TABLE 2.
Gene targets and probes for NanoString analysis.
| Gene name | Alternate name | Category | Accession number | mRNA region targeted | Sequence targeted | NanoString probe |
| Aif1 | IBA1 | M0 | NM_019467.2 | 56–155 | CTGGAGCAGCCTGCAGACTTCATCCTCTCTCTTCCA TCCCGGGGAAAGTCAGCCAGTCCTCCTCAGCT GCCT GTCTTAACCTGCATCATGAAGCCTGAGG | NM_019467.2:55 |
| Mertk | Mertk | M0 | NM_008587.1 | 1321–1420 | AGGGACTTACAAAGAGCTTTCTGAAGAAGTCAGCCAGA ATGGCAGCTGGGCTCAGATTCCTGTCCAAA TCCACAATGCCACCTGCACAGTGAGAATCGCG | NM_008587.1:1320 |
| P2ry12 | P2ry12 | M0 | NM_027571.3 | 440–539 | GATCACCCAGGTTCTCTTCCCATTGCTGTACACCGTCC TGTTCTTTGCTGGGCTCATCACGAACAGCTTG GCAATGAGGATTTTCTTTCAGATCCGCAGT | NM_027571.3:439 |
| Sparc | SPARC | M0 | NM_009242.4 | 175–274 | CTCCAAGAGGCTTCCTGCTGCTCGCCTCTAAACCCCTCCA CATTCCTGCAGCCCTTCAGACCGCCAGAACTCT TCTGCCGCCTGCCTGCCTGCCTGCCTG | NM_009242.4:174 |
| Tmem119 | Tmem119 | M0 | NM_146162.2 | 1551–1650 | TGGCTACTCTAAGGGTTCCTGCTGGGCTGGCT TTGCTACGCTTTCCTCAAGCTGCTTTCTTATTACCAGGA TGCCTCACAGCTACAAAGTCCAATCTCAC | NM_146162.2:1550 |
| Cd86 | CD86 | M1 | NM_019388.3 | 252–351 | CAAAACATAAGCCTGAGTGAGCTGGTAGTATTTTGGCAGGA CCAGCAAAAGTTGGTTCTGTACGAGCACTATTTGGGC CAGAGAAACTTGATAGTGTGA | NM_019388.3:251 |
| Fcgr2b | CD32 | M1 | NM_001077189.1 | 1226–1325 | TTGGTTCCCAATGGTTGACTGTACTAATGACTCCCATAA CTTACAGCTTCCCAACTCAAGACTCT TCTGCTATCGATCCACACTGCCACTAAAATTAATC | NM_001077189.1:1225 |
| Fcgr3 | CD16 | M1 | NM_010188.5 | 1176–1275 | TCTGACCTCCACCATCCACCATGGCAGGTGCACACAAT AAATTAAAATGTCATGTATATTTTTAAACAAGAGACAG GGGCAGGCTAAGGGTTGATGGCAT | NM_010188.5:1175 |
| Ifng | IFNg | M1 | NM_008337.1 | 96–195 | CTAGCTCTGAGACAATGAACGCTACACACTGCATCT TGGCTTTGCAGCTCTTCCTCATGGCTGTTTCTGGCTGTTA CTGCCACGGCACAGTCATTGAAAG | NM_008337.1:95 |
| IL12b | IL12p40 | M1 | NM_001303244.1 | 415–514 | TCAAAAACAAGACTTTCCTGAAGTGTGAAGCAC CAAATTACTCCGGACGGTTCACGTGCTCATGGCTGGT GCAAAGAAACATGGACTTGAAGTTCAACAT | NM_001303244.1:414 |
| IL13 | IL13 | M1 | NM_008355.2 | 426–525 | AGCTACACAAAGCAACTGTTTCGCCACGGCCCCTTCTAAT GAGGAGAGACCATCCCTGGGCATCTCAGCTGTGGACTC ATTTTCCTTTCTCACATCAGAC | NM_008355.2:425 |
| IL1b | IL1b | M1 | NM_008361.3 | 1121–1220 | GTTGATTCAAGGGGACATTAGGCAGCACTCTCTAGAAC AGAACCTAGCTGTCAACGTGTGGGGGATGAATTGGTCA TAGCCCGCACTGAGGTCTTTCATT | NM_008361.3:1120 |
| IL6 | IL6 | M1 | NM_031168.1 | 41–140 | CTCTCTGCAAGAGACTTCCATCCAGTTGCCTTCTTGGGACTG ATGCTGGTGACAACCACGGCCTTCCCTACTTCACAAGT CCGGAGAGGAGACTTCACAG | NM_031168.1:40 |
| Mcpt1 | MCP-1 | M1 | NM_008570.1 | 366–465 | ATGTTACTGAAGCTTGAAGAGAAAGCTGAGTTGACTC CTACTGTGGATGTAATTCCCTTGCCTGGTCCCTCTGA CTTTATCGACCCTGGGAAGATGTGCT | NM_008570.1:365 |
| Nos2 | iNOS/NOS2 | M1 | NM_010927.3 | 3716–3815 | CCCCCCTCCTCCACCCTACCAAGTAGTATTG TACTATTGTGGACTACTAAATCTCTCTCCTCTCCTCCC TCCCCTCTCTCCCTTTCCTCCCTTCTTCTCC | NM_010927.3:3715 |
| Tlr2 | Tlr2 | M1 | NM_011905.2 | 256–355 | GCAGGCGGTCACTGGCAGGAGATGTGTCCGCAATCATAGTTTC TGATGGTGAAGGTTGGACGGCAGTCTCTGCGACCT AGAAGTGGAAAAGATGTCGTTC | NM_011905.2:255 |
| Arg1 | Arg1 | M2 | NM_007482.3 | 627–726 | GTACATTGGCTTGCGAGACGTAGACCCTGGGGAACACTATA TAATAAAAACTCTGGGAATTAAGTATTTCTCCATGA CTGAAGTAGACAAGCTGGGGATT | NM_007482.3:626 |
| Cd36 | CD36 | M2 | NM_007643.3 | 1521–1620 | GGGACCATTGGTGATGAAAAAGCAGAAATGTTCAAAACA CAAGTGACTGGGAAAATCAAGCTCCTTGGCATGGTAG AGATGGCCTTACTTGGGATTGGAG | NM_007643.3:1520 |
| Chil3 | YM1 | M2 | NM_009892.2 | 824–923 | ATTGTGGGATTTCCAGCATATGGGCATACCTTTATCCTGA GTGACCCTTCTAAGACTGGAATTGGTGCCCCT ACAATTAGTACTGGCCCACCAGGAAAGT | NM_009892.2:823 |
| IL10 | IL10 | M2 | NM_010548.1 | 986–1085 | GGGCCCTTTGCTATGGTGTCCTTTCAATTGCTCTCAT CCCTGAGTTCAGAGCTCCTAAGAGAGTTGTGAAGA AACTCATGGGTCTTGGGAAGAGAAACCA | NM_010548.1:985 |
| IL4ra | IL4r-alpha | M2 | NM_001008700.3 | 671–770 | TGGAATAACCTGTACCCATCGAACAAC TTACTGTACAAAGACCTCATCTCCATGGTCAACAT CTCCAGAGAGGACAACCCTGCAGAATTCATAGTCTATA | NM_001008700.3:670 |
| Mrc1 | CD206 | M2 | NM_008625.1 | 3993–4092 | GTTCCGAAATGTTGAAGGGAAGTGGCTTTGGTTG AACGACAATCCTGTCTCCTTTGTCAACTGGAAAAC AGGCGATCCCTCTGGTGAACGGAATGATTGT | NM_008625.1:3992 |
| Retnla | Fizz1 | M2 | NM_020509.3 | 165–264 | GAATACTGATGAGACCATAGAGATTATCGTGGAG AATAAGGTCAAGGAACTTCTTGCCAATCCAGCTAA CTATCCCTCCACTGTAACGAAGACTCTCTCT | NM_020509.3:164 |
| Trem2 | Trem2 | M2 | NM_031254.2 | 8–107 | GGGCGCCTACCCTAGTCCTGACTGTTGCTCAATCCA GGAGCACAGTTCCTGTGGGCTGAGCCTGACT GGCTTGGTCATCTCTTTTCTGCACTTCAAGGGA | NM_031254.2:7 |
| Abcf1 | Abcf1 | HK | NM_013854.1 | 876–975 | GAGGTGTCTTCCCGCCAGGCAATGTTAGAAAA TGCATCTGACATTAAGTTGGAAAAGTTCAGCATCTCCGCCCA CGGCAAGGAGCTATTCGTCAATGCTG | NM_013854.1:875 |
| Gusb | Gusb | HK | NM_010368.1 | 284–383 | CCCTTCGGGACTTTATTGGCTGGGTGTGGTAT GAACGGGAAGCAATCCTGCCACGGCGATGGACCCAAGA TACCGACATGAGAGTGGTGTTGAGGATCAA | NM_010368.1:283 |
| Hprt | Hprt | HK | NM_013556.2 | 31–130 | TGCTGAGGCGGCGAGGGAGAGCGTTGGGCTTAC CTCACTGCTTTCCGGAGCGGTAGCACCTCCTCCGCCGGCTT CCTCCTCAGACCGCTTTTTGCCGCGA | NM_013556.2:30 |
| Ldha | Ldha | HK | NM_010699.1 | 256–355 | CAGAACAAGATTACAGTTGTTGGGGTTGGTGCT GTTGGCATGGCTTGTGCCATCAGTATCTTAATGAAGGA CTTGGCGGATGAGCTTGCCCTTGTTGACG | NM_010699.1:255 |
| Polr1b | Polr1b | HK | NM_009086.2 | 2796–2895 | TGCCTTTCACTGAGAGTGGCATGATGC CGGACATTCTGTTTAATCCTCACGGGTTTCCCTCCCGTATGA CCATAGGTATGTTAATCGAGAGCATGGCTGG | NM_009086.2:2795 |
| Rplp0 | Rplp0 | HK | NM_007475.5 | 496–595 | TCAGAACACTGGTCTAGGACCCGAGAAGACCT CCTTCTTCCAGGCTTTGGGCATCACCACGAAAATCTCCAGA GGCACCATTGAAATTCTGAGTGATGTG | NM_007475.5:495 |
Gene targets (plus common name), gene category with regard to microglial state, and probes used to detect them in qPCR analysis. HK, housekeeping.