Table 2.
Partial list of cellular significantly changed genes in mouse primary astrocytes exposed to HIV-1
| Up-regulated genes |
Down-regulated genes |
||||||
|---|---|---|---|---|---|---|---|
| Genet title | Gene symbol |
FC | t test | Gene title | Gene symbol |
FC | t test |
| Chemokines | Signal transduction | ||||||
| Chemokine (C–C motif) ligand 22 |
Ccl22 | 15.18 | 0.0002 | Regulator of G-protein signaling 2 |
Rgs2 | −4.69 | 0.0004 |
| Chemokine (C–X–C motif) ligand 1 |
Cxcl1 | 4.49 | 0.0001 | G-protein-coupled receptor 34 | Gpr34 | −3.20 | 0.0009 |
| Chemokine (C–C motif) ligand 17 |
Ccl17 | 4.16 | 0.0042 | RAS, guanyl releasing protein 3 |
Rasgrp3 | −2.98 | 0.0063 |
| Chemokine (C–X–C motif) ligand 7 |
Cxcl7 | 3.70 | 0.0142 | Chimerin (chimaerin) 2 | Chn2 | −2.22 | 0.0000 |
| Chemokine (C–X–C motif) ligand 11 |
Cxcl11 | 3.10 | 0.0020 | Epstein–Barr-virus-induced gene 2 |
Ebi2 | −2.15 | 0.0006 |
| Chemokine (C–X–C motif) ligand 5 |
Cxcl5 | 2.71 | 0.0017 | Purinergic receptor P2Y, G-protein-coupled 13 |
P2ry13 | −2.06 | 0.0010 |
| Chemokine (C–X–C motif) ligand 10 |
Cxcl10 | 2.67 | 0.0009 | Amyloid beta (A4) precursor protein binding A1 |
Apba1 | −2.05 | 0.0076 |
| Chemokine (C–C motif) ligand 4 |
Ccl4 | 2.51 | 0.0006 | Protein tyrosine phosphatase, receptor type, O |
Ptpro | −2.02 | 0.0125 |
| Chemokine (C–X–C motif) ligand 2 |
Cxcl2 | 2.39 | 0.0023 | RAB31, member RAS oncogene family |
Rab31 | −2.01 | 0.0309 |
| Chemokine (C–X3–C motif) ligand 1 |
Cx3cl1 | 2.38 | 0.0068 | Cell adhesion | |||
| Chemokine (C–C motif) ligand 3 |
Ccl3 | 2.22 | 0.0006 | Osteomodulin | Omd | −3.46 | 0.0033 |
| Chemokine (C–X–C motif) ligand 12 |
Cxcl12 | 2.15 | 0.0006 | CD34 antigen | Cd34 | −3.44 | 0.00001 |
| Interleukines | Procollagen, type XIV, alpha 1 | Col14a1 | −3.22 | 0.0011 | |||
| Interleukin 1 alpha | Il1a | 5.95 | 0.0002 | Prostaglandin-endoperoxide synthase 1 |
Ptgs1 | −3.02 | 0.0001 |
| Interleukin 6 | Il6 | 3.52 | 0.0001 | Nephronectin | Npnt | −2.67 | 0.0136 |
| Interleukin 1 beta | Il1b | 3.36 | 0.0001 | Metastasis suppressor 1 | Mtss1 | −2.38 | 0.0086 |
| Interleukin 12b | Il12b | 3.24 | 0.0012 | Phosphoglucomutase 5 | Pgm5 | −2.18 | 0.0117 |
| Interleukin 10 | Il10 | 2.36 | 0.0186 | Neural cell adhesion molecule 1 |
Ncam1 | −2.04 | 0.0319 |
| Inflammation | Sidekick homolog 2 (chicken) | Sdk2 | −2.02 | 0.0010 | |||
| Selectin, platelet | Selp | 2.87 | 0.0006 | Apoptosis | |||
| Acyloxyacyl hydrolase | Aoah | 2.86 | 0.0010 | Insulin-like growth factor 1 | Igf1 | −2.88 | 0.00004 |
| Selectin, platelet | Selp | 2.56 | 0.0004 | B-cell leukemia/lymphoma 2 | Bcl2 | −2.38 | 0.0079 |
| Tumor necrosis factor receptor superfamily, member 1b |
Tnfrsf1b | 2.03 | 0.0001 | Serum/glucocorticoid- regulated kinase |
Sgk | −2.01 | 0.0001 |
| Complement activation | Metabolism | ||||||
| Complement factor B | Cfb | 2.60 | 0.0016 | Hydroxyprostaglandin dehydrogenase 15 (NAD) |
Hpgd | −7.52 | 0.0001 |
| Complement component 1, r subcomponent |
C1r | 2.02 | 0.0030 | Phosphotriesterase related | Pter | −3.43 | 0.0005 |
| Other immune response | C1q-like 3 | C1ql3 | −2.26 | 0.0013 | |||
| Fc receptor, IgG, low affinity IIb |
Fcgr2b | 4.26 | 0.0003 | Arachidonate 5-lipoxygenase activating protein |
Alox5ap | −2.11 | 0.0001 |
| Gene model 1960, (NCBI) | Gm1960 | 3.75 | 0.0004 | Phosphorylase kinase beta | Phkb | −2.04 | 0.0001 |
| C-type lectin domain family 4, member e |
Clec4e | 2.69 | 0.0017 | Phospholipase C-like 1 | Plcl1 | −2.01 | 0.0432 |
| Toll-like receptor 1 | Tlr1 | 2.65 | 0.0001 | Development | |||
| CD40 antigen | Cd40 | 2.62 | 0.0176 | Exostoses (multiple) 1 | Ext1 | −2.90 | 0.0072 |
| 2′–5′ oligoadenylate synthetase-like 1 |
Oasl1 | 2.61 | 0.0046 | Sloan–Kettering viral oncogene homolog |
Ski | −2.65 | 0.0016 |
| Histocompatibility 2, Q region locus 8 |
H2-Q8 | 2.49 | 0.0004 | Angiogenin, ribonuclease A family, member 1 |
Ang1 | −2.22 | 0.0120 |
| Colony-stimulating factor 2 (granulocyte–macrophage) |
Csf2 | 2.42 | 0.0333 | Motile sperm domain containing 3 |
Mospd3 | −2.13 | 0.0485 |
| Immunoresponsive gene 1 | Irg1 | 2.34 | 0.0014 | Ribonuclease, RNase A family 4 |
Rnase4 | −2.04 | 0.0004 |
| T-cell specific GTPase | Tgtp | 2.28 | 0.0008 | Protein biosystesis and modification | |||
| Repeats 1 | LOC667373 | 2.28 | 0.0002 | Transforming growth factor, beta receptor I |
Tgfbr1 | −2.95 | 0.0236 |
| Histocompatibility 2, K1, K region |
H2-K1 | 2.03 | 0.0014 | FMS-like tyrosine kinase 1 | Flt1 | −2.70 | 0.0128 |
| Macrophage activation 2 like | Mpa2l | 2.03 | 0.0009 | Zinc and ring finger 4 | Znrf4 | −2.58 | 0.0113 |
| Apoptosis | Ribosomal protein S13 | Rps13 | −2.48 | 0.0147 | |||
| Receptor (TNFRSF)- interacting serine–threonine kinase 2 |
Ripk2 | 3.27 | 0.0012 | E3 ubiquitin protein ligase, HECT domain containing, 1 |
Edd1 | −2.46 | 0.0115 |
| Stam-binding protein | Stambp | 2.15 | 0.0090 | Chymotrypsin like | Ctrl | −2.17 | 0.0108 |
| Caspase recruitment domain 4 | Card4 | 2.03 | 0.0009 | SUMO/sentrin specific peptidase 6 |
Senp6 | −2.10 | 0.0080 |
| Tumor necrosis factor, alpha-induced protein 3 |
Tnfaip3 | 2.01 | 0.0017 | Protein kinase C, alpha | Prkca | −2.06 | 0.0362 |
| Ion transport | Immune response | ||||||
| Cytochrome P450, family 7, subfamily b, polypeptide 1 |
Cyp7b1 | 2.42 | 0.00003 | Complement component factor h |
Cfh | −2.89 | 0.0332 |
| Potassium voltage-gated channel |
Kcnf1 | 2.29 | 0.0013 | Histocompatibility 2, class II, locus Mb1 |
H2-DMb1 | −2.26 | 0.0113 |
| Thioredoxin-like 1 | Txnl1 | 2.11 | 0.0114 | Defensin beta 1 | Defb1 | −2.03 | 0.0091 |
| Polycystic kidney disease 1 like 3 |
Pkd1l3 | 2.04 | 0.0346 | Ion transport | |||
| Signal transduction | Solute carrier anion transporter family, member 2b1 |
Slco2b1 | −2.67 | 0.0105 | |||
| Phosphodiesterase 2A, cGMP-stimulated |
Pde2a | 3.36 | 0.0030 | Potassium channel, subfamily J, member 16 |
Kcnj16 | −2.17 | 0.0082 |
| Thrombospondin type 1 motif, 4 |
Adamts4 | 3.33 | 0.0005 | Solute carrier family 4 (anion exchanger), member 4 |
Slc4a4 | −2.12 | 0.001 |
| Membrane-spanning 4 domains | Ms4a4d | 2.87 | 0.0006 | Myelin basic protein expression factor 2, repressor |
Myef2 | −2.02 | 0.0249 |
| Regulator of G-protein signaling 4 |
Rgs4 | 2.60 | 0.0053 | Transcription | |||
| Like sequence 4 | Emr4 | 2.52 | 0.0003 | Myeloid ecotropic viral integration site-related gene 1 |
Mrg1 | −2.36 | 0.0204 |
| Prostaglandin I receptor (IP) | Ptgir | 2.34 | 0.0055 | Cyclin L2 | Ccnl2 | −2.02 | 0.0294 |
| Spi-B transcription factor (Spi-1/PU.1 related) |
Spib | 2.27 | 0.0322 | Cell cycle | |||
| BMP-binding endothelial regulator |
Bmper | 2.19 | 0.0015 | SMC4 structural maintenance of chromosomes 4-like 1 |
Smc4l1 | −2.15 | 0.0003 |
| Adenosine A2b receptor | Adora2b | 2.15 | 0.0324 | Establishment of cohesion 1 homolog 2 (S. cerevisiae) |
Esco2 | −2.06 | 0.0301 |
| Rho family GTPase 1 | Rnd1 | 2.09 | 0.0000001 | ||||
| Kinase suppressor of ras 1 | Ksr1 | 2.08 | 0.0105 | ||||
| Somatostatin receptor 3 | Sstr3 | 2.07 | 0.0291 | ||||
| Transglutaminase 2, C polypeptide |
Tgm2 | 2.02 | 0.0083 | ||||
| Formyl peptide receptor 1 | Fpr1 | 2.01 | 0.0002 | ||||
| Regulation of transcription | Other functions | ||||||
| NK2 transcription factor related, locus 3 (Drosophila) |
Nkx2-3 | 2.39 | 0.0074 | Insulin-like growth factor binding protein 5 |
Igfbp5 | −3.11 | 0.0070 |
| Forkhead-like 18 (Drosophila) | Fkhl18 | 2.32 | 0.0100 | Cortactin-binding protein 2 | Cttnbp2 | −2.36 | 0.00002 |
| Doublesex and mab-3-related transcription factor |
Dmrta1 | 2.10 | 0.0103 | RAD51-associated protein 1 | Rad51ap1 | −2.24 | 0.0022 |
| Cells 2, p49/p100 | Nfkb2 | 2.05 | 0.0020 | HIV-1 Rev-binding protein like |
Hrbl | −2.10 | 0.0017 |
| Nuclear receptor interacting protein1 |
Nrip1 | 2.03 | 0.0057 | RNA-binding region (RNP1, RRM) containing 3 |
Rnpc3 | −2.07 | 0.0123 |
| Cells inhibitor, epsilon | Nfkbie | 2.01 | 0.0019 | Heat shock protein 90 kDa alpha, class A member 1 |
Hsp90aa1 | −2.06 | 0.0024 |
| Metabolism | Mannose receptor, C type 1 | Mrc1 | −2.02 | 0.0028 | |||
| Vanin 3 | Vnn3 | 3.59 | 0.0001 | WD repeat domain 1 | Wdr1 | −2.01 | 0.0100 |
| Chitinase 3-like 1 | Chi3l1 | 3.20 | 0.00003 | Not classified function | |||
| Prostaglandin E synthase | Ptges | 2.89 | 0.0016 | Tripartite motif protein 34 | Trim34 | −2.81 | 0.0195 |
| Carbonic anhydrase 13 | Car13 | 2.66 | 0.0038 | CTD small phosphatase like 2 | Ctdspl2 | −2.59 | 0.0031 |
| Prostaglandin-endoperoxide synthase 2 |
Ptgs2 | 2.47 | 0.0065 | Membrane protein, palmitoylated 6 |
Mpp6 | −2.52 | 0.0149 |
| Urocanase domain containing 1 |
Uroc1 | 2.29 | 0.0050 | DNA2 DNA replication helicase 2-like (yeast) |
Dna2l | −2.52 | 0.0257 |
| AMP deaminase 3 | Ampd3 | 2.11 | 0.0012 | Meningioma-expressed antigen 5 (hyaluronidase) |
Mgea5 | −2.46 | 0.0326 |
| Matrix metallopeptidase 13 | Mmp13 | 2.03 | 0.0214 | Cytotoxic T lymphocyte- associated protein 2 beta |
Ctla2b | −2.37 | 0.0011 |
| Development | Leukocyte-associated Ig-like receptor 1 |
Lair1 | −2.36 | 0.0025 | |||
| Tumor necrosis factor, alpha-induced protein 2 |
Tnfaip2 | 3.10 | 0.0001 | Glucosaminyl (N-acetyl) transferase 1, core 2 |
Gcnt1 | −2.35 | 0.0004 |
| (Semaphorin) 4A | Sema4a | 2.88 | 0.0002 | Cytoplasmic polyadenylation element binding protein 2 |
Cpeb2 | −2.21 | 0.0161 |
| VGF nerve growth factor inducible |
Vgf | 2.43 | 0.0006 | SERTA domain containing 4 | Sertad4 | −2.20 | 0.0011 |
| Adrenomedullin | Adm | 2.00 | 0.0381 | RAB3A interacting protein (rabin3)-like 1 |
Rab3il1 | −2.18 | 0.0026 |
| Cell adhesion | Navigator 3 | LOC676640 | −2.16 | 0.0092 | |||
| Thrombospondin 2 | Thbs2 | 2.27 | 0.0189 | Radial spokehead-like 3 | Rshl3 | −2.13 | 0.0030 |
| CD44 antigen | Cd44 | 2.22 | 0.0004 | Leucine zipper protein 2 | Luzp2 | −2.13 | 0.0262 |
| Transport | Retinitis pigmentosa 9 homolog (human) |
Rp9h | −2.10 | 0.0006 | |||
| Solute carrier family 7, member 11 |
Slc7a11 | 4.25 | 0.0003 | Nudix-type motif 10 | Nudt10 | −2.10 | 0.0053 |
| Solute carrier family 1, member 2 |
Slc1a2 | 2.15 | 0.0053 | Tetratricopeptide repeat domain 14 |
Ttc14 | −2.10 | 0.0360 |
| Syntaxin 11 | Stx11 | 2.05 | 0.0071 | Tudor domain containing 3 | Tdrd3 | −2.09 | 0.0232 |
| Other functions | Coiled-coil domain containing 39 |
Ccdc39 | −2.03 | 0.0090 | |||
| Pentraxin-related gene | Ptx3 | 3.12 | 0.00002 | DNA segment, Chr 3, ERATO Doi 300, expressed |
D3Ertd300e | −2.02 | 0.0261 |
| Tissue inhibitor of metalloproteinase 1 |
Timp1 | 3.10 | 0.00001 | Cytotoxic T lymphocyte- associated protein 2 alpha |
Ctla2a | −2.01 | 0.0033 |
| Coagulation factor C homolog (Limulus polyphemus) |
Coch | 2.71 | 0.0221 | Glypican 6 | Gpc6 | −2.00 | 0.0035 |
| Superoxide dismutase 2, mitochondrial |
Sod2 | 2.61 | 0.0002 | ||||
| Actin-binding LIM protein 1 | Ablim1 | 2.22 | 0.0405 | ||||
| Protein C receptor, endothelial | Procr | 2.09 | 0.00003 | ||||
| Schlafen 1 | Slfn1 | 2.04 | 0.0039 | ||||
| Histone deacetylase 2 | Hdac2 | 2.01 | 0.0060 | ||||
| Not classified function | |||||||
| leucine-rich repeat LGI family, member 2 |
Lgi2 | 5.31 | 0.0011 | ||||
| Nuclear protein 1 | Nupr1 | 3.40 | 0.0080 | ||||
| Ladinin | Lad1 | 3.30 | 0.0012 | ||||
| Z-DNA binding protein 1 | Zbp1 | 2.95 | 0.0064 | ||||
| Cysteine-rich secretory protein LCCL |
Crispld2 | 2.78 | 0.0073 | ||||
| Serine (or cysteine) peptidase inhibitor |
Serpinb5 | 2.78 | 0.0143 | ||||
| Bassoon | Bsn | 2.44 | 0.0140 | ||||
| Additional sex combs like 2 (Drosophila) |
Asxl2 | 2.42 | 0.0305 | ||||
| Ventricular zone expressed PH domain homolog 1 |
Veph1 | 2.38 | 0.0048 | ||||
| Purkinje cell protein 4 | Pcp4 | 2.37 | 0.0068 | ||||
| SLAM family member 8 | Slamf8 | 2.27 | 0.0018 | ||||
| Transmembrane protein 25 | Tmem25 | 2.22 | 0.0148 | ||||
| DENN/MADD domain containing 3 |
Dennd3 | 2.20 | 0.0293 | ||||
| Zinc finger CCCH type containing 12A |
Zc3h12a | 2.13 | 0.0017 | ||||
| Schlafen 4 | Slfn4 | 2.13 | 0.0013 | ||||
| Transmembrane protein 74 | Tmem74 | 2.13 | 0.0282 | ||||
| TNFAIP3 interacting protein 1 | Tnip1 | 2.09 | 0.0011 | ||||
| Ataxin 2 | Atxn2 | 2.06 | 0.0304 | ||||
| Glycophorin C | Gypc | 2.04 | 0.0305 | ||||
| ELOVL family member 7 | Elovl7 | 2.03 | 0.00005 | ||||
Up- and down-regulated transcripts in primary mouse astrocytes exposed to HIV-1. Results are selected by the criteria: FC>2, t test p value <0.05. Genes are classified by biological pathways using NetAffx Analysis Center (Affymetrix)