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Table 1 Differential gene expression between bone marrow-derived hematopoietic stem/progenitor cells and bone marrow-derived mesenchymal stromal cells

From: Comparative analysis of gene transcripts for cell signaling receptors in bone marrow-derived hematopoietic stem/progenitor cell and mesenchymal stromal cell populations

Gene identification Assay on demanda ∆Ct HSPCb ∆Ct BMMSCb Fold-change HSPC/BMMSCc P value
RTK gene transcripts      
Aatk-apoptosis-associated tyrosine kinase Mm00545697_m1 16.8 ± 0.57 17.91 ± 0.30 2.5 0.009
Axl-AXL receptor tyrosine kinase Mm00437221_m1 21.03 ± 0.41 11.49 ± 0.32 -818.7 0.0001
Mertk-c-mer proto-oncogene tyrosine kinase Mm00434920_m1 23.04 ± 0.76 18.68 ± 0.41 -21.7 0.0001
Tyro3-TYRO3 protein tyrosine kinase 3 Mm00444547_m1 21.49 ± 0.62 15.83 ± 0.38 -52 0.0001
Ddr1-discoidin domain receptor family, member 1 Mm00432251_m1 ND 21.20 ± 0.49   
Ddr2-discoidin domain receptor family, member 2 Mm00445615_m1 ND 11.46 ± 1.94   
Egfr-epidermal growth factor receptor Mm00433023_m1 23.44 ± 0.64 16.89 ± 0.48 -88.8 0.0001
Epha1-Eph receptor A1 Mm00445804_m1 23.88 ± 0.83 20.73 ± 0.42 -9.2 0.0001
Epha2-Eph receptor A2 Mm00438726_m1 19.20 ± 0.96 17.34 ± 0.46 -3.8 0.0001
Epha3-Eph receptor A3 Mm00580743_m1 ND 22.18 ± 0.33   
Epha4-Eph receptor A4 Mm00433056_m1 22.17 ± 0.49 20.76 ± 0.41 -2.8 0.0001
Epha6-Eph receptor A6 Mm00433094_m1 ND ND   
Epha7-Eph receptor A7 Mm00833876_m1 22.06 ± 1.10 17.57 ± 0.29 -22.9 0.0001
Epha8-Eph receptor A8 Mm00433106_m1 ND ND   
Ephb3-Eph receptor B3 Mm00802553_m1 ND 16.69 ± 0.79   
Ephb4-Eph receptor B4 Mm00438750_m1 22.21 ± 0.46 15.50 ± 0.33 -107.3 0.0001
Fgfr1-fibroblast growth factor receptor 1 Mm00438923_m1 20.91 ± 1.27 15.95 ± 0.20 -36.5 0.0001
Fgfr2-fibroblast growth factor receptor 2 Mm00438941_m1 ND 20.55 ± 0.40   
Fgfr3-fibroblast growth factor receptor 3 Mm00433294_m1 ND 20.32 ± 0.48   
Insr-insulin receptor Mm00439693_m1 15.97 ± 0.43 15.82 ± 0.29 -1.1 0.3273
Met-met proto-oncogene Mm00434924_m1 18.25 ± 0.38 14.36 ± 0.49 -15.9 0.0001
Mst1r-macrophage stimulating 1 receptor (c-met-related tyrosine kinase) Mm00436365_m1 ND 24.49 ± 1.08   
Musk-muscle, skeletal, receptor tyrosine kinase Mm00448006_m1 ND ND   
Csf1r-colony stimulating factor 1 receptor Mm00432689_m1 14.89 ± 0.43 22.45 ± 0.43 197.3 0.0001
Flt3-FMS-like tyrosine kinase 3 Mm00438996_m1 17.68 ± 0.87 ND   
Kit-kit oncogene Mm00445212_m1 15.21 ± 0.63 ND   
Pdgfra-platelet derived growth factor receptor, alpha polypeptide Mm00440701_m1 ND 16.71 ± 0.66   
Pdgfrb-platelet derived growth factor receptor, beta polypeptide Mm00435546_m1 19.98 ± 0.60 13.83 ± 0.24 -72.4 0.0001
Ret-ret proto-oncogene Mm00436304_m1 22.27 ± 0.64 20.56 ± 0.41 -3.4 0.0001
Ror1-receptor tyrosine kinase-like orphan receptor 1 Mm00443462_m1 ND 18.75 ± 0.37   
Ror2-receptor tyrosine kinase-like orphan receptor 2 Mm00443470_m1 ND 19.22 ± 0.30   
Ros1-Ros1 proto-oncogene Mm00803362_m1 ND ND   
Tek-endothelial-specific receptor tyrosine kinase Mm00443242_m1 18.52 ± 1.21 ND   
Tie1-tyrosine kinase receptor 1 Mm00441786_m1 20.39 ± 0.84 ND   
Ntrk2-neurotrophic tyrosine kinase, receptor, type 2 Mm00435422_m1 ND ND   
Flt1-FMS-like tyrosine kinase 1 Mm00438980_m1 21.13 ± 0.41 20.52 ± 0.49 -1.6 0.0032
Kdr-kinase insert domain protein receptor Mm00440099_m1 23.48 ± 0.60 23.31 ± 0.70 -1.3 0.5296
Non-RTK transcripts      
Abl1-v-abl Abelson murine leukemia oncogene 1 Mm00802038_g1 16.54 ± 0.54 14.93 ± 0.14 -3 0.0001
Tnk1-tyrosine kinase, non-receptor, 1 Mm00840782_g1 ND ND   
Tnk2-tyrosine kinase, non-receptor, 2 Mm00450301_m1 17.25 ± 0.34 15.88 ± 0.25 -2.6 0.0001
Matk-megakaryocyte-associated tyrosine kinase Mm00440268_m1 17.49 ± 0.83 22.68 ± 0.58 41.9 0.0001
Ptk2-PTK2 protein tyrosine kinase 2 Mm00433209_m1 20.21 ± 0.90 14.67 ± 0.28 -47.1 0.0001
Fert2-fer (fms/fps related) protein kinase, testis specific 2 Mm00484303_m1 17.74 ± 0.48 15.11 ± 0.22 -6.3 0.0001
Fes-feline sarcoma oncogene Mm00802572_g1 13.51 ± 0.47 17.67 ± 0.45 18.8 0.0001
Frk-fyn-related kinase Mm00456656_m1 ND 18.56 ± 0.54   
Srmssrc-related kinase lacking C-terminal regulatory tyrosine Mm00441546_m1 ND ND   
Jak1-Janus kinase 1 Mm00600614_m1 13.23 ± 0.54 12.47 ± 0.43 -1.8 0.0009
Jak2-Janus kinase 2 Mm00434561_m1 14.69 ± 0.63 15.81 ± 0.25 2.4 0.0001
Jak3-Janus kinase 3 Mm00439962_m1 16.78 ± 0.62 17.93 ± 0.20 2.4 0.0001
Fgr-Gardner-Rasheed feline sarcoma viral (Fgr) oncogene homolog Mm00438949_m1 14.67 ± 1.61 ND   
Fyn-Fyn proto-oncogene Mm00433373_m1 17.01 ± 0.54 14.57 ± 0.40 -5.6 0.0001
Hck-hemopoietic cell kinase Mm00439302_m1 14.2 ± 0.76 22.11 ± 0.54 275.1 0.0001
Lck-lymphocyte protein tyrosine kinase Mm00802897_m1 19.42 ± 0.49 23.04 ± 0.43 13 0.0001
Lyn-Yamaguchi sarcoma viral (v-yes-1) oncogene homolog Mm00802933_m1 13.28 ± 0.87 19.56 ± 0.51 93.1 0.0001
Bmx-BMX non-receptor tyrosine kinase Mm00515368_m1 14.73 ± 1.07 ND   
Btk-Bruton agammaglobulinemia tyrosine kinase Mm00442712_m1 15.05 ± 1.20 24.92 ± 0.76 972.4 0.0001
Tec-cytoplasmic tyrosine kinase, Dscr28C related (Drosophila) Mm00443230_m1 16.2 ± 0.34 18.24 ± 0.33 4.2 0.0001
Txk-TXK tyrosine kinase Mm00443280_m1 20.98 ± 0.50 ND   
Syk-spleen tyrosine kinase Mm00441649_m1 12.74 ± 0.57 17.10 ± 0.21 22.1 0.0001
Zap70-zeta-chain (TCR) associated protein kinase Mm00494255_m1 19.49 ± 1.30 ND   
G-protein coupled receptor transcripts      
Agtrl1-angiotensin receptor-like 1 Mm00442191_s1 19.96 ± 0.56 20.22 ± 0.88 1.3 0.3972
Ednrb-endothelin receptor type B Mm00432989_m1 22.96 ± 1.06 22.70 ± 0.67 -1 0.4802
Ccr1-chemokine (C-C motif) receptor 1 Mm00438260_s1 13.33 ± 0.63 19.78 ± 1.13 95.6 0.0001
Ccr3-chemokine (C-C motif) receptor 3 Mm00515543_s1 19.93 ± 0.36 20.03 ± 1.10 1.1 0.7675
Ccr4-chemokine (C-C motif) receptor 4 Mm00438271_m1 23.9 ± 1.24 ND   
Ccr7-chemokine (C-C motif) receptor 7 Mm00432608_m1 18.32 ± 1.50 ND   
Ccr8-chemokine (C-C motif) receptor 8 Mm00843415_s1 21.55 ± 0.44 19.71 ± 0.83 -4.1 0.0001
Cxcr3-chemokine (C-X-C motif) receptor 3 Mm00438259_m1 20.74 ± 0.36 ND   
Blr1 (Cxcr5)-Burkitt lymphoma receptor 1 Mm00432086_m1 20.88 ± 1.00 ND   
Cmkor1 (Cxcr7)-chemokine orphan receptor 1 Mm00432610_m1 23.68 ± 1.01 15.52 ± 0.35 -293.2 0.0001
Cytokine receptor transcripts      
Acvr1-activin A receptor, type 1 Mm00431645_m1 17.98 ± 0.83 13.57 ± 0.45 -22.2 0.0001
Acvrl1-activin A receptor, type II-like 1 Mm00437432_m1 20.73 ± 0.60 19.32 ± 0.67 -2.9 0.0001
Bmpr1a-bone morphogenetic protein receptor, type 1A Mm00477650_m1 17.28 ± 0.95 14.75 ± 0.22 -5.9 0.0001
Il3ra-interleukin 3 receptor, alpha chain Mm00434273_m1 18.52 ± 0.53 18.40 ± 0.44 -1.1 0.5524
Il6ra-interleukin 6 receptor, alpha Mm00439653_m1 14.54 ± 0.38 16.40 ± 0.51 3.8 0.0001
Il7r-interleukin 7 receptor Mm00434295_m1 17.11 ± 0.24 24.38 ± 0.75 155.9 0.0001
Csf2ra-colony stimulating factor 2 receptor, alpha Mm00438331_g1 14.46 ± 0.40 19.04 ± 0.22 24.9 0.0001
Csf2rb2-colony stimulating factor 2 receptor, beta 2 Mm00655763_m1 17.33 ± 0.38 ND   
Csf3r-colony stimulating factor 3 receptor Mm00432735_m1 11.85 ± 1.43 ND   
Epor-erythropoietin receptor Mm00833882_m1 19.42 ± 1.07 22.59 ± 0.85 11.6 0.0001
Lifr-leukemia inhibitory factor receptor Mm00442940_m1 17.89 ± 0.64 16.76 ± 0.36 -2.3 0.0001
Mpl-myeloproliferative leukemia virus oncogene Mm00440310_m1 14.86 ± 1.69 ND   
Ngfr-nerve growth factor receptor (TNFR superfamily, member 16) Mm00446294_m1 ND 11.96 ± 0.30   
Osmr-oncostatin M receptor Mm00495424_m1 ND 15.97 ± 0.24   
Tnfrsf1a-tumor necrosis factor receptor superfamily, member 1a Mm00441875_m1 13.49 ± 0.36 13.91 ± 0.24 1.4 0.0023
Other signaling molecule transcripts      
Abcb1b-ATP-binding cassette, sub-family B (MDR/TAP), member1B Mm00440736_m1 18.64 ± 0.64 17.73 ± 0.38 -1.9 0.0003
Mrc1-mannose receptor, C type 1 Mm00485148_m1 20.76 ± 0.47 22.00 ± 0.62 2.5 0.0001
Gata4-GATA binding protein 4 Mm00484689_m1 ND 20.10 ± 0.31   
Hoxb4-homeo box B4 Mm00657964_m1 17.88 ± 0.50 17.28 ± 0.59 -1.7 0.0134
Ptprc-protein tyrosine phosphatase, receptor type, C Mm00448463_m1 ND ND   
Gas6-growth arrest specific 6 Mm00490378_m1 23.45 ± 1.02 14.90 ± 0.26 -381.1 0.0001
Lgals9-lectin, galactose binding, soluble 9 Mm00495295_m1 13.67 ± 0.82 17.69 ± 0.25 18.9 0.0001
Sca1-spinocerebellar ataxia 1 homolog (human) Mm00485928_m1 17.08 ± 0.23 15.71 ± 0.29 -2.6 0.0001
Spp1-secreted phosphoprotein 1 Mm00436767_m1 17.91 ± 0.33 9.23 ± 0.44 -424.9 0.0001
  1. Gene differential expression was considered significant with P <0.05. Mean ± standard deviation of six independent HSPC and BMMSC preparations are shown. BMMSC, bone marrow-derived mesenchymal stromal cell; Ct, cycle threshold; HPSC, hematopoietic stem/progenitor cell; ND, not detectable; RTK, receptor tyrosine kinase. aQuantitative PCR was performed on an ABI PRISM 7900HT Sequence Detection System using a custom-made TaqMan® Low Density Array. mRNA transcripts were evaluated with TaqMan® Probes commercially available as Assay on Demand (Applied Biosystems, Foster City, CA, USA) with optimized primer and probe concentrations.
  2. bMean ± standard deviation mRNA level of each gene in each cell population (six individual cell samples run in duplicate) were first normalized to the expression of 18S RNA in that sample.
  3. cMean fold-changes in gene transcript expression levels between HSPCs and BMMSCs were evaluated with 2–ΔΔCt.