Supplementary Material 1: Differentially Expressed Transcripts of the LRRK2 Rnai Microarray

Supplementary material 1: Differentially expressed transcripts of the LRRK2 RNAi microarray experiment

Probe Set ID / Gene Title / Gene Symbol / Entrez Gene / pValue / Fold Change / GO Biological Process Description / GO Molecular Function Description
235066_at / microtubule-associated protein 4 / MAP4 / 4134 / 0.00304 / 4.240295 / negative regulation of microtubule depolymerization / structural molecule activity
1554614_a_at / polypyrimidine tract binding protein 2 / PTBP2 / 58155 / 0.00019 / 2.939676 / mRNA processing / nucleotide binding /// RNA binding /// nucleic acid binding
209344_at / tropomyosin 4 / TPM4 / 7171 / 0.00013 / 2.535459 / muscle development / actin binding
214874_at / plakophilin 4 / PKP4 / 8502 / 0.03083 / 2.526118 / cell adhesion /// cell adhesion / structural molecule activity /// protein binding /// binding
210232_at / cell division cycle 42 (GTP binding protein, 25kDa) / CDC42 / 998 / 0.0105 / 2.467774 / regulation of progression through cell cycle /// regulation of cell growth /// establishment and/or maintenance of cell polarity /// small GTPase mediated signal transduction /// protein transport /// actin cytoskeleton organization and biogenesis /// mac / nucleotide binding /// GTPase activity /// protein binding /// GTP binding
206478_at / KIAA0125 / KIAA0125 / 9834 / 0.00764 / 2.289841 / --- / ---
239678_at / AP1 gamma subunit binding protein 1 / AP1GBP1 / 11276 / 0.00794 / 2.249676 / intracellular protein transport /// endocytosis /// transport /// protein transport / calcium ion binding
1557165_s_at / kelch-like 18 (Drosophila) / KLHL18 / 23276 / 0.02042 / 2.154906 / --- / protein binding
201957_at / protein phosphatase 1, regulatory (inhibitor) subunit 12B / PPP1R12B / 4660 / 0.00227 / 2.090784 / regulation of muscle contraction /// signal transduction / enzyme activator activity
218683_at / polypyrimidine tract binding protein 2 / PTBP2 / 58155 / 0.0018 / 2.061839 / mRNA processing / nucleotide binding /// RNA binding /// nucleic acid binding
232137_at / zinc finger protein 616 / ZNF616 / 90317 / 0.00836 / 2.05862 / --- / nucleic acid binding /// zinc ion binding
242999_at / Rho guanine nucleotide exchange factor (GEF) 7 / ARHGEF7 / 8874 / 0.02205 / 2.006891 / signal transduction / guanyl-nucleotide exchange factor activity /// guanyl-nucleotide exchange factor activity
228393_s_at / zinc finger protein 302 / ZNF302 / 55900 / 0.00148 / 2.00089 / transcription /// regulation of transcription, DNA-dependent / DNA binding /// zinc ion binding /// metal ion binding /// nucleic acid binding
206090_s_at / disrupted in schizophrenia 1 / DISC1 / 27185 / 0.01024 / 1.983245 / --- / protein binding /// protein binding
212481_s_at / tropomyosin 4 / TPM4 / 7171 / 0.0014 / 1.93208 / muscle development / actin binding
210138_at / regulator of G-protein signalling 20 / RGS20 / 8601 / 0.00707 / 1.888046 / regulation of G-protein coupled receptor protein signaling pathway /// negative regulation of signal transduction / signal transducer activity /// GTPase activator activity /// protein binding
214230_at / cell division cycle 42 (GTP binding protein, 25kDa) / CDC42 / 998 / 0.00777 / 1.881669 / regulation of progression through cell cycle /// regulation of cell growth /// establishment and/or maintenance of cell polarity /// small GTPase mediated signal transduction /// protein transport /// actin cytoskeleton organization and biogenesis /// mac / nucleotide binding /// GTPase activity /// protein binding /// GTP binding
214596_at / cholinergic receptor, muscarinic 3 / CHRM3 / 1131 / 0.00066 / 1.877976 / protein modification /// signal transduction /// signal transduction /// G-protein coupled receptor protein signaling pathway /// G-protein coupled receptor protein signaling pathway /// nervous system development /// cell proliferation / rhodopsin-like receptor activity /// phosphoinositide phospholipase C activity /// receptor activity /// receptor activity /// muscarinic acetylcholine receptor activity /// muscarinic acetylcholine receptor activity /// signal transducer activity /// G-p
232341_x_at / hyaluronan binding protein 4 / HABP4 / 22927 / 0.0163 / 1.868472 / --- / ---
233919_s_at / hyaluronan binding protein 4 / HABP4 / 22927 / 0.00244 / 1.86589 / --- / ---
221673_s_at / casein kinase 1, gamma 1 / CSNK1G1 / 53944 / 0.01628 / 1.863799 / protein amino acid phosphorylation /// Wnt receptor signaling pathway / nucleotide binding /// protein serine/threonine kinase activity /// protein-tyrosine kinase activity /// ATP binding /// transferase activity /// protein kinase activity /// kinase activity
221957_at / Pyruvate dehydrogenase kinase, isoenzyme 3 / PDK3 / 5165 / 0.00739 / 1.85741 / glucose metabolism /// protein amino acid phosphorylation /// phosphorylation / [pyruvate dehydrogenase (lipoamide)] kinase activity /// ATP binding /// [pyruvate dehydrogenase (lipoamide)] kinase activity /// kinase activity /// transferase activity /// transferase activity, transferring phosphorus-containing groups /// protein kina
201124_at / integrin, beta 5 / ITGB5 / 3693 / 0.00073 / 1.832293 / cell adhesion /// cell-matrix adhesion /// integrin-mediated signaling pathway /// development / receptor activity /// protein binding
1559633_a_at / cholinergic receptor, muscarinic 3 / CHRM3 / 1131 / 0.0056 / 1.831051 / protein modification /// signal transduction /// signal transduction /// G-protein coupled receptor protein signaling pathway /// G-protein coupled receptor protein signaling pathway /// nervous system development /// cell proliferation / rhodopsin-like receptor activity /// phosphoinositide phospholipase C activity /// receptor activity /// receptor activity /// muscarinic acetylcholine receptor activity /// muscarinic acetylcholine receptor activity /// signal transducer activity /// G-p
210787_s_at / calcium/calmodulin-dependent protein kinase kinase 2, beta / CAMKK2 / 10645 / 0.04855 / 1.829358 / MAPKKK cascade /// calcium-mediated signaling /// regulation of protein kinase activity /// positive regulation of transcription /// protein amino acid autophosphorylation /// protein amino acid phosphorylation /// protein amino acid phosphorylation /// p / nucleotide binding /// protein serine/threonine kinase activity /// calcium- and calmodulin-dependent protein kinase activity /// protein-tyrosine kinase activity /// calcium ion binding /// calmodulin binding /// ATP binding /// transferase activity ///
214121_x_at / PDZ and LIM domain 7 (enigma) / PDLIM7 / 9260 / 0.00038 / 1.826376 / --- / protein binding /// zinc ion binding /// metal ion binding
205626_s_at / calbindin 1, 28kDa / CALB1 / 793 / 0.01734 / 1.817937 / --- / vitamin D binding /// calcium ion binding /// protein binding /// calcium ion binding
1558164_s_at / Peroxisome biogenesis factor 13 / PEX13 / 5194 / 0.0027 / 1.813585 / protein transport /// protein import into peroxisome matrix, docking /// transport /// protein import into peroxisome matrix, docking / protein binding
213326_at / vesicle-associated membrane protein 1 (synaptobrevin 1) / VAMP1 / 6843 / 0.00034 / 1.802913 / vesicle-mediated transport / ---
206117_at / tropomyosin 1 (alpha) / TPM1 / 7168 / 0.02604 / 1.79185 / regulation of muscle contraction /// muscle development /// regulation of heart contraction rate /// negative regulation of Ras protein signal transduction / actin binding /// structural constituent of muscle /// structural constituent of cytoskeleton /// Ras GTPase activator activity /// translation initiation factor activity
213419_at / amyloid beta (A4) precursor protein-binding, family B, member 2 (Fe65-like) / APBB2 / 323 / 0.00213 / 1.788668 / cell cycle arrest /// intracellular signaling cascade /// axonogenesis /// actin filament-based movement /// negative regulation of cell growth /// regulation of transcription /// negative regulation of S phase of mitotic cell cycle /// protein stabilizat / beta-amyloid binding /// transcription factor binding /// histone acetyltransferase binding /// protein binding /// protein binding
227826_s_at / Sorbin and SH3 domain containing 2 / ARGBP2 / 8470 / 0.00213 / 1.776707 / transport / protein binding /// structural constituent of cytoskeleton /// cytoskeletal adaptor activity /// structural constituent of muscle
1553705_a_at / cholinergic receptor, muscarinic 3 / CHRM3 / 1131 / 0.0007 / 1.773837 / protein modification /// signal transduction /// signal transduction /// G-protein coupled receptor protein signaling pathway /// G-protein coupled receptor protein signaling pathway /// nervous system development /// cell proliferation / rhodopsin-like receptor activity /// phosphoinositide phospholipase C activity /// receptor activity /// receptor activity /// muscarinic acetylcholine receptor activity /// muscarinic acetylcholine receptor activity /// signal transducer activity /// G-p
213592_at / angiotensin II receptor-like 1 / AGTRL1 / 187 / 0.01522 / 1.772773 / signal transduction /// G-protein coupled receptor protein signaling pathway /// G-protein coupled receptor protein signaling pathway / rhodopsin-like receptor activity /// receptor activity /// signal transducer activity /// receptor activity /// G-protein coupled receptor activity /// G-protein coupled receptor activity
1553322_s_at / TEA domain family member 1 (SV40 transcriptional enhancer factor) / TEAD1 / 7003 / 0.02877 / 1.764201 / transcription /// regulation of transcription, DNA-dependent / transcription factor activity /// protein binding
204762_s_at / guanine nucleotide binding protein (G protein), alpha activating activity polypeptide O / GNAO1 / 2775 / 0.00379 / 1.762331 / muscle contraction /// signal transduction /// G-protein coupled receptor protein signaling pathway /// nervous system development /// axon guidance / nucleotide binding /// GTPase activity /// receptor signaling protein activity /// GTP binding /// signal transducer activity /// guanyl nucleotide binding
211302_s_at / phosphodiesterase 4B, cAMP-specific (phosphodiesterase E4 dunce homolog, Drosophila) / PDE4B / 5142 / 0.00238 / 1.761312 / signal transduction / cAMP-specific phosphodiesterase activity /// hydrolase activity /// catalytic activity /// 3',5'-cyclic-nucleotide phosphodiesterase activity
1564339_a_at / cholinergic receptor, muscarinic 3 / CHRM3 / 1131 / 0.00266 / 1.747215 / protein modification /// signal transduction /// signal transduction /// G-protein coupled receptor protein signaling pathway /// G-protein coupled receptor protein signaling pathway /// nervous system development /// cell proliferation / rhodopsin-like receptor activity /// phosphoinositide phospholipase C activity /// receptor activity /// receptor activity /// muscarinic acetylcholine receptor activity /// muscarinic acetylcholine receptor activity /// signal transducer activity /// G-p
201467_s_at / NAD(P)H dehydrogenase, quinone 1 / NQO1 / 1728 / 0.03298 / 1.735438 / electron transport /// xenobiotic metabolism /// nitric oxide biosynthesis /// synaptic transmission, cholinergic /// response to toxin / NAD(P)H dehydrogenase (quinone) activity /// cytochrome-b5 reductase activity /// oxidoreductase activity /// NAD(P)H dehydrogenase (quinone) activity
210511_s_at / inhibin, beta A (activin A, activin AB alpha polypeptide) / INHBA / 3624 / 0.0017 / 1.709306 / skeletal development /// ovarian follicle development /// induction of apoptosis /// defense response /// cell cycle arrest /// cell surface receptor linked signal transduction /// cell-cell signaling /// nervous system development /// mesoderm developmen / cytokine activity /// transforming growth factor beta receptor binding /// hormone activity /// hormone activity /// protein binding /// growth factor activity /// growth factor activity /// activin inhibitor activity /// cytokine activity /// hormone act
230418_s_at / UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 1 / GALNTL1 / 57452 / 0.01078 / 1.707359 / --- / polypeptide N-acetylgalactosaminyltransferase activity /// calcium ion binding /// sugar binding /// transferase activity, transferring glycosyl groups /// manganese ion binding /// transferase activity
205625_s_at / calbindin 1, 28kDa / CALB1 / 793 / 0.00107 / 1.705157 / --- / vitamin D binding /// calcium ion binding /// protein binding /// calcium ion binding
242488_at / CDNA FLJ38396 fis, clone FEBRA2007957 / 0.00139 / 1.704817 / --- / ---
208806_at / chromodomain helicase DNA binding protein 3 / CHD3 / 1107 / 0.00097 / 1.680155 / chromatin assembly or disassembly /// transcription /// regulation of transcription from RNA polymerase II promoter /// chromosome organization and biogenesis (sensu Eukaryota) /// chromatin modification /// regulation of transcription, DNA-dependent /// / nucleotide binding /// DNA binding /// chromatin binding /// ATP-dependent DNA helicase activity /// protein binding /// ATP binding /// zinc ion binding /// hydrolase activity /// metal ion binding /// nucleic acid binding /// DNA binding /// helicase ac
1553292_s_at / hypothetical protein FLJ25006 / FLJ25006 / 124923 / 0.04519 / 1.673127 / protein amino acid phosphorylation / nucleotide binding /// protein kinase activity /// protein serine/threonine kinase activity /// ATP binding /// kinase activity /// transferase activity
213666_at / septin 6 / 6-Sep / 23157 / 0.00166 / 1.660572 / cytokinesis /// cell cycle /// cell division / nucleotide binding /// protein binding /// GTP binding /// GTP binding
221104_s_at / nipsnap homolog 3B (C. elegans) / NIPSNAP3B / 55335 / 0.00207 / 1.650881 / --- / ---
236402_at / CDNA FLJ42263 fis, clone TKIDN2014570 / 0.01005 / 1.649717 / --- / ---
236471_at / nuclear factor (erythroid-derived 2)-like 3 / NFE2L3 / 9603 / 0.00116 / 1.644207 / transcription /// regulation of transcription, DNA-dependent /// transcription from RNA polymerase II promoter / transcription factor activity /// transcription coactivator activity /// DNA binding
224164_at / tropomyosin 3 / TPM3 / 7170 / 0.01352 / 1.628413 / regulation of muscle contraction /// muscle development / actin binding
236525_at / F-box protein 36 / FBXO36 / 130888 / 0.00632 / 1.623733 / ubiquitin cycle / ---
1567107_s_at / tropomyosin 3 /// tropomyosin 4 / TPM3 /// TPM4 / 0.0009 / 1.621884 / regulation of muscle contraction /// muscle development / actin binding
212602_at / WD repeat and FYVE domain containing 3 / WDFY3 / 23001 / 0.02657 / 1.620233 / --- / binding /// zinc ion binding
229125_at / ankyrin repeat domain 38 / ANKRD38 / 163782 / 0.03794 / 1.617435 / --- / ---
204560_at / FK506 binding protein 5 / FKBP5 / 2289 / 0.00823 / 1.616046 / protein folding /// protein folding / peptidyl-prolyl cis-trans isomerase activity /// FK506 binding /// isomerase activity /// unfolded protein binding /// protein binding /// binding
1558794_at / CDNA FLJ34397 fis, clone HCHON2001110 / 0.00676 / 1.615786 / --- / ---
219711_at / zinc finger protein 586 / ZNF586 / 54807 / 0.00412 / 1.61132 / regulation of transcription, DNA-dependent / nucleic acid binding /// zinc ion binding
204421_s_at / fibroblast growth factor 2 (basic) / FGF2 / 2247 / 0.02737 / 1.595546 / regulation of progression through cell cycle /// activation of MAPK activity /// angiogenesis /// chemotaxis /// signal transduction /// Ras protein signal transduction /// cell-cell signaling /// nervous system development /// muscle development /// cell / protein binding /// growth factor activity /// heparin binding
228013_at / Protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), alpha isoform / PPP2R2A / 5520 / 0.00031 / 1.594528 / protein amino acid dephosphorylation /// signal transduction / protein phosphatase type 2A activity /// phosphoprotein phosphatase activity /// protein binding /// protein phosphatase type 2A regulator activity /// hydrolase activity /// protein phosphatase type 2A regulator activity