Table 1.
Fluidigm qPCR primer list
| Gene Symbol/primer | Gene description | Relevance | Sequence 5′ to 3′ |
|---|---|---|---|
| Adora2a (P1), F | Adenosine A2a receptor | Qiagen array suggestion | AGCTCCATCTTCAGCCTCCT |
| Adora2a (P1), R | CCAGTCACCAAGCCATTGTA | ||
| Adora2a (P2), F | Adenosine A2a receptor | Qiagen array suggestion | TGCTGAGTGAAGGGAGTGTG |
| Adora2a (P2), R | TTGAGGCCAGGGGACTCT | ||
| Atoh1 (P1), F | Atonal homolog 1 | Sonic Hedgehog Pathway | GCCAGTGCAGGAGGAAAGTA |
| Atoh1 (P1), R | GTAATGAGAATGCGGGGAAA | ||
| Atoh1 (P2), F | Atonal homolog 1 | Sonic Hedgehog Pathway | CAACTGTGCAAGCTGAAAGG |
| Atoh1 (P2), R | GTACCCCGTTCACCTGTTTG | ||
| Aqp4 (P1), F | Aquaporin 4 | Water transport | CCACGGTTCATGGAAATCTT |
| Aqp4 (P1), R | TCAGTCCGTTTGGAATCACA | ||
| Aqp4 (P2), F | Aquaporin 4 | Water transport | TACACCGGTGCCAGTATGAA |
| Aqp4 (P2), R | TGGTCCAACCCAATATATCCA | ||
| Bdnf, F | Brain‐derived neurotrophic factor | Neurotrophin | TTGAACACGTGATCGAGGAG |
| Bdnf, R | TCCGCGTCCTTATTGTTTTC | ||
| Calb1 (P1), F | Calbindin | Purkinje neuron marker | GGGCAAAGAGATGATGGAAA |
| Calb1 (P1), R | ATCGGAATAGCAGCAGGAAA | ||
| Calb1 (P2), F | Calbindin | Purkinje neuron marker | GGAGTCAAAATGTGTGGGAAA |
| Calb1 (P2), R | TGTATCCATTGCCATCCTGA | ||
| Casp3 (P1), F | Caspase‐3 | Proapoptotic | CTGGCAAACCCAAACTTTTC |
| Casp3 (P1), R | GTCCCACTGTCCGTCTCAAT | ||
| Casp3 (P2), F | Caspase‐3 | Proapoptotic | AGCAGTTTTATTTGCGTGCTT |
| Casp3 (P2), R | CAACAGGTCCATTTGTTCCA | ||
| Cldn3, F | Claudin‐3 | Tight junction marker | TTATCACAGCGCAGATCACC |
| Cldn3, R | ACACTTTGCACTGCATCTGG | ||
| Cldn5 (P1), F | Claudin‐5 | Tight junction marker | CTGGACCACAACATCGTGAC |
| Cldn5 (P1), R | AGCACCGAGTCGTACACCTT | ||
| Cldn5 (P2), F | Claudin‐5 | Tight junction marker | CTGGTTCGCCAACATCGT |
| Cldn5 (P2), R | AAGCTTCTCCTGCTCTGCTG | ||
| Dcx (P1), F | Doublecortin | Neurogenesis marker | CCTCAGGGAGTGCGTTACAT |
| Dcx (P1), R | ATAGCTTTCCCCTTCCTCCA | ||
| Dcx (P2), F | Doublecortin | Neurogenesis marker | TTGGTGACGACGATGTGTTT |
| Dcx (P2), R | TGACTCGGCATTCATTTTCA | ||
| Efnb1 (P1), F | Ephrin‐B1 | Qiagen array suggestion | AAATCCGCTTCACCATCAAG |
| Efnb1 (P1), R | CAGGCTCCCATTGGATGTAG | ||
| Efnb1 (P2), F | Ephrin‐B1 | Qiagen array suggestion | TGACCATCTTTTCCCTCCTG |
| Efnb1 (P2), R | GGGCAGATGATGTCCAGTTT | ||
| Erbb2 (P1), F | V‐erb‐b2 avian erythroblastic leukemia viral oncogene homolog 2 | Qiagen array suggestion | CAGCACATCCACCAGGAGT |
| Erbb2 (P1), R | AAGGTGCCAGTGGAGACTTG | ||
| Erbb2 (P2), F | V‐erb‐b2 avian erythroblastic leukemia viral oncogene homolog 2 | Qiagen array suggestion | CCCCAACACGACTCTAGCC |
| Erbb2 (P2), R | GGCAACGTAGCCATCAGTTT | ||
| Flk1 (P1), F | VEGF‐Receptor 2 | Angiogenesis pathway | GCATCCGAAGAGCTGAAAAC |
| Flk1 (P1), R | ATGCCACAGACTCCTTGCTT | ||
| Flk1 (P2), F | VEGF‐Receptor 2 | Angiogenesis pathway | ATCCCAGATGACAGCCAGAC |
| Flk1 (P2), R | ATGGCGCTAATTTGGTTCTG | ||
| Flt1 (P1), F | VEGF‐Receptor 1 | Angiogenesis pathway | GAAAGGCCAAGATTTGTGGA |
| Flt1 (P1), R | AGTCTTTGCCGTCCTGTTGT | ||
| Flt1 (P2), F | VEGF‐Receptor 1 | Angiogenesis pathway | CTACAAGCAGCCCATCACAA |
| Flt1 (P2), R | CGATGAATGCACTTTCTGGA | ||
| GFAP (P1), F | Glialfibrillaryacidic protein | (Bergmann) gliacell marker | ACATCGAGATCGCCACCTAC |
| GFAP (P1), R | GCAGATTGGAGAAGGTCTGC | ||
| GFAP (P2), F | Glialfibrillaryacidic protein | (Bergmann) gliacell marker | GCAGACCTTCTCCAATCTGC |
| GFAP (P2), R | CTCCACAGTCTTCACCACGA | ||
| Glut1 (P1), F | Glucose transporter 1 | Energy metabolism | GTCACCATCCTGGAGCTGTT |
| Glut1 (P1), R | ATAGAAAACCGCGTTGATGC | ||
| Glut1 (P2), F | Glucose transporter 1 | Energy metabolism | GCATCAACGCGGTTTTCTAT |
| Glut1 (P2), R | GTGGCATACACAGGCTGCT | ||
| Glut3 (P1), F | Glucose transporter 3 | Energy metabolism | TCCCCTCAGCTGCATTCTAT |
| Glut3 (P1), R | CCAGAAGACAACGAGGAAGC | ||
| Glut3 (P2), F | Glucose transporter 3 | Energy metabolism | GCTGGCGTGGTTAATACCAT |
| Glut3 (P2), R | CTCCAAGGCCTATCAGATGC | ||
| Gpr124 (P1), F | Probable G‐protein‐coupled receptor 124 | Angiogenesis regulator | GCTGTGCTCATGGAACTGAG |
| Gpr124 (P1), R | GAGAAGAGGCAGAGCAGCAG | ||
| Gpr124 (P2), F | Probable G‐protein‐coupled receptor 124 | Angiogenesis regulator | TCTGCCTCTTCTCCACCATC |
| Gpr124 (P2), R | CATGTGGAAGCACAGGTTCA | ||
| Hdac4 (P1), F | Histone deacetylase 4 | Qiagen array suggestion | CATTGACATCCACAGCCAGT |
| Hdac4 (P1), R | TTCCTCGTTCTCGCACTTCT | ||
| Hdac4 (P2), F | Histone deacetylase 4 | Qiagen array suggestion | TCTCTGCTTTGCTGGGAAAC |
| Hdac4 (P2), R | CGGAGTTGTCGTAGGGTCTC | ||
| HIF‐1a (P1), F | Hypoxia‐inducible factor 1‐alpha | Hypoxia marker | GAATGGAACGGAGCAAAAGA |
| HIF‐1a (P1), R | TGATTGCCCCAGGAGTCTAC | ||
| HIF‐1a (P2), F | Hypoxia‐inducible factor 1‐alpha | Hypoxia marker | TGTGTTATCTGTCGCTTTGAGTC |
| HIF‐1a (P2), R | TTTCGCTTTCTCTGAGCATTC | ||
| ICAM1, F | Intercellularadhesionmolecule 1 | Tight junction marker | GGGGTCCATACAGGACACTG |
| ICAM1, R | CAGCTCGTACTTCTGCGACA | ||
| Itpr3 (P1), F | Inositol 1,4,5‐Trisphosphate Receptor, Type 3 | Purkinje neuron differentiation | GTCATGGACGTGGAGTTCCT |
| Itpr3 (P1), R | GAGGTCAAAGAGCAGGATGC | ||
| Itpr3 (P2), F | Inositol 1,4,5‐Trisphosphate Receptor, Type 3 | Purkinje neuron differentiation | TCTGCTCATGTGCATTGTCA |
| Itpr3 (P2), R | GGGAAGAGCGACTCATCTTTT | ||
| Lifeguard (P1), F | Lifeguard | Anti‐apoptotic | TACAACACCACATCCGTGCT |
| Lifeguard (P1), R | GTCGAACTTGGTCTGGAAGC | ||
| Lifeguard (P2), F | Lifeguard | Antiapoptotic | GGAGCAGGCGTGTTTACATT |
| Lifeguard (P2), R | TGAGGGCGCCAAAAATATAC | ||
| LOC100623510 (P1), F | Protein S100‐B‐like (no SusScrofaortholog) | Qiagen array suggestion | AGCTCATCAACAGCGAGCTT |
| LOC100623510 (P1), R | GCTGTCCAGTGTCTCCATGA | ||
| LOC100623510 (P2), F | Protein S100‐B‐like (no SusScrofaortholog) | Qiagen array suggestion | CAGGAGGTCGTGGACAAAGT |
| LOC100623510 (P2), R | GGTAACCATGGCGACAAAAG | ||
| Mbp (P1), F | Myelin Basic Protein | Myelinization marker | TGACTACAAACCGGCTCACA |
| Mbp (P1), R | TCCCAGCTTGAAGATTTTGG | ||
| Mbp (P2), F | Myelin Basic Protein | Myelinization marker | GGACTGTCCCTCAGCAGATT |
| Mbp (P2), R | GAGCCGGTTTGTAGTCAGGA | ||
| Mct1 (P1), F | Monocarboxylate transporter 1 | Energy (lactate) metabolism | CCGACTTCTGGCAAAAGAAC |
| Mct1 (P1), R | GGCTTCTCAGCAGCGTCTAT | ||
| Mct1 (P2), F | Monocarboxylate transporter 1 | Energy (lactate) metabolism | GGTGGAGGTCCTATCAGCAG |
| Mct1 (P2), R | GAAGGAAGCTGCAATCAAGC | ||
| Mct2 (P1), F | Monocarboxylate transporter 2 | Energy (lactate) metabolism | CTCACTTGGCCTCTGTGTGA |
| Mct2 (P1), R | AAAGATGCCTGGCAAGAAGA | ||
| Mct2 (P2), F | Monocarboxylate transporter 2 | Energy (lactate) metabolism | GGTCCCCACCCATTAGTTTT |
| Mct2 (P2), R | ATGGAGAGGGCTGAGGATTT | ||
| Mdk (P1), F | Midkine (neurite growth‐promoting factor 2) | Qiagen array suggestion | GAAGGCTCGGTACAATGCTC |
| Mdk (P1), R | TTTTCCCTTCCCTTTCTTGG | ||
| Mdk (P2), F | Midkine (neurite growth‐promoting factor 2) | Qiagen array suggestion | GGTGGCCAAAAAGAAAGACA |
| Mdk (P2), R | CACTCCGCAGTCCTTGCT | ||
| Neurog1 (P1), F | Neurogenin 1 | Qiagen array suggestion | GCCACTCTCTGACCCCAGTA |
| Neurog1 (P1), R | AGGCCTGGAAAGGAGAAAAG | ||
| Neurog1 (P2), F | Neurogenin 1 | Qiagen array suggestion | CTTCCCAGACGACAGCAAG |
| Neurog1 (P2), R | GCCAGAGCCCAGATGTAGTT | ||
| Ngf (P1), F | Nerve Growth Factor | Neurotrophin | TCAGCATTCCCTTGACACAG |
| Ngf (P1), R | AAGTTTGGGGTCCACAGTGA | ||
| Ngf (P2), F | Nerve Growth Factor | Neurotrophin | CAACAGGACTCACAGGAGCA |
| Ngf (P2), R | CTGTCGCACACCGAGAACT | ||
| Nrp1 (P1), F | Neuropilin 1 (VEGF ligand) | Qiagen array suggestion | TTCAAGAGGGGTCCTGAATG |
| Nrp1 (P1), R | GGCTGTTGGGGTATTTTTCA | ||
| Nrp1 (P2), F | Neuropilin 1 (VEGF ligand) | Qiagen array suggestion | TCGAAAGCTTTGACCTGGAG |
| Nrp1 (P2), R | CCAATATGGGGACCAACATC | ||
| Nrp2 (P1), F | Neuropilin 2 | Angiogenesis pathway | GTTACTGCCTTGCGTTCCTC |
| Nrp2 (P1), R | CATCCTCGTAGCCCTCTCTG | ||
| Nrp2 (P2), F | Neuropilin 2 | Angiogenesis pathway | CGACATGGAGTACCAGCAGA |
| Nrp2 (P2), R | GAGGAACGCAAGGCAGTAAC | ||
| Ntf3 (P1), F | Neurotrophin 3 | Neurotrophin | AGACTCGCTCAATTCCCTGA |
| Ntf3 (P1), R | CTGAAGGTCCACCATCTGCT | ||
| Ntf3 (P2), F | Neurotrophin 3 | Neurotrophin | CAAAACCTCCCAGACCTACG |
| Ntf3 (P2), R | ACAAGGCACACACACAGGAC | ||
| Ocln, F | Occludin | Tight junction marker | GACGAGCTGGAGGAAGACTG |
| Ocln, R | GTACTCCTGCAGGCCACTGT | ||
| p75 (P1), F | Nerve Growth Factor Receptor | Neurotrophin receptor | CGACAACCTCATCCCTGTCT |
| p75 (P1), R | GCTGTTCCACCTCTTGAAGG | ||
| p75 (P2), F | Nerve Growth Factor Receptor | Neurotrophin receptor | CTGCAAGCAGAACAAGCAAG |
| p75 (P2), R | TCTGGCTGTCCACAGAGATG | ||
| Pdgfr‐beta (P1), F | Platelet‐derived growth factor receptor beta | Tyrosinekinase receptors | CTCACCGTCATCTCCCTCAT |
| Pdgfr‐beta (P1), R | AGCTCACGGATTCGATCACT | ||
| Pdgfr‐beta (P2), F | Platelet‐derived growth factor receptor beta | Tyrosinekinase receptors | GAGCCATTCTCAGGCTACCA |
| Pdgfr‐beta (P2), R | GACATGAGGGCTTGCTTCTC | ||
| Pecam‐1 (P1), F | Platelet endothelial cell adhesion molecule | Endothelialcell marker | TTGGAAACCATGCAATGAAA |
| Pecam‐1 (P1), R | GGTCACTTCCACTTCCGTGT | ||
| Pecam‐1 (P2), F | Platelet endothelial cell adhesion molecule | Endothelialcell marker | ACACGGAAGTGGAAGTGACC |
| Pecam‐1 (P2), R | TCAGCTTTCCGGATTTCACT | ||
| Ptch, F | Patched receptor | Sonic Hedgehog Pathway | GCGTGGATGATGTTTTCCTT |
| Ptch, R | GCTTGAGGCATTCTCCAGTC | ||
| Pxn (P1), F | Paxilin | Angiogenesis pathway | CTCTCTCCCAGAGGGGAAAC |
| Pxn (P1), R | GTGGAGTGGTCTGGCTCTTC | ||
| Pxn (P2), F | Paxilin | Angiogenesis pathway | CTCCCCTGTGAACTTTCTGG |
| Pxn (P2), R | TTCCTGAGAAGGCAGGAGAA | ||
| Shh (P1), F | Sonic Hedgehog | Sonic hedgehog pathway | GCGACTTCCTCACCTTCTTG |
| Shh (P1), R | GGCTCTCTGGTCTCGATCAC | ||
| Shh (P2), F | Sonic Hedgehog | Sonic hedgehog pathway | AGCAGTTTATCCCCAACGTG |
| Shh (P2), R | TGTAATTGGGGGTGAGTTCC | ||
| Smo1, F | Smoothened receptor | Sonic Hedgehog Pathway | CAGCAAGATCAACGAGACCA |
| Smo1, R | GTGGCAGCTGAAAGTGATGA | ||
| Snf2 h (P1), F | SWI/SNF‐related matrix‐associated actin‐dependent regulator of chromatin subfamily A member 5 | Purkinje and granula cell development | TACAAGGTGCCTCGAAATCC |
| Snf2 h (P1), R | TCATCGTTAAGGGGTTCAGC | ||
| Snf2 h (P2), F | SWI/SNF‐related matrix‐associated actin‐dependent regulator of chromatin subfamily A member 5 | Purkinje and granula cell development | GAAAGGGGAGAGGCAAGAAT |
| Snf2 h (P2), R | TGTACCGTCCAATCTTCGTG | ||
| Syp (P1), F | Synaptophysin | Synaptogenesis marker | GGAATACCTGCAAGGAGCTG |
| Syp (P1), R | AGAGCACCAGGTTCAGGAAG | ||
| Syp (P2), F | Synaptophysin | Synaptogenesis marker | GTGACCTCTGGCCTCAACAC |
| Syp (P2), R | CTCCTTGAACACGAACCACA | ||
| TrkB (P1), F | BDNF/NT‐3 growth factors receptor | Neurotrophin receptor | TTGTGTGGCAGAAAATCTCG |
| TrkB (P1), R | GGTCTGAGGTTGGAGATTCG | ||
| TrkB (P2), F | BDNF/NT‐3 growth factors receptor | Neurotrophin receptor | GGGGCAATTTTGAATGAGTC |
| TrkB (P2), R | CGTGGTACTCCGTGTGATTG | ||
| VE‐Cad (P1), F | VascularEndothelialCadherin | Tight junction marker | AGAGCCTCATGGGGAAGAAT |
| VE‐Cad (P1), R | TCTGAGGAGAGGCTGAGGAG | ||
| VE‐Cad (P2), F | VascularEndothelialCadherin | Tight junction marker | AACACACCTCTGGGAAATGG |
| VE‐Cad (P2), R | TGTCAAAGGGTGTGCTGAAG | ||
| Vegf‐A, F | Vascular endothelial growth factor A | Angiogenesis pathway | ACATCTTCAAGCCGTCCTGT |
| Vegf‐A, R | ACACTCCAGACCTTCGTCGT | ||
| Vegf‐B (P1), F | Vascular endothelial growth factor B | Neurotrophin pathway | GTGAAGCCAGACAGGGTTTC |
| Vegf‐B (P1), R | GTGGGATGGGTGATGTCAG | ||
| Vegf‐B (P2), F | Vascular endothelial growth factor B | Neurotrophin pathway | CTCTGGCCACCAAAAGAAAG |
| Vegf‐B (P2), R | TCCATGGTTAGAGGCACCAC | ||
| Wnt7a (P1), F | Wingless type, member 7A | Embryogenesis and angiogenesis marker | GCCTGGACGAGTGTCAGTTT |
| Wnt7a (P1), R | GCTCCCCACTTTGAGCTCTT | ||
| Wnt7a (P2), F | Wingless type, member 7A | Embryogenesis and angiogenesis marker | ATCAAGAAGCCGCTGTCCTA |
| Wnt7a (P2), R | GGTCCTCCTCGCAGTAGTTG | ||
| Wnt7b (P1), F | Wingless type, member 7B | Embryogenesis and angiogenesis marker | CGCGAGATCAAGAAAAACG |
| Wnt7b (P1), R | CACTTGCACTCCAGCTTCAT | ||
| Wnt7b (P2), F | Wingless type, member 7B | Embryogenesis and angiogenesis marker | GCTACGGCATCGACTTCTCC |
| Wnt7b (P2), R | TCGTTGTTGTGCAGGTTCAT | ||
| ZO‐1 (P1), F | Tight junction protein 1 | Tight junction marker | ATGACTCCTGACGGTTGGTC |
| ZO‐1 (P1), R | TGCCAGGTTTTAGGATCACC | ||
| ZO‐1 (P2), F | Tight junction protein 1 | Tight junction marker | CCGCCTCCTGAGTTTGATAG |
| ZO‐1 (P2), R | CAGCTTTAGGCACTGTGCTG | ||
| Beta‐actin, F | Beta‐actin | Reference gene | CTACGTCGCCCTGGACTTC |
| Beta‐actin, R | GCAGCTCGTAGCTCTTCTCC | ||
| B2 m, F | Beta‐2‐microglobulin | Reference gene | TGAAGCACGTGACTCTCGAT |
| B2 m, R | CTCTGTGATGCCGGTTAGTG | ||
| Gapdh, F | Glyceraldehyde 3‐phosphate dehydrogenase | Reference gene | ACCCAGAAGACTGTGGATGG |
| Gapdh, R | AAGCAGGGATGATGTTCTGG | ||
| PP1a, F | Protein phosphatase 1 alpha | Reference gene | CAAGACTGAGTGGTTGGATGG |
| PP1a, R | TGTCCACAGTCAGCAATGGT | ||
| Rpl13A, F | 60S ribosomal protein L13a | Reference gene | ATTGTGGCCAAGCAGGTACT |
| Rpl13A, R | AATTGCCAGAAATGTTGATGC | ||
| Tbp, F | Tatabox‐binding protein | Reference gene | ACGTTCGGTTTAGGTTGCAG |
| Tbp, R | CAGGAACGCTCTGGAGTTCT |
List of genes, relevance and primer sequences used for Fluidigm qPCR. P1 and P2 states the two “names” given for all newly designed primer sets. Reference genes are given as the last six in the gene list.