| 1581497 | Esta1 | Estrogen-induced thymic atrophy QTL 1 | | | Gland mass | thymus | 10 | 4831560 | 67678060 | Rat |
| 2298544 | Neuinf9 | Neuroinflammation QTL 9 | 4.6 | | Neuroinflammation | | 10 | 5761138 | 65668639 | Rat |
| 61427 | Cia16 | Collagen induced arthritis QTL 16 | 3.2 | | Joint/bone inflammation | type II collagen induced | 10 | 6380753 | 100633982 | Rat |
| 2303118 | Mamtr7 | Mammary tumor resistance QTL 7 | | .003 | Mammary tumor resistance | | 10 | 9762188 | 108776963 | Rat |
| 2301967 | Cm73 | Cardiac mass QTL 73 | 4.55 | | Cardiac mass | left ventricle | 10 | 14721135 | 92841289 | Rat |
| 2316949 | Gluco60 | Glucose level QTL 60 | 3.7 | | Glucose level | postprandial | 10 | 14721135 | 154166503 | Rat |
| 631268 | Cia21 | Collagen induced arthritis QTL 21 | 3.1 | | Joint/bone inflammation | arthritis severity | 10 | 14721135 | 159833317 | Rat |
| 1554317 | Bmd4 | Bone mineral density QTL 4 | 9.4 | .0001 | Bone mineral density | spine volumetric BMD by pQCT | 10 | 20233281 | 104013574 | Rat |
| 70223 | Bp57 | Blood pressure QTL 57 | 5 | | Blood pressure | indirect systolic | 10 | 21607719 | 84443989 | Rat |
| 70188 | BpQTLcluster1 | Blood pressure QTL cluster 1 | 4.82 | | Blood pressure | | 1 | 21607719 | 91471072 | Rat |
| 70198 | BpQTLcluster9 | Blood pressure QTL cluster 9 | 2.94 | | Blood pressure | | 10 | 21607719 | 91471072 | Rat |
| 724556 | Pur2 | Proteinuria QTL 2 | 5.5 | | Renal function | | 10 | 22915259 | 95066632 | Rat |
| 1581559 | Eae18 | Experimental allergic encephalomyelitis QTL 18 | | .00002 | Brain/spinal cord inflammation | demyelination | 10 | 23843272 | 68843272 | Rat |
| 61354 | Pia10 | Pristane induced arthritis QTL 10 | | .01 | Joint/bone inflammation | pristane induced | 10 | 24006429 | 160657542 | Rat |
| 631267 | Cia20 | Collagen induced arthritis QTL 20 | 3.2 | | Joint/bone inflammation | arthritis severity | 10 | 24006429 | 160657542 | Rat |
| 61325 | Aia5 | Adjuvant induced arthritis QTL 5 | | .01 | Joint/bone inflammation | arthritis severity | 10 | 24006429 | 160657542 | Rat |
| 70224 | Eae3 | Experimental allergic encephalomyelitis QTL 3 | 4.1 | | Brain/spinal cord inflammation | severity of disease | 10 | 27184741 | 67678060 | Rat |
| 1298069 | Bp168 | Blood pressure QTL 168 | 5.5 | | Blood pressure | salt-loaded systolic | 10 | 27184741 | 102587587 | Rat |
| 631542 | Bp82 | Blood pressure QTL 82 | 6.8 | | Blood pressure | systolic | 10 | 27184741 | 103551039 | Rat |
| 2300171 | Bmd58 | Bone mineral density QTL 58 | 4.9 | .0001 | Bone mineral density | | 10 | 28599269 | 73599269 | Rat |
| 1331762 | Rf40 | Renal function QTL 40 | 3.873 | | Renal function | renal vascular resistance | 10 | 29974190 | 65379965 | Rat |
| 1331791 | Cm31 | Cardiac mass QTL 31 | 3.84606 | | Cardiac mass | | 10 | 29974190 | 95369088 | Rat |
| 2292439 | Bp309 | Blood pressure QTL 309 | | | Blood pressure | arterial | 10 | 30428239 | 75428239 | Rat |
| 1579918 | Bp279 | Blood pressure QTL 279 | | .01 | Blood pressure | mean arterial pressure | 10 | 31098661 | 76098661 | Rat |
| 2292441 | Bp308 | Blood pressure QTL 308 | | | Blood pressure | arterial | 10 | 31098661 | 76098661 | Rat |
| 1578779 | Tcas10 | Tongue tumor susceptibility QTL 10 | 3.12 | | Tongue tumor susceptibility | tongue tumor number | 10 | 33351756 | 78351756 | Rat |
| 631557 | Bp136 | Blood pressure QTL 136 | | .003 | Blood pressure | | 10 | 34229233 | 79229233 | Rat |
| 1576311 | Pia26 | Pristane induced arthritis QTL 26 | | | Joint/bone inflammation | pristane induced | 10 | 35131252 | 76591208 | Rat |
| 1576319 | Cia29 | Collagen induced arthritis QTL 29 | | | Joint/bone inflammation | type II collagen-induced | 10 | 35131252 | 95695218 | Rat |
| 61332 | Eau3 | Experimental allergic uveoretinitis QTL 3 | | .004 | Uvea inflammation score | | 10 | 35713452 | 101848683 | Rat |
| 6893342 | Cm78 | Cardiac mass QTL 78 | .1 | .88 | Cardiac mass | body weight adjusted | 10 | 36254741 | 83528010 | Rat |
| 631552 | Vetf2 | Vascular elastic tissue fragility QTL 2 | 4.5 | .0002 | Vascular lesion number | aorta | 10 | 36254741 | 95369088 | Rat |
| 1358897 | Stresp6 | Stress response QTL 6 | 4.17 | .022 | Hormone level | norepinephrine | 10 | 36649906 | 65379965 | Rat |
| 2317042 | Aia20 | Adjuvant induced arthritis QTL 20 | 3.38 | | Joint/bone inflammation | adjuvant induced | 10 | 41317054 | 86317054 | Rat |
| 2317043 | Aia7 | Adjuvant induced arthritis QTL 7 | 3.82 | | Joint/bone inflammation | adjuvant induced | 10 | 41317054 | 86317054 | Rat |
| 631270 | Cia23 | Collagen induced arthritis QTL 23 | 3.9 | | Joint/bone inflammation | arthritis severity | 10 | 41339689 | 152260081 | Rat |
| 631269 | Cia22 | Collagen induced arthritis QTL 22 | 8.9 | | Joint/bone inflammation | arthritis severity | 10 | 41339689 | 152260081 | Rat |
| 724527 | Bp148 | Blood pressure QTL 148 | | .0001 | Blood pressure | | 10 | 42272656 | 87272656 | Rat |
| 61463 | Bp12 | Blood pressure QTL 12 | 6.3 | .0001 | Blood pressure | salt-loaded systolic | 10 | 42554668 | 87554668 | Rat |
| 1298078 | Stresp5 | Stress response QTL 5 | 2.99 | .00025 | Hormone level | corticosterone | 10 | 43458380 | 108776963 | Rat |
| 2300218 | Hpcl2 | Hepatic cholesterol level QTL 2 | | | Lipid level | cholesterol | 10 | 46483646 | 100090301 | Rat |
| 2306787 | Ean3 | Experimental allergic neuritis QTL 3 | 3.1 | | Peripheral nerve inflammation | demyelination | 10 | 50014368 | 70229954 | Rat |
| 2293652 | Bmd22 | Bone mineral density QTL 22 | 4.9 | .0001 | Bone mineral density | | 10 | 51099067 | 85484602 | Rat |
| 2293669 | Bmd33 | Bone mineral density QTL 33 | 4.5 | .0001 | Bone mineral density | | 10 | 51099067 | 85484602 | Rat |
| 2293679 | Bmd30 | Bone mineral density QTL 30 | 3.5 | .0001 | Bone mineral density | | 10 | 51099067 | 85484602 | Rat |
| 2293705 | Bmd25 | Bone mineral density QTL 25 | 7.1 | .0001 | Bone mineral density | | 10 | 51099067 | 85484602 | Rat |
| 7207811 | Bmd90 | Bone mineral density QTL 90 | 5.2 | | Bone mineral density | Femur neck cross-sectional total area | 10 | 51099067 | 85484602 | Rat |
| 631530 | Tls3 | T-lymphoma susceptibility QTL 3 | 6.7 | .0001 | T-lymphoma susceptibility | propylnitrosourea induced | 10 | 53781298 | 100090301 | Rat |
| 631535 | Cm51 | Cardiac mass QTL 51 | 3 | | Cardiac mass | | 10 | 53792967 | 96584953 | Rat |
| 61387 | Bp1 | Blood pressure QTL 1 | 5.1 | | Blood pressure | | 10 | 53800677 | 101848470 | Rat |
| 1549846 | Scl47 | Serum cholesterol level QTL 47 | 3.6 | | Lipid level | baseline serum cholesterol | 10 | 54091148 | 99091148 | Rat |
| 70364 | Bp72 | Blood pressure QTL 72 | | | Blood pressure | | 10 | 55633982 | 100633982 | Rat |
| 70171 | Cari1 | Carrageenan-induced inflammation QTL 1 | 4.9 | .0005 | Carrageenan-induced inflammation | exudate volume | 10 | 55851811 | 101848470 | Rat |
| 70164 | Bw21 | Body weight QTL 21 | 4.36 | .00005 | Body weight | | 10 | 55851811 | 103550924 | Rat |
| 631567 | Bp91 | Blood pressure QTL 91 | | .0001 | Blood pressure | systolic | 10 | 56848683 | 101848683 | Rat |
| 1354608 | Cm33 | Cardiac mass QTL 33 | 2.8 | | Cardiac mass | left ventricle | 10 | 56930545 | 97589703 | Rat |
| 1549831 | Bss6 | Bone structure and strength QTL 6 | 4 | | Bone strength | Lumbar vertebra L5 ultimate force | 10 | 61314296 | 106314296 | Rat |
| 2293698 | Bss43 | Bone structure and strength QTL 43 | 5.33 | .0001 | Bone structure | | 10 | 62984501 | 107984501 | Rat |
| 1576308 | Schws1 | Schwannoma susceptibility QTL 1 | | .0041 | Neural tumor susceptibility | tumor incidence, length of survival time | 10 | 63816942 | 108816942 | Rat |
| 61449 | Ciaa2 | CIA Autoantibody QTL 2 | 7.1 | | Anti-type II collagen autoantibody titer | collagen induced | 10 | 64308668 | 95695218 | Rat |