Table 1: Primer sequences and roles for genes measured in three-dimensional perfusion studies.

Gene nameFunctionPrimer sequence

OsteocalcinOsteoblast differentiationF: 5′-GAGTCTGACAAAGCCTTCATGTCC-3′;
R: 5′-TGATAGCTCGTCACAAGCAGGGTTA-3′

OsteopontinOsteoblast differentiationF: 5′-CAGCTGGATGAACCAAGTCTGGAA-3′;
R: 5′-ACTAGCTTGTCCTTGTGGCTGTGA-3′

Alkaline phosphataseOsteoblast differentiationF: 5′-GCCCTCTCCAAGACATATA-3′;
R: 5′-CCATGATCACGTCGATATCC-3′

RUNX-2Osteoblast differentiationF: 5′-AGAGTCAGATTACAGATCCCAGGC-3′;
R: 5′-GTCAGAGGTGGCAGTGTCATCAT-3′

Collagen type 1Matrix proteinF: 5′-TGGTTTGGAGAGAGCATGACCGAT-3′;
R: 5′-TGTAGGCTACGCTGTTCTTGCAGT-3′

Vascular endothelial growth factor AAngiogenesisF: 5′-ACAGAAGGAGAGCAGAAGTCCCAT-3′;
R: 5′-ATGTGCTGGCTTTGGTGAGGTTTG-3′

Basic fibroblast growth factor 2AngiogenesisF: 5′-AGCGGCTCTACTGCAAGAAC-3′;
R 5′-TGGCACACACTCCCTTGATA-3′

Macrophage colony stimulating factorAngiogenesisF: 5′-ATGGACACCTGAAGGTCCTG-3′;
R: 5′-GCTGGAGAGGAGTCTCATGG-3′

COX-2Inflammatory/osteogenicF: 5′-TCAATACTGGAAGCCGAGCACCTT-3′;
R: 5′-GCACTTGCATTGATGGTGGCTGTT-3′

HIF-1αHypoxiaF: 5′-AAACTTCTGGATGCCGGTGGTCTA-3′;
R: 5′-TCTCACTGGGCCATTTCTGTGTGT-3′

GBE-1HypoxiaF: 5′-GCAGGTATAAGAAGTTTAGCCAGG-3′;
R: 5′-GAGAAAATGGATTCCAACCACTGAA-3′

MIFHypoxiaF: 5′-CGCACAGTACATCGCAGTG-3′;
R: 5′-CAGCGGTGCAGGTAAGTG-3′

CyclophilinHousekeepingF: 5′-TCATGTGCCAGGGTGGTGACTTTA-3′;
R: 5′-ATGCTTGCCATCCAGCCATTCAGT-3′

Beta-actinHousekeepingF: 5′-ATCACTATTGGCAACGAGCGGTTC-3′;
R: 5′-TCTCCTTCTGCATCCTGTCAGCAA-3′

UbiquitinHousekeepingF: 5′-CGTCGAGCCCAGTGTTACCACCAAGAAGG-3′;
R: 5′-CCCCCATCACACCCAAGAACAAGCACAAG-3′