Table 3: Classification of 68 genes down-regulated
by ATRA in the differentiation of NB4 cells

Bank#

Gene name

NB4:A

INH

1.Transcription Factors & DNA Binding Proteins

V00568

MYC*

8hr ¯

N

M15024

MYB

8hr ¯

N

K00650

c-Fos*

8hr¯ 24hr^

N

X12795

Coup transcription factor

48hr¯

Y

U11732

ETS-related protein TEL*

8hr¯ 72hr^

Y

L19067

NFkB P65*

8hr¯

N

X70326

MacMarcks

8hr¯ 72hr^

N

L16785

c-myc transcription factor*

8hr¯

N

M68891

GATA-2

8hr¯

N

D26156

transcriptional activator hSNF2b

8hr¯

Y

D90209

ATF-4 (cAMP-dependent)

8hr¯ 48hr^

Y

L34587

RNA polymerase II elongation factor*

8hr¯

N

M83234

Y box binding protein-1

8hr¯

Y

U10323

nuclear factor NF45

8hr¯

Y

U10324

nuclear factor NF90

8hr¯

N

X67951

proliferation-associated protein PAG

12hr¯

Y

U34070

C/EBP ?*

24hr¯

Y

2. DNA synthesis/repair&RecombinationProteins

M30938

ATP-dependent DNA helicase II (86 kD)

8hr¯

N

M31899

DNA repair helicase (ERCC3)

8hr¯

Y

M32865

ATP-dependent DNA helicase II (70 kD) *

8hr¯

Y

M36089

DNA-repair protein XRCC1

8hr¯

Y

M87338

replication factor C (140 kD)?

8hr¯

Y

M87339

replication factor C (137 kD) *

8hr¯

Y

J04088

DNA topoisomerase II ? isozyme*

8hr¯

Y

M13194

DNA excision repair protein ERCC-1*

8hr¯

Y

U07418

DNA mismatch repair protein hMLH1

8hr¯

Y

D21090

UV excision repair protein RAD23*

8hr¯

Y

M63488

replication protein A1 (70 kD)

8hr¯

Y

3. Cytokines and chemokines

D16431

hepatoma-derived growth factor

8hr¯

Y

4. Signal Transduction Modulators & Effectors

M35410

IGFBP-2

8hr¯

Y

L35253

MAPK/p383*

8hr¯

N

L36719

MKK3*

24hr¯

N

X80692

ERK3*

8hr¯

Y

L31951

JNK2

8hr¯

Y

U18087

cAMP-specific phosphodiesterase

8hr¯

Y

L25876

protein tyrosine phosphatase (CIP2)

8hr¯

Y

A: All-trans retinoic acid.
^ denotes upregulated signal.
N denotes downregulated signal, not inhibited by cycloheximide.

Bank#

Gene name

NB4:A

INH

5. Protein modulation

M34664

heat shock 60 kD protein 1

8hr¯

Y

X54079

heat shock 27 kD protein 1*

8hr¯ 48hr^

Y

X07270

heat shock protein 86*

8hr¯

Y

6. Cell cycle regulators

U05340

p55CDC

8hr¯

Y

M25753

cyclin B1 (G2/mitotic-specific) *

8hr¯

N

X51688

cyclin A (G2/mitotic-specific) *

8hr¯

N

X92669

cyclin H assembly factor*

8hr¯

N

7. Apoptosis-related protein

X01394

TNF?*

8hr¯

Y

L08096

CD27 ligand

8hr¯

Y

U13021

ICH-1 protease short isoform

8hr¯

N

J03746

glutathione S-transferase microsomal*

8hr¯

N

X15480

glutathione S-transferase P *

8hr¯

Y

M21304

glutathione peroxidase*

24hr ¯

Y

U18321

ionizing radiation resistance protein*

8hr¯

N

X86779

FAST kinase

8hr¯

N

U15174

NIP3

8hr¯ 48hr^

Y

8. Cell structure/mobility

U32944

HDLC1 *

8hr¯

Y

9. Cell Adhesion Proteins

M33374

NADH-ubiquinone oxidoreductase*

8hr¯

Y

M34480

CD41B

8hr¯

Y

10. Metabolism

L25080

transforming protein rhoA*

8hr¯ 48hr^

Y

X01060

transferrin receptor protein (CD71)

8hr¯

Y

L19185

natural killer cell enhancing factor*

8hr¯ 72hr^

Y

K00065

superoxide dismutase

8hr¯

Y

M14200

acyl-CoA-binding protein

8hr¯

Y

M19507

myeloperoxidase*

12hr¯

N

X13276

aminopeptidase N

24hr¯

N

11. Unclassified

M26708

prothymosin ?

8hr¯

Y

M81757

40S ribosomal protein S19

8hr¯ 48hr^

Y

X69391

60S ribosomal protein L6*

8hr¯

Y

J02846

tissure factor*

8hr¯

N

m25246

vimentin

12hr ¯

N

X63692

DNA (cytosin-5)-methyl- transferase

24hr ¯

N

INH: inhibition
¯ denotes downregulated signal.
Y denotes downregulated signal, inhibited by cycloheximide.