Table 2

Second level GO terms that differed when comparing QTL to the entire genome using GeneMerge.

QTL Category

GO Code

Description

Population Frequency

QTL/Population

p value


Body Conformation

GO:0044456

synapse part

0.00429

4.00155

0.0004

Body Conformation

GO:0045202

synapse

0.00810

3.06373

0.0004

Disease Resistance

GO:0022414

reproductive process

0.00664

2.31530

0.0030

Fat

GO:0040007

growth

0.01040

1.20290

0.0197

Growth

GO:0005623

cell

0.42688

1.05397

0.0014

Growth

GO:0031974

membrane-enclosed lumen

0.02531

1.24800

0.0070

Growth

GO:0044464

cell part

0.42683

1.05408

0.0014

Growth

GO:0009987

cellular process

0.40776

1.06011

0.0007

Growth

GO:0005215

transporter activity

0.05160

1.18584

0.0034

Growth

GO:0030528

transcription regulator activity

0.04947

1.15047

0.0161

Milk Protein

GO:0044421

extracellular region part

0.01633

1.21375

0.0196

Milk Yield

GO:0005623

cell

0.42688

1.04582

0.0041

Milk Yield

GO:0044464

cell part

0.42683

1.04531

0.0044

Milk Yield

GO:0009987

cellular process

0.40776

1.04050

0.0123

Milk Yield

GO:0030528

transcription regulator activity

0.04947

1.16269

0.0077

Milk Yield

GO:0043234

protein complex

0.07580

1.11389

0.0160

Reproduction

GO:0008152

metabolic process

0.27284

1.05689

0.0174

Reproduction

GO:0005488

binding

0.38440

1.06651

0.0007

Reproduction

GO:0009987

cellular process

0.40776

1.04258

0.0159

Reproduction

GO:0030528

transcription regulator activity

0.04947

1.24460

0.0005

Reproduction

GO:0043226

organelle

0.25103

1.08465

0.0015

Reproduction

GO:0005198

structural molecule activity

0.02566

1.26584

0.0059


The table describes second level GO terms found to be significantly over represented via hypergeometric analysis. The 'QTL categories' group provides the category from which the subsequent terms were found to be in abundance. Population frequency describes the frequency of the occurrence of the term genome wide. QTL/Population describes the ratio of the frequency of a GO code within a QTL region compared to the frequency of that GO code genome wide.

Salih and Adelson BMC Genomics 2009 10:184   doi:10.1186/1471-2164-10-184

Open Data