Table 2 Differentially expressed genes in response to dietary LC-PUFAs in (A) hippocampus and (B) liver. Table includes gene categories discussed in the manuscript. Genes are grouped by functional category, sorted alphabetically, and annotated with NCBI LocusLink. Average difference intensity (ADI) represents gene absolute expression, and was used to calculate fold changes. Differentially expressed genes were clustered with a combined k-means/hierarchical approach. Asterisk (*) indicates ADIs significantly different from control diet, using 5% LFC gene selection model equations (LFC_hippocampus = 1.36 + (90/min ADI); LFC_liver = 1.52+(100/min ADI)).

Description

Nucleic Acid Binding

Ar

androgen receptor

Atoh4

atonal homolog 4 (Drosophila)

Btf3

basic transcription factor 3

Dbp

D site albumin promoter binding protein

Ddb1

damage specific DNA binding protein 1

Dscr1

Down syndrome critical region homolog 1 (human)

E2f3

E2F transcription factor 3

Elk1

ELK1, member of ETS oncogene family

Hdac1 (Rpd3)

high homology to histone deacetylase 1

Hoxd12

homeo box D12

Idb1

inhibitor of DNA binding 1

Idb3

inhibitor of DNA binding 3

Nhlh1

nescient helix loop helix 1

Pax9

paired box gene 9

Pcbp3

poly(rC) binding protein 3

Purb

purine rich element binding protein B

Lipoprotein Metabolism

Apod

apolipoprotein D

Miscellaneous Genes

Htr4

5 hydroxytryptamine (serotonin) receptor 4 (5-HT)

Pomc

proopiomelanocortin

Prkcd

protein kinase C, delta (PKC)

Siat8e

sialyltransferase 8 (alpha 2, 8 sialytransferase) E

Ttr

transthyretin

(B)

Description

Nucleic Acid Binding

Atf4

activating transcription factor 4

Atf5

activating transcription factor 5

Dbp

D site albumin promoter binding protein

Eef1a1

eukaryotic translation elongation factor 1 alpha 1

Eif4a1

eukaryotic translation initiation factor 4A1

Ercc2

excision repair cross-complementing rodent repair deficiency, complementation group 2

Gtf2i

general transcription factor II I

HNF-3g

forkhead box A3 (Foxa3)

Hoxd12

homeo box D12

Hzf-pending

hematopoietic zinc finger

Klf13

Kruppel-like factor 13

Miz1

Msx-interacting-zinc finger

Nfyb

nuclear transcription factor-Y beta (NF-Y)

Pbx1

pre B-cell leukemia transcription factor 1

Rpo2tc1

RNA polymerase II transcriptional coactivator

Srebp-1

ethanol induced 6 (sterol regulatory element binding protein-1); Etohi6

Tceb1l

transcription elongation factor B (SIII), polypeptide 1 (15 kDa),-like

Tcf2

transcription factor 2

Tcf7

transcription factor 7, T-cell specific

Tcfe3

EST highly similar to transcription factor E3

Thrsp; Spot14

thyroid hormone responsive SPOT14 homolog (Rattus)

Usf2

upstream transcription factor 2

Fatty Acid Synthesis

Acas1

acetyl-Coenzyme A synthetase 1 (AMP forming)

Acly

ATP citrate lyase (ACL)

Acly

ATP citrate lyase (ACL)

Acly

ATP citrate lyase (ACL)

Acly

ATP citrate lyase (ACL)

Elovl2; Ssc2

elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 2

Elovl3; Cig30

elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3

Facl2

fatty acid Coenzyme A ligase, long chain 2

Fasn

fatty acid synthase (FAS)

Scd1

stearoyl-Coenzyme A desaturase 1

Fatty Acid Oxidation

Acadm

acetyl-Coenzyme A dehydrogenase, medium chain (MCAD)

Aldh1a1

aldehyde dehydrogenase family 1, subfamily A1

Aldh1a7

aldehyde dehydrogenase family 1, subfamily A7

Cpt1a

carnitine palmitoyltransferase 1, liver

Cpt2

carnitine palmitoyltransferase 2

Crat

carnitine acetyltransferase

Ech1

enoyl coenzyme A hydratase 1 (delta 3,5-delta 2,4-dienoyl-CoA isomerase)

Carbohydrate Metabolism

Camk2b

calcium/calmodulin-dependent protein kinase II, beta

Cam-Pde 1c

calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1c

G6pc

glucose-6-phosphatase, catalytic (G6Pase)

Got1

glutamate oxaloacetate transaminase 1, soluble

Gpam

glycerol-3-phosphate acyltransferase, mitochondrial (GPAT)

Hspa5

heat shock 70kD protein 5 (glucose-regulated protein, 78kD)

Pck1

phosphoenolpyruvate carboxykinase 1, cytosolic (PEPCK)

Pck1

phosphoenolpyruvate carboxykinase 1, cytosolic (PEPCK)

Pck1

phosphoenolpyruvate carboxykinase 1, cytosolic (PEPCK)

Pck1

phosphoenolpyruvate carboxykinase 1, cytosolic (PEPCK)

Cytochrome P450 Metabolism

Cyp1a2

cytochrome P450, 1a2, aromatic compound inducible

Cyp2a4

cytochrome P450, 2a4

Cyp2b9

cytochrome P450, 2b9, phenobarbitol inducible type a

Cyp3a11

cytochrome P450, steroid inducible 3a11

Cyp3a16

cytochrome P450, 3a16

Cyp4a10

cytochrome P450, 4a10

Cyp4a14

cytochrome P450, 4a14

Cypf13

cytochrome P450 CYP4F13

Por

P450 (cytochrome) oxidoreductase

Transport

Abca1

ATP-binding cassette, sub-family A (ABC1) member 1

Abca7

ATP-binding cassette, sub-family A (ABC1) member 7

Abce1

ATP-binding cassette, sub-family E (OABP)member 1

Cd36

CD36 antigen

Fabp5

fatty acid binding protein 5, epidermal (E-FABP)

Slc10a1

solute carrier family 10 (sodium/bile acid cotransporter family), member 1 (Ntcp)

Sterol Metabolism

Fpps

farnesyl pyrophosphate synthase

Hmgcs2

3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2, mitochondrial (HMG-CoA2)

Lipoprotein Metabolism

Apoa4

apolipoprotein A-IV

Apoa4

apolipoprotein A-IV precursor

ApoB-100

EST highly similar to apolipoprotein B-100 precursor

Apoc1

apolipoprotein CI

Apoc2

apolipoprotein CII

Apoe

apolipoprotein E