Table 1 Cell line differences in microRNA expression

4 h

24 h

4 h

24 h

ME-15

HuH7

CHF

ME-15

HuH7

CHF

ME-15

HuH7

CHF

ME-15

HuH7

CHF

microRNAs rated higher in HuH7

hsa-miR-122a

685

30,912

44.14***

704

32,058

44.51***

717

30,459

41.46***

876

29,044

32.17***

hsa-miR-224

359

10,085

27.07***

345

7,358

20.31***

358

8,183

21.87***

333

7,483

21.44***

hsa-miR-483

915

23,671

24.87***

811

18,073

21.29***

849

17,784

19.95***

802

17,554

20.88***

hsa-miR-200a

517

8,392

15.22***

667

13,543

19.29***

722

11,317

14.68***

500

12,649

24.30***

hsa-miR-218

405

5,654

12.96***

417

6,527

14.64***

419

5,764

12.76***

431

6,155

13.29***

hsa-miR-618

700

7,549

9.78***

649

8,128

11.52***

651

8,042

11.35***

616

7,416

11.03***

hsa-miR-215

638

6,826

9.71***

829

6,013

6.25***

663

6,641

9.02***

723

6,501

7.99***

hsa-miR-192

3,956

34,724

7.78***

3,401

34,181

9.05***

4,021

29,382

6.31***

3,343

33,293

8.96***

hsa-miR-194

4,410

32,950

6.47***

4,142

32,991

6.96***

4,700

33,182

6.06***

4,410

32,422

6.35***

hsa-miR-182

1,575

11,480

6.29 ***

2,541

13,088

4.15***

2,227

12,512

4.62***

3,067

13,907

3.53***

hsa-miR-452

434

2,284

4.27***

707

3,326

3.70***

530

3,378

5.37***

636

3,028

3.76***

hsa-miR-183

1,763

8,748

3.96***

2,123

8,945

3.21***

2,000

8,984

3.49***

2,129

8,258

2.88***

hsa-miR-200b

1,934

7,551

2.90***

1,692

9,633

4.69***

1,705

9,393

4.51***

1,911

10,855

4.68***

hsa-miR-143

1,355

5,087

2.75***

1,775

7,167

3.04***

1,698

5,688

2.35***

1,765

7,519

3.26***

hsa-miR-624

4,852

13,418

1.77**

4,188

11,593

1.77***

4,479

11,718

1.62**

3,872

10,539

1.72**

hsa-miR-99a

8,653

20,232

1.34**

8,887

20,645

1.32***

9,064

18,019

0.99**

8,870

19,506

1.20**

hsa-miR-27b

10,067

22,544

1.24**

11,924

23,914

1.01***

11,564

23,044

0.99***

12,182

24,515

1.01**

microRNAs rated higher in ME-15

hsa-miR-146a

36,976

15,721

-1.35**

33,410

16,103

-1.07***

35,166

15,137

-1.32***

35,688

19,962

-0.79***

hsa-miR-422b

19,264

7,759

-1.48**

19,962

7,832

-1.55***

20,641

7,462

-1.77***

17,453

7,152

-1.44***

hsa-miR-149

5,868

2,246

-1.61**

6,195

2,030

-2.05***

6,061

1,743

-2.48***

5,477

2,418

-1.26**

hsa-miR-510

1,051

368

-1.86***

1,489

396

-2.76***

1,435

366

-2.92***

1,053

384

-1.74***

hsa-miR-30a-5p

10,664

3,717

-1.87**

10,223

3,700

-1.76***

10,686

3,477

-2.07***

10,466

4,538

-1.31***

HS_98

3,274

1,065

-2.08**

3,225

859

-2.76***

3,445

965

-2.57***

2,850

750

-2.80***

hsa-miR-340

4,583

1,443

-2.18**

4,218

1,220

-2.46***

4,664

1,061

-3.40***

3,078

933

-2.30***

HS_182.1

1,965

615

-2.2**

1,687

606

-1.79**

1,903

562

-2.39***

1,844

534

-2.45***

hsa-miR-378

4,619

1,371

-2.37**

4,975

1,364

-2.65***

4,994

1,213

-3.12***

4,188

1,237

-2.38***

HS_305_b

4,105

1,207

-2.40*

3,853

833

-3.63***

4,278

977

-3.38***

3,688

1,076

-2.43***

hsa-miR-505

1,312

343

-2.83***

2,070

342

-5.05***

2,050

360

-4.70***

2,030

362

-4.60***

hsa-miR-10a

1,570

350

-3.48**

1,592

350

-3.55***

1,828

360

-4.07***

1,880

352

-4.34***

hsa-miR-10b

1,695

378

-3.49**

2,929

371

-6.89***

3,564

411

-7.67***

4,297

382

-10.26***

hsa-let-7g

10,720

2,302

-3.66**

16,046

3,077

-4.21***

13,792

2,854

-3.83***

15,435

2,568

-5.01***

hsa-miR-584

11,643

2,261

-4.15***

12,717

1,873

-5.79***

12,394

1,912

-5.48***

12,616

1,674

-6.54***

hsa-let-7i

11,701

2,255

-4.19**

16,410

2,707

-5.06***

15,319

2,251

-5.80***

15,718

2,563

-5.13***

hsa-miR-330

9,029

1,653

-4.46***

9,684

1,670

-4.80***

9,432

1,397

-5.75***

7,773

1,380

-4.63***

HS_307_b

2,453

444

-4.52***

4,188

443

-8.45***

3,669

407

-8.01***

3,318

448

-6.41***

hsa-miR-34c

2,292

412

-4.56**

3,303

426

-6.75***

3,524

381

-8.25***

2,403

404

-4.95**

hsa-miR-133a

9,270

1,594

-4.82***

7,942

1,662

-3.78***

8,488

1,435

-4.92***

6,495

1,783

-2.64***

hsa-miR-361

5,234

828

-5.32***

7,641

755

-9.13***

7,356

875

-7.41***

7,904

706

-10.19***

hsa-miR-508

2,552

325

-6.86**

4,280

376

-10.39***

3,965

357

-10.09***

4,013

336

-10.96***

hsa-miR-9*

8,372

1,039

-7.06***

10,114

940

-9.76***

10,027

1,263

-6.94***

9,948

843

-10.81***

hsa-miR-31

5,967

661

-8.03***

5,742

720

-6.97***

6,619

657

-9.07***

5,978

728

-7.21***

hsa-miR-506

5,855

625

-8.37***

6,125

713

-7.59***

5,916

665

-7.90***

5,602

675

-7.30***

hsa-miR-211

5,147

476

-9.81***

3,218

490

-5.57***

3,833

471

-7.14**

5,575

464

-11.01***

hsa-miR-296

6,194

570

-9.86***

5,913

504

-10.72***

6,441

557

-10.57***

4,369

532

-7.21***

hsa-miR-598

4,445

401

-10.09***

4,475

386

-10.59***

4,934

424

-10.63***

4,127

367

-10.24***

hsa-miR-199b

9,081

775

-10.71***

9,478

916

-9.35***

9,629

865

-10.13***

8,059

911

-7.85***

hsa-let-7b

8,236

539

-14.28***

12,563

475

-25.44***

12,150

500

-23.30***

12,309

452

-26.24***

hsa-miR-509

10,413

536

-18.44***

10,346

512

-19.22***

9,966

548

-17.20***

9,311

529

-16.62***

hsa-miR-9

12,587

422

-28.85***

15,870

447

-34.50***

15,502

418

-36.09***

16,402

429

-37.26***

hsa-miR-514

12,065

364

-32.16***

13,112

358

-35.64***

12,201

315

-37.74***

12,355

355

-33.83***

Hybdridization controls

array_hyb_con4

6,404

7,110

0.11

7,724

6,684

-0.16

7,031

6,739

-0.04

6,964

6,746

-0.03

array_hyb_con3

6,923

7,681

0.11

7,833

7,368

-0.06

7,422

7,054

-0.05

6,906

7,365

0.07

array_hyb_con1

10,779

11,868

0.10

11,812

11,728

-0.0.01

11,436

11,382

0.00

11,059

11,522

0.04

array_hyb_con2

10,258

11,145

0.09

11,382

10,829

-0.05

11,075

10,650

-0.04

9,997

10,283

0.03