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Table S10- Common genes in human and chimpanzee containing new independent Alu insertions. Neuro-related function and disease are marked with yellow. Symbol A2BP1 AAA1 AHCTF1 ALK AMOTL1 ANKH ANKRD17 ASTN2 (includes EG:23245) AUTS2 (includes EG:26053) BANK1 BAZ1A BCAS3 BCKDHB BRPF3 BTRC C11ORF49 C1ORF21 C2ORF34 C7ORF58 C9ORF126 CACNA2D1 CCBE1 CCDC41 CDH13 CDKL5 CENPK CHN2 CHRM3 CHSY3 CNTN4 CNTNAP2 COL24A1 CPA6 CPNE4 CSMD1 CSMD3 (includes EG:114788) CTNNA3 DAB1 DACH1 DACH2 DCC DGKB DGKI Entrez Gene Name ataxin 2-binding protein 1 asthma-associated alternatively spliced gene 1 AT hook containing transcription factor 1 anaplastic lymphoma receptor tyrosine kinase angiomotin like 1 ankylosis, progressive homolog (mouse) ankyrin repeat domain 17 astrotactin 2 autism susceptibility candidate 2 B-cell scaffold protein with ankyrin repeats 1 bromodomain adjacent to zinc finger domain, 1A breast carcinoma amplified sequence 3 branched chain keto acid dehydrogenase E1, beta polypeptide bromodomain and PHD finger containing, 3 beta-transducin repeat containing chromosome 11 open reading frame 49 chromosome 1 open reading frame 21 chromosome 2 open reading frame 34 chromosome 7 open reading frame 58 chromosome 9 open reading frame 126 calcium channel, voltage-dependent, alpha 2/delta subunit 1 collagen and calcium binding EGF domains 1 coiled-coil domain containing 41 cadherin 13, H-cadherin (heart) cyclin-dependent kinase-like 5 centromere protein K chimerin (chimaerin) 2 cholinergic receptor, muscarinic 3 chondroitin sulfate synthase 3 contactin 4 contactin associated protein-like 2 collagen, type XXIV, alpha 1 carboxypeptidase A6 copine IV CUB and Sushi multiple domains 1 CUB and Sushi multiple domains 3 catenin (cadherin-associated protein), alpha 3 disabled homolog 1 (Drosophila) dachshund homolog 1 (Drosophila) dachshund homolog 2 (Drosophila) deleted in colorectal carcinoma diacylglycerol kinase, beta 90kDa diacylglycerol kinase, iota DLC1 DLG2 DMD DNAH5 DNAJC6 DPP10 DST EFNA5 EPB41L2 ERBB4 ERC1 FAM133B FAM5C FGF12 FGF14 FGGY FHIT FILIP1 FNDC3B FOXJ3 FRY FSTL5 FUT8 FYCO1 GABBR2 GABRB3 GALNT13 GLI3 GMDS GPHN GRID1 GRIK2 GRM5 GUCY1A2 GULP1 HECW2 HIVEP1 HPSE2 HYDIN IL1RAPL1 KCNH7 KCNIP4 deleted in liver cancer 1 discs, large homolog 2 (Drosophila) dystrophin dynein, axonemal, heavy chain 5 DnaJ (Hsp40) homolog, subfamily C, member 6 dipeptidyl-peptidase 10 dystonin ephrin-A5 erythrocyte membrane protein band 4.1-like 2 v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian) ELKS/RAB6-interacting/CAST family member 1 family with sequence similarity 133, member B family with sequence similarity 5, member C fibroblast growth factor 12 fibroblast growth factor 14 FGGY carbohydrate kinase domain containing fragile histidine triad gene filamin A interacting protein 1 fibronectin type III domain containing 3B forkhead box J3 furry homolog (Drosophila) follistatin-like 5 fucosyltransferase 8 (alpha (1,6) fucosyltransferase) FYVE and coiled-coil domain containing 1 gamma-aminobutyric acid (GABA) B receptor, 2 gamma-aminobutyric acid (GABA) A receptor, beta 3 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 13 (GalNAcT13) glioma-associated oncogene family zinc finger 3 GDP-mannose 4,6-dehydratase gephyrin glutamate receptor, ionotropic, delta 1 glutamate receptor, ionotropic, kainate 2 glutamate receptor, metabotropic 5 guanylate cyclase 1, soluble, alpha 2 GULP, engulfment adaptor PTB domain containing 1 HECT, C2 and WW domain containing E3 ubiquitin protein ligase 2 human immunodeficiency virus type I enhancer binding protein 1 heparanase 2 hydrocephalus inducing homolog (mouse) interleukin 1 receptor accessory protein-like 1 potassium voltage-gated channel, subfamily H (eag-related), member 7 Kv channel interacting protein 4 KCNK2 KCNQ5 KCTD16 (includes EG:57528) KIAA1680 KLHL32 L3MBTL4 (includes EG:91133) LCLAT1 LDB2 LINGO2 LPCAT3 LRP1B MAGI2 MAPK10 MBNL1 MDS1 MEF2C MEIS2 MYCBP2 MYT1 NAV3 NEGR1 NEK1 NELL1 NELL2 NLGN1 NPAS3 NRG1 NTRK2 OSBPL10 PDE1A PDE4DIP PDGFD PGCP PLA2R1 PLCB1 PLD5 PRKD1 PRPF4B PTPRG PTPRT PUM2 RASAL2 RGS7 RNF125 potassium channel, subfamily K, member 2 potassium voltage-gated channel, KQT-like subfamily, member 5 potassium channel tetramerisation domain containing 16 KIAA1680 protein kelch-like 32 (Drosophila) l(3)mbt-like 4 (Drosophila) lysocardiolipin acyltransferase 1 LIM domain binding 2 leucine rich repeat and Ig domain containing 2 lysophosphatidylcholine acyltransferase 3 low density lipoprotein-related protein 1B (deleted in tumors) membrane associated guanylate kinase, WW and PDZ domain containing 2 mitogen-activated protein kinase 10 muscleblind-like (Drosophila) myelodysplasia syndrome 1 myocyte enhancer factor 2C Meis homeobox 2 MYC binding protein 2 myelin transcription factor 1 neuron navigator 3 neuronal growth regulator 1 NIMA (never in mitosis gene a)-related kinase 1 NEL-like 1 (chicken) NEL-like 2 (chicken) neuroligin 1 neuronal PAS domain protein 3 neuregulin 1 neurotrophic tyrosine kinase, receptor, type 2 oxysterol binding protein-like 10 phosphodiesterase 1A, calmodulin-dependent phosphodiesterase 4D interacting protein platelet derived growth factor D plasma glutamate carboxypeptidase phospholipase A2 receptor 1, 180kDa phospholipase C, beta 1 (phosphoinositidespecific) phospholipase D family, member 5 protein kinase D1 PRP4 pre-mRNA processing factor 4 homolog B (yeast) protein tyrosine phosphatase, receptor type, G protein tyrosine phosphatase, receptor type, T pumilio homolog 2 (Drosophila) RAS protein activator like 2 regulator of G-protein signaling 7 ring finger protein 125 RNGTT ROBO1 RP5-1022P6.2 SBF2 SDK1 SGCB SGCZ SLC16A9 SLC24A2 SLIT3 SNTB1 SPATA5 SRGAP3 SSBP2 STAG1 STK33 STK39 STXBP6 SYNPO2 TAF1B TAF4 TBC1D22A TBC1D5 TG TMEM132D TNIK TPK1 TRIM24 TRPM3 VPS13B VPS8 ZBTB20 ZFPM2 ZNF385B ZNF804A ZNF804B RNA guanylyltransferase and 5'-phosphatase roundabout, axon guidance receptor, homolog 1 (Drosophila) hypothetical protein KIAA1434 SET binding factor 2 sidekick homolog 1, cell adhesion molecule (chicken) sarcoglycan, beta (43kDa dystrophin-associated glycoprotein) sarcoglycan zeta solute carrier family 16, member 9 (monocarboxylic acid transporter 9) solute carrier family 24 (sodium/potassium/calcium exchanger), member 2 slit homolog 3 (Drosophila) syntrophin, beta 1 (dystrophin-associated protein A1, 59kDa, basic component 1) spermatogenesis associated 5 SLIT-ROBO Rho GTPase activating protein 3 single-stranded DNA binding protein 2 stromal antigen 1 serine/threonine kinase 33 serine threonine kinase 39 (STE20/SPS1 homolog, yeast) syntaxin binding protein 6 (amisyn) synaptopodin 2 TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa TAF4 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 135kDa TBC1 domain family, member 22A TBC1 domain family, member 5 thyroglobulin transmembrane protein 132D TRAF2 and NCK interacting kinase thiamin pyrophosphokinase 1 tripartite motif-containing 24 transient receptor potential cation channel, subfamily M, member 3 vacuolar protein sorting 13 homolog B (yeast) vacuolar protein sorting 8 homolog (S. cerevisiae) zinc finger and BTB domain containing 20 zinc finger protein, multitype 2 zinc finger protein 385B zinc finger protein 804A zinc finger protein 804B