Table 5 Top ten up- and down- regulated isoforms expressed only in normal synovial RNA or only in rheumatoid arthritis synovial RNA
From: RNA-seq analysis of synovial fibroblasts brings new insights into rheumatoid arthritis
Gene | Description | Locus | Length | RA1FPKM | RA2FPKM | WT1FPKM | WT2FPKM | Avg. RA | Avg. WT | Ensembl gene ID |
|---|---|---|---|---|---|---|---|---|---|---|
SCARA5 | Scavenger receptor class A, member 5 | chr8 | 4151 | 11.36 | 353.51 | -- | -- | 182.43 | -- | ENSG00000168079 |
PLA2G2A | Phopholipase A2, group IIA | chr1 | 969 | 3.81 | 264.84 | -- | -- | 134.33 | -- | ENSG00000188257 |
SPCS1 | Signal peptidase complex subunit 1 homolog | chr3 | 1084 | 81.32 | 112.54 | -- | -- | 96.93 | -- | ENSG00000114902 |
CITED2 | Cbp/p300-interacting transactivator, 2 | chr6 | 1929 | 69.03 | 119.73 | -- | -- | 94.38 | -- | ENSG00000164442 |
IL13RA2 | Interleukin 13 receptor, alpha 2 | chrX | 1373 | 9.94 | 90.27 | -- | -- | 50.10 | -- | ENSG00000123496 |
SLPI | Secretory leukocyte peptidase inhibitor | chr20 | 598 | 1.36 | 98.75 | -- | -- | 50.06 | -- | ENSG00000124107 |
KYNU | Kynureninase | chr2 | 1672 | 16.46 | 79.31 | -- | -- | 47.88 | -- | ENSG00000115919 |
FAM20A | Family with sequence similarity 20, member A | chr17 | 4275 | 28.98 | 60.54 | -- | -- | 44.76 | -- | ENSG00000108950 |
NUMA1 | Nuclear mitotic apparatus protein 1 | chr11 | 7182 | 40.51 | 45.42 | -- | -- | 42.96 | -- | ENSG00000137497 |
PRG4 | Proteoglycan 4 | chr1 | 4765 | 1.27 | 81.59 | -- | -- | 41.43 | -- | ENSG00000116690 |
ACTG2 | Actin, gamma 2, smooth muscle, enteric | chr2 | 1331 | -- | -- | 1046.45 | 2.16 | -- | 524.30 | ENSG00000163017 |
PSAP | Prosaposin | chr10 | 2822 | -- | -- | 234.56 | 510.86 | -- | 372.71 | ENSG00000197746 |
RPS24 | Ribosomal Protein S24 | chr10 | 655 | -- | -- | 149.70 | 298.29 | -- | 224.00 | ENSG00000138326 |
LRRC59 | Leucine rich repeat containing 59 | chr17 | 2915 | -- | -- | 116.95 | 88.57 | -- | 102.76 | ENSG00000108829 |
HMGA1 | High mobility group box 1 | chr6 | 1846 | -- | -- | 44.78 | 99.59 | -- | 72.19 | ENSG00000189403 |
CD59 | CD59 molecule, complement regulatory protein | chr11 | 7619 | -- | -- | 68.61 | 75.31 | -- | 71.96 | ENSG00000085063 |
PPP1R14A | Protein phosphatase 1, regulatory (inhibitor) subunit 14A | chr19 | 718 | -- | -- | 142.49 | 1.10 | -- | 71.79 | ENSG00000167641 |
HMGA1 | High mobility group box 1 | chr6 | 1993 | -- | -- | 43.81 | 93.26 | -- | 68.54 | ENSG00000189403 |
RPS24 | Ribosomal Protein S24 | chr10 | 633 | -- | -- | 80.53 | 47.31 | -- | 63.92 | ENSG00000138326 |
SNHG6 | Small nucleolar RNA host gene 6 | chr8 | 472 | -- | -- | 46.68 | 65.62 | -- | 56.15 | ENSG00000245910 |