Publications & Datasets

2016

Shamsuzzaman S, Onal M, St John HC, Jeffery JJ, Pike JW. Absence of the Vitamin D Receptor Inhibits Atherosclerotic Plaque Calcification in Female Hypercholesterolemic Mice. J Cell Biochem. 2016 August. doi:10.1002/jcb.25679 [PubMed]

Meyer MB, Benkusky NA, Sen B, Rubin J, Pike JW. Epigenetic Plasticity Drives Adipogenic and Osteogenic Differentiation of Marrow-Derived Mesenchymal Stem Cells. J Biol Chem. 2016 July 11  doi:10.1074/jbc.M116.736538 [PubMed] [JBC link] GEO Data Accession Link: GSE79815
To display the ChIP-seq overlaid data track HUBs in the UCSC genome browser, Go to UCSC Genome Browser (mm9), Search Public Hubs for GSE79815, Click “connect”, then on the next screen enter your genomic region of interest and hit “Go”

Pike JW, Meyer MB, Benkusky NA, Lee SM, St John H, Carlson A, Onal M, Shamsuzzaman S. Genomic Determinants of Vitamin D-Regulated Gene Expression. Vitam Horm. 2016;100:21-44. [PubMed]

Pike JW. Closing in on Vitamin D Action in Skeletal Muscle: Early Activity in Muscle Stem Cells? Endocrinology. 2016 Jan;157(1):48-51. [PubMed]

Onal M, St John HC, Danielson AL, Markert JW, Riley EM, Pike JW. Unique Distal Enhancers Linked to the Mouse Tnfsf11 Gene Direct Tissue-Specific and Inflammation-Induced Expression of RANKL. Endocrinology. 2016 Feb;157(2):482-96. [PubMed]

Onal M, St John HC, Danielson AL, Pike JW. Deletion of the Distal Tnfsf11 RL-D2 Enhancer That Contributes to PTH-Mediated RANKL Expression in Osteoblast Lineage Cells Results in a High Bone Mass Phenotype in Mice. J Bone Miner Res. 2016 Feb;31(2):416-29 [PubMed]

2015

Lee SM, Riley EM, Meyer MB, Benkusky NA, Plum LA, DeLuca HF, Pike JW. 1,25-Dihydroxyvitamin D₃ Controls a Cohort of Vitamin D Receptor Target Genes in the Proximal Intestine that is Enriched for Calcium Regulating Components. J Biol Chem 2015 Jun 3 doi: jbc.M115.665794. [PubMed] GEO Data Accession Link: GSE69180

Meyer MB, Benkusky NA, Pike JW.  Selective Distal Enhancer Control of the Mmp13 Gene Identified through CRISPR Genomic Deletions. J Biol Chem. 2015 Apr 24;290(17):11093-107. [PubMed] [JBC link] Primer table PDF or Excel

Pike JW, Meyer MB, St John HC, Benkusky NA. Epigenetic histone modifications and master regulators as determinants of context dependent nuclear receptor activity in bone cells. Bone. 2015 Mar 27. pii: S8756-3282(15)00090-3. [PubMed]

Meyer MB, Benkusky NA, Pike JW. Profiling histone modifications by chromatin immunoprecipitation coupled to deep sequencing in skeletal cells. Methods Mol Biol. 2015;1226:61-70. [PubMed]

2014

Onal M, Bishop KA, St John HC, Danielson AL, Riley EM, Piemontese M, Xiong J, Goellner JJ, O’Brien CA, Pike JW. A DNA Segment Spanning the Mouse Tnfsf11 Transcription Unit and Its Upstream Regulatory Domain Rescues the Pleiotropic Biologic Phenotype of the RANKL Null Mouse. J Bone Miner Res. 2014 Nov 27. doi: 10.1002/jbmr.2417. [PubMed]

St John HC, Meyer MB, Benkusky NA, Carlson AH, Prideaux M, Bonewald LF, Pike JW. The parathyroid hormone-regulated transcriptome in osteocytes: Parallel actions with 1,25-dihydroxyvitamin D₃ to oppose gene expression changes during differentiation and to promote mature cell function. Bone 2014 Nov 22;72C:81-91. [PubMed] GEO Data Accession Link: GSE62981

Meyer MB, Benkusky NA, Lee CH, Pike JW.  Genomic Determinants of Gene Regulation by 1,25-Dihydroxyvitamin D₃ During Osteoblast-Lineage Cell Differentiation.  J Biol Chem. 2014 Jul 11;289(28):19539-54. [PubMed] GEO Data Accession Link: GSE51515

St John HC, Bishop KA, Meyer MB, Benkusky NA, Leng N, Kendziorski C, Bonewald LF, Pike JW.  The Osteoblast to Osteocyte Transition: Epigenetic Changes and Response to the Vitamin D₃ Hormone.  Mol Endocrinol. 2014 Jul;28(7):1150-65.[PubMed] GEO Data Accession Link: GSE54784

Meyer MB, Benkusky NA, Pike JW. The RUNX2 Cistrome in Osteoblasts: Characterization, Downregulation Following Differentiation and Relationship to Gene Expression. J Biol Chem. 2014 Jun 6;289(23):16016-31. [PubMed] GEO Data Accession Link: GSE41955

Lee SM, Bishop KA, Goellner JJ, O’Brien CA, Pike JW. Mouse and Human BAC Transgenes Recapitulate Tissue-specific Expression of the Vitamin D Receptor in Mice and Rescue the VDR-null Phenotype. Endocrinology. 2014 Apr 2:en20141107. [PubMed]

Pike JW, Lee SM, Meyer MB. Regulation of gene expression by 1,25-dihydroxyvitamin D₃ in bone cells: exploiting new approaches and defining new mechanisms. Bonekey Rep. 2014 Jan 8;3:482. Review. [PubMed]

Wang L, Zhao Z, Meyer MB, Saha S, Yu M, Guo A, Wisinski KB, Huang W, Cai W, Pike JW, Yuan M, Ahlquist P, Xu W. CARM1 Methylates Chromatin Remodeling Factor BAF155 to Enhance Tumor Progression and Metastasis. Cancer Cell. 2014 Jan 13;25(1):21-36. [PubMed]

2013

Meyer MB, Benkusky NA, Pike JW. 1,25-Dihydroxyvitamin D₃ induced histone profiles guide discovery of VDR action sites. J Steroid Biochem Mol Biol. 2013 Sep 13. pii: S0960-0760(13)00165-9. [PubMed]

Pike JW, Meyer MB. Fundamentals of vitamin D hormone-regulated gene expression. J Steroid Biochem Mol Biol. 2013 Nov 12. pii: S0960-0760(13)00234-3. [PubMed]

2012

Styner M, Meyer MB, Galior K, Case N, Xie Z, Sen B, Thompson WR, Pike JW, Rubin J. Mechanical Strain Downregulates C/EBPβ in MSC and Decreases Endoplasmic Reticulum Stress. PLoS One. 2012;7(12):e51613. doi: 10.1371/journal.pone.0051613. [PubMed]

Eelen G, Verlinden L, Meyer MB, Gijsbers R, Pike JW, Bouillon R, Verstuyf A. 1,25-Dihydroxyvitamin D(3) and the aging-related Forkhead Box O and Sestrin proteins in osteoblasts. J Steroid Biochem Mol Biol. 2012 Sep 16. doi:pii: S0960-0760(12)00167-7. 10.1016/j.jsbmb.2012.09.011. [PubMed]

Meyer MB, Pike JW. Corepressors (NCoR and SMRT) as well as Coactivators are Recruited to Positively Regulated 1α,25-Dihydroxyvitamin D₃-Responsive Genes. J Steroid Biochem Mol Biol. 2012 Aug 25. doi:pii: S0960-0760(12)00149-5. 10.1016/j.jsbmb.2012.08.006. [PubMed] GEO Data Accession Link: GSE39277

Pike JW, Meyer MB. The vitamin D receptor: new paradigms for the regulation of gene expression by 1,25-dihydroxyvitamin D₃. Rheum Dis Clin North Am. 2012 Feb;38(1):13-27. [PubMed]

Lieben L, Masuyama R, Torrekens S, Van Looveren R, Schrooten J, Baatsen P, Lafage-Proust MH, Dresselaers T, Feng JQ, Bonewald LF, Meyer MB, Pike JW, Bouillon R, Carmeliet G. Normocalcemia is maintained in mice under conditions of calcium malabsorption by vitamin D-induced inhibition of bone mineralization. J Clin Invest. 2012 May 1;122(5):1803-15. [PubMed]

Wang X, Bishop KA, Hegde S, Rodenkirch LA, Pike JW, Gumperz JE. Human invariant natural killer T cells acquire transient innate responsiveness via histone H4 acetylation induced by weak TCR stimulation. J Exp Med. 2012 May 7;209(5):987-1000. [PubMed]

Pike JW, Meyer MB. Regulation of mouse Cyp24a1 expression via promoter-proximal and downstream-distal enhancers highlights new concepts of 1,25-dihydroxyvitamin D(3) action. Arch Biochem Biophys. 2012 Jul 1;523(1):2-8.[PubMed]

Meyer MB, Goetsch PD, Pike JW. VDR/RXR and TCF4/β-Catenin Cistromes in Colonic Cells of Colorectal Tumor Origin: Impact on c-FOS and c-MYC Gene Expression. Mol Endocrinol. 2012 Jan;26(1):37-51. [PubMed] GEO Data Accession Link: GSE31939

2011

Kriebitzsch C, Verlinden L, Eelen G, van Schoor NM, Swart K, Lips P, Meyer MB, Pike JW, Boonen S, Carlberg C, Vitvitsky V, Bouillon R, Banerjee R, Verstuyf A. 1,25-dihydroxyvitamin D(3) influences cellular homocysteine levels in murine pre-osteoblastic MC3T3-E1 cells by direct regulation of cystathionine β-synthase. J Bone Miner Res. 2011 Dec;26(12):2991-3000. [PubMed]

Pike JW, Meyer MB, Bishop KA. Regulation of target gene expression by the vitamin D receptor – an update on mechanisms.Rev Endocr Metab Disord. 2012 Mar;13(1):45-55.[PubMed]

Bishop KA, Coy HM, Nerenz RD, Meyer MB, Pike JW. Mouse Rankl expression is regulated in T cells by c-Fos through a cluster of distal regulatory enhancers designated the T cell control region. J Biol Chem. 2011 Jun 10;286(23):20880-91. [PubMed]

Martowicz ML, Meyer MB, Pike JW. The mouse Rankl gene locus is defined by a broad pattern of histone acetylation and regulated through distinct distal enhancers. J Cell Biochem. 2011 Aug;112(8):2030-45. [PubMed]

Pike JW. Genome-wide principles of gene regulation by the vitamin D receptor and its activating ligand. Mol Cell Endocrinol. 2011 Dec 5;347(1-2):3-10. Review. [PubMed]

Pike JW. Genome-scale techniques highlight the epigenome and redefine fundamental principles of gene regulation. J Bone Miner Res. 2011 Jun;26(6):1155-62. Review. [PubMed]

2010

Pike JW, Meyer MB. The vitamin D receptor: new paradigms for the regulation of gene expression by 1,25-dihydroxyvitamin D(3). Endocrinol Metab Clin North Am. 2010 Jun;39(2):255-69. Review. [PubMed]

Ajibade DV, Dhawan P, Fechner AJ, Meyer MB, Pike JW, Christakos S. Evidence for a Role of Prolactin in Calcium Homeostasis: Regulation of Intestinal Transient Receptor Potential Vanilloid Type 6, Intestinal Calcium Absorption, and the 25-Hydroxyvitamin D₃ 1{alpha} Hydroxylase Gene by Prolactin. Endocrinology. 2010 May 12. [PubMed]

Chun RF, Lauridsen AL, Suon L, Zella LA, Pike JW, Modlin RL, Martineau AR, Wilkinson RJ, Adams J, Hewison M. Vitamin D-Binding Protein Directs Monocyte Responses to 25-Hydroxy- and 1,25-Dihydroxyvitamin D. J Clin Endocrinol Metab. 2010 Apr 28. [PubMed]

Meyer MB, Goetsch PD, Pike JW. A downstream intergenic cluster of regulatory enhancers contributes to the induction of CYP24A1 expression by 1alpha,25-dihydroxyvitamin D₃. J Biol Chem. 2010 Mar 17. [PubMed]

Pike JW, Meyer MB, Martowicz ML, Bishop KA, Lee SM, Nerenz RD, Goetsch PD. Emerging regulatory paradigms for control of gene expression by 1,25-dihydroxyvitamin D₃. J Steroid Biochem Mol Biol. 2010 Mar 7. [PubMed]

Meyer MB, Goetsch PD, Pike JW. Genome-wide analysis of the VDR/RXR cistrome in osteoblast cells provides new mechanistic insight into the actions of the vitamin D hormone. J Steroid Biochem Mol Biol. 2010 Feb 18. [PubMed]

DuSell CD, Nelson ER, Wittmann BM, Fretz JA, Kazmin D, Thomas RS, Pike JW, McDonnell DP. Regulation of aryl hydrocarbon receptor function by selective estrogen receptor modulators. Mol Endocrinol. 2010 Jan;24(1):33-46. [PubMed]

Zella LA, Meyer MB, Nerenz RD, Lee SM, Martowicz ML, Pike JW. Multifunctional enhancers regulate mouse and human vitamin D receptor gene transcription. Mol Endocrinol. 2010 Jan;24(1):128-47. [PubMed]

2009

Bishop KA, Meyer MB, Pike JW. A novel distal enhancer mediates cytokine induction of mouse RANKL gene expression. Mol Endocrinol. 2009 Dec;23(12):2095-110. [PubMed]

Zella LA, Meyer MB, Nerenz RD, Pike JW.  The enhanced hypercalcemic response to 20-epi-1,25-dihydroxyvitamin D₃results from a selective and prolonged induction of intestinal calcium-regulating genes. Endocrinology. 2009 Aug;150(8):3448-56. [PubMed]

2008

Zella LA, Shevde NK, Hollis BW, Cooke NE, Pike JW. Vitamin D-binding protein influences total circulating levels of 1,25-dihydroxyvitamin D₃ but does not directly modulate the bioactive levels of the hormone in vivo. Endocrinology. 2008 Jul;149(7):3656-67. [PubMed]

Nerenz RD, Martowicz ML, Pike JW. An enhancer 20 kilobases upstream of the human receptor activator of nuclear factor-kappaB ligand gene mediates dominant activation by 1,25-dihydroxyvitamin D₃. Mol Endocrinol. 2008 May;22(5):1044-56. [PubMed]

Fretz JA, Shevde NK, Singh S, Darnay BG, Pike JW. Receptor activator of nuclear factor-kappaB ligand-induced nuclear factor of activated T cells (C1) autoregulates its own expression in osteoclasts and mediates the up-regulation of tartrate-resistant acid phosphatase. Mol Endocrinol. 2008 Mar;22(3):737-50. [PubMed]

Galli C, Zella LA, Fretz JA, Fu Q, Pike JW, Weinstein RS, Manolagas SC, O’Brien CA. Targeted deletion of a distant transcriptional enhancer of the receptor activator of nuclear factor-kappaB ligand gene reduces bone remodeling and increases bone mass. Endocrinology. 2008 Jan;149(1):146-53. [PubMed]

2007

Pike JW, Zella LA, Meyer MB, Fretz JA, Kim S. Molecular actions of 1,25-dihydroxyvitamin D₃ on genes involved in calcium homeostasis. J Bone Miner Res. 2007 Dec;22 Suppl 2:V16-9. Review. [PubMed]

Meyer MB, Zella LA, Nerenz RD, Pike JW. Characterizing early events associated with the activation of target genes by 1,25-dihydroxyvitamin D₃ in mouse kidney and intestine in vivo. J Biol Chem. 2007 Aug 3;282(31):22344-52. [PubMed]

Zella LA, Chang CY, McDonnell DP, Wesley Pike J. The vitamin D receptor interacts preferentially with DRIP205-like LxxLL motifs. Arch Biochem Biophys. 2007 Apr 15;460(2):206-12. [PubMed]

Fretz JA, Zella LA, Kim S, Shevde NK, Pike JW. 1,25-Dihydroxyvitamin D₃ induces expression of the Wnt signaling co-regulator LRP5 via regulatory elements located significantly downstream of the gene’s transcriptional start site. J Steroid Biochem Mol Biol. 2007 Mar;103(3-5):440-5. [PubMed]

Pike JW, Meyer MB, Watanuki M, Kim S, Zella LA, Fretz JA, Yamazaki M, Shevde NK. Perspectives on mechanisms of gene regulation by 1,25-dihydroxyvitamin D₃ and its receptor. J Steroid Biochem Mol Biol. 2007 Mar;103(3-5):389-95. [PubMed]

Zella LA, Kim S, Shevde NK, Pike JW. Enhancers located in the vitamin D receptor gene mediate transcriptional autoregulation by 1,25-dihydroxyvitamin D₃. J Steroid Biochem Mol Biol. 2007 Mar;103(3-5):435-9. [PubMed]

Kim S, Yamazaki M, Zella LA, Meyer MB, Fretz JA, Shevde NK, Pike JW. Multiple enhancer regions located at significant distances upstream of the transcriptional start site mediate RANKL gene expression in response to 1,25-dihydroxyvitamin D₃. J Steroid Biochem Mol Biol. 2007 Mar;103(3-5):430-4. [PubMed]

Kim S, Yamazaki M, Shevde NK, Pike JW. Transcriptional control of receptor activator of nuclear factor-kappaB ligand by the protein kinase A activator forskolin and the transmembrane glycoprotein 130-activating cytokine, oncostatin M, is exerted through multiple distal enhancers. Mol Endocrinol. 2007 Jan;21(1):197-214. [PubMed]

2006

Kim S, Yamazaki M, Zella LA, Shevde NK, Pike JW. Activation of receptor activator of NF-kappaB ligand gene expression by 1,25-dihydroxyvitamin D₃ is mediated through multiple long-range enhancers. Mol Cell Biol. 2006 Sep;26(17):6469-86. [PubMed]

Fretz JA, Zella LA, Kim S, Shevde NK, Pike JW. 1,25-Dihydroxyvitamin D₃ regulates the expression of low-density lipoprotein receptor-related protein 5 via deoxyribonucleic acid sequence elements located downstream of the start site of transcription. Mol Endocrinol. 2006 Sep;20(9):2215-30. [PubMed]

Meyer MB, Watanuki M, Kim S, Shevde NK, Pike JW. The human transient receptor potential vanilloid type 6 distal promoter contains multiple vitamin D receptor binding sites that mediate activation by 1,25-dihydroxyvitamin D₃ in intestinal cells. Mol Endocrinol. 2006 Jun;20(6):1447-61. [PubMed]

Zella LA, Kim S, Shevde NK, Pike JW. Enhancers located within two introns of the vitamin D receptor gene mediate transcriptional autoregulation by 1,25-dihydroxyvitamin D₃. Mol Endocrinol. 2006 Jun;20(6):1231-47. [PubMed]