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Table 1 Total number of changed stem transcripts in three major functional categories of B. napus DH12075 (DH) and YN01–429 (YN)

From: Transcriptome profiling of Brassica napus stem sections in relation to differences in lignin content

 

DH4:YN4

DH1:YN1

DH1:DH4

YN1:YN4

Up

Down

Up

Down

Up

Down

Up

Down

Cellular Component

 Other intracellular components

754

693

668

580

475

396

377

205

 Chloroplast

602

567

581

462

413

320

308

159

 Other cytoplasmic components

636

469

531

403

361

321

280

161

 Other membranes

531

482

466

483

374

290

284

156

 Unknown cellular components

607

607

513

373

463

352

347

187

 Plastid

291

343

260

303

174

151

246

122

 Plasma membrane

438

381

421

326

262

240

133

79

 Nucleus

392

227

331

200

247

203

181

107

 Other cellular components

284

285

184

153

225

162

163

103

 Mitochondria

198

191

210

188

125

94

97

55

 Cell wall

127

123

115

88

75

66

64

40

 Cytosol

121

102

106

80

66

66

56

31

 Extracellular

110

82

82

62

66

62

44

33

 ER

90

76

81

60

60

48

44

33

 Golgi apparatus

49

43

40

37

31

26

18

12

 Ribosome

23

23

23

18

16

13

10

8

Molecular Function

 Other enzyme activity

515

695

439

383

492

295

383

216

 Unknown molecular functions

650

471

578

515

341

376

259

156

 Other binding

525

469

455

393

327

274

248

150

 Transferase activity

295

308

243

229

211

186

188

100

 Hydrolase activity

341

328

275

299

240

199

151

98

 Protein binding

351

260

306

230

223

199

176

115

 Nucleotide binding

279

132

231

217

131

96

139

53

 Kinase activity

137

245

114

110

175

143

85

88

 DNA or RNA binding

257

182

160

183

83

125

121

73

 Transporter activity

164

201

197

131

153

93

70

56

 Other molecular functions

185

157

143

110

122

93

103

45

 Transcription factor activity

165

149

130

115

117

93

79

47

 Nucleic acid binding

119

111

98

102

76

64

61

28

 Structural molecule activity

35

22

28

25

26

16

20

8

 Receptor binding or activity

15

18

17

12

16

10

9

5

Biological Process

 Other cellular processes

1254

1145

1066

943

803

710

641

398

 Other metabolic processes

1139

1016

974

860

754

664

597

364

 Unknown biological processes

763

760

637

575

583

418

444

233

 Response to abiotic or biotic stimulus

387

373

350

279

221

197

200

115

 Response to stress

381

342

337

263

206

188

181

115

 Other biological processes

353

334

325

269

215

197

183

105

 Protein metabolism

375

359

333

317

247

229

130

127

 Developmental processes

251

261

222

181

197

158

189

83

 Transport

266

232

232

193

165

124

139

85

 Cell organization and biogenesis

171

154

150

137

127

110

97

56

 Transcription

159

146

130

119

104

88

73

42

 Electron transport or energy pathways

81

74

61

54

51

31

45

17

 Signal transduction

75

52

66

46

39

38

37

22

 DNA or RNA metabolism

35

27

24

21

25

20

18

14

  1. NB data was ranked in descending order using the DH4-YN4 pair wise comparison. Up., upregulated. Down, down regulated