to classify samples according to sperm competition risk experienced by subject males. Proteins that differ between treatments will make a greater contribution to the accurate classification of samples in RF models and thus have higher variable importance scores. Proteins are arranged in descending order of variable importance. The first seven proteins listed are defined as being important for classifying samples according to the sperm competition risk treatment. These are proteins that have a score greater than 6.798, which is the absolute value of the lowest variable importance score of all proteins. The results of multiple t-tests are also provided for comparison to the results of RF models. P-values resulting from t-tests were corrected for multiple comparisons by the FDR using the Benjamini-Hochberg method to yield q-values.
  2. Abbreviations: SVS seminal vesicle secretory protein, CEACAM carcinoembryonic antigen-related cell adhesion molecule, Spikl serine protease inhibitor kazal-like, PATE4 prostate and testes expressed protein, Spink serine protease inhibitor kazal-type, RF Random Forest, FDR false discovery rate)
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BMC Biology

ISSN: 1741-7007

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