Table 1.
Patient and Sample Information. Anti-CCP-cyclic citrullinated peptide; ESR-Erythrocyte Sedimentation Rate; DAS-Disease Activity Score; CDAI-Clinical Disease Activity Index; RAPID-Routine Assessment of Patient Index Data; PGA-Physician Global Assessment; HAQ-Health Assessment Questionnaire; TJC-tender joint count; SJC-swollen joint count. Treatment is divided by medication type and whether the patient is currently taking or has previously taken the medication. Standard deviation or percent of population is reported for patient information and treatment. Histological Scoring of Synovial Tissue. All slides were scored by same physician blinded to the origin of the samples. The amount of synovial tissue in each biopsy was estimated by structure, lining and leukocyte content. The number of CD45- and CD68-positive cells were scored on modified scale from 0-4. SEM is reported for Histology and RNA-seq library stats.
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Patient Information
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| Age (years) | 57.5 | ± | 11.4 | |
| Gender (female) | 29 | (71 %) | ||
| Gender (Male) | 12 | (29%) | ||
| Disease duration, years n=40 | 9.3 | ± | 8.4 | |
| Early disease (<2 years), n= 40 | 9 | (23%) | ||
| Positive Rheumatoid Factor (RF) n=40 | 23 | (58%) | ||
| Positive Anti-CCP n=36 | 19 | (53%) | ||
| ESR (mm/hour) n=14 | 33.5 | ± | 21.7 | |
| DAS28 n=17 | 4.7 | ± | 1.3 | |
| CDAI n=20 | 21.5 | ± | 10.6 | |
| RAPID3 n=25 | 11.4 | ± | 7.4 | |
| PGA n=24 | 4.7 | ± | 3.1 | |
| HAQ n=18 | 0.7 | ± | 0.5 | |
| TJC n=31 | 5.8 | ± | 6.0 | |
| SJC n=31 | 7.1 | ± | 4.9 | |
|
Treatment (n=31) | ||||
| no Treatment (naïve) | 3 | (10%) | ||
| Methotrexate, current | 15 | (48%) | ||
| Methotrexate, past | 9 | (29%) | ||
| TNF-inhibitor, current | 12 | (38%) | ||
| TNF-inhibitor, past | 17 | (55%) | ||
| IL-6 inhibitor, current | 2 | (6%) | ||
| IL-6 inhibitor, past | 2 | (6%) | ||
| JAK-inhibitor, current | 3 | (10%) | ||
| JAK-inhibitor, past | 5 | (16%) | ||
| Other treatment, current | 11 | (35%) | ||
| Other treatment, past | 12 | (39%) | ||
| Prednisone, <5 mg, current | 1 | (3%) | ||
| Prednisone, 5-10 mg, current | 6 | (19%) | ||
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Histology-RA Synovial Biopsy (n=30) | ||||
| % Synovial Tissue | 36.0 | ± | 5.6 | |
| CD45 score (0-4) | 1.7 | ± | 0.2 | |
| CD68 score (0-4) | 1 | ± | 0.1 | |
|
RNA-seq Stats | ||||
| Whole Tissue Samples (RA=9, OA=9)
| ||||
| RIN# | RA | 6.7 | ± | 0.5 |
| OA | 8.0 | ± | 0.2 | |
| # aligned reads (Million) | RA | 9.2 | ± | 0.7 |
| OA | 12.9 | ± | 1.1 | |
| % of total reads aligned | RA | 81 9 | ± | 1.2 |
| OA | 85.3 | ± | 1.2 | |
| % Complexity | RA | 54.8 | ± | 1.7 |
| OA | 56.2 | ± | 1.9 | |
|
Sorted Macrophage Samples (RA=15, OA=9) | ||||
| Cells sorted | RA | 1642 | ± | 1178 |
| OA | 77414 | ± | 26413 | |
| # aligned reads (Million) | RA | 21.0 | ± | 4.2 |
| OA | 21.1 | ± | 6.8 | |
| % of total reads aligned | RA | 53 9 | ± | 6.0 |
| OA | 65.2 | ± | 1.5 | |
| % Complexity | RA | 37.2 | ± | 2.7 |
| OA | 38.1 | ± | 2.2 | |