Experts and Doctors on gene expression profiling in Ann Arbor, Michigan, United States


Locale: Ann Arbor, Michigan, United States
Topic: gene expression profiling

Top Publications

  1. Chaib H, Cockrell E, Rubin M, Macoska J. Profiling and verification of gene expression patterns in normal and malignant human prostate tissues by cDNA microarray analysis. Neoplasia. 2001;3:43-52 pubmed
  2. Gurda G, Crozier S, Ji B, Ernst S, Logsdon C, Rothermel B, et al. Regulator of calcineurin 1 controls growth plasticity of adult pancreas. Gastroenterology. 2010;139:609-19, 619.e1-6 pubmed publisher
    ..We profile adaptive pancreatic growth, identify Rcan1 as an important new feedback regulator, and firmly establish that CN-NFAT signaling is required for this response. ..
  3. Wu R, Hendrix Lucas N, Kuick R, Zhai Y, Schwartz D, Akyol A, et al. Mouse model of human ovarian endometrioid adenocarcinoma based on somatic defects in the Wnt/beta-catenin and PI3K/Pten signaling pathways. Cancer Cell. 2007;11:321-33 pubmed
    ..The biological behavior and gene expression patterns of the murine cancers resemble those of human OEAs with defects in the Wnt/beta-catenin and PI3K/Pten pathways. ..
  4. Zhang K, Wang S, Malhotra J, Hassler J, Back S, Wang G, et al. The unfolded protein response transducer IRE1? prevents ER stress-induced hepatic steatosis. EMBO J. 2011;30:1357-75 pubmed publisher
    ..The identification of IRE1? as a key regulator to prevent hepatic steatosis provides novel insights into ER stress mechanisms in fatty liver diseases associated with toxic liver injuries. ..
  5. Buchner D, Meisler M. TSRC1, a widely expressed gene containing seven thrombospondin type I repeats. Gene. 2003;307:23-30 pubmed
    ..Human TSRC1 is located on chromosome 1q21 within an 11.7 Mb segment of conserved synteny. TSRC1 and the closely linked gene ADAM15 appear to be derived by a chromosomal inversion that interrupted an ancestral ADAMTS gene. ..
  6. Shariat Madar Z, Mahdi F, Warnock M, Homeister J, Srikanth S, Krijanovski Y, et al. Bradykinin B2 receptor knockout mice are protected from thrombosis by increased nitric oxide and prostacyclin. Blood. 2006;108:192-9 pubmed
    ..These investigations indicate a pathway for thrombosis risk reduction via the plasma kallikrein/kinin and renin angiotensin systems. ..
  7. Thacker S, Berthier C, Mattinzoli D, Rastaldi M, Kretzler M, Kaplan M. The detrimental effects of IFN-? on vasculogenesis in lupus are mediated by repression of IL-1 pathways: potential role in atherogenesis and renal vascular rarefaction. J Immunol. 2010;185:4457-69 pubmed publisher
    ..Our study introduces a novel putative pathway by which type I IFNs may interfere with vascular repair in SLE through repression of IL-1-dependent pathways. This could promote atherosclerosis and loss of renal function in this disease. ..
  8. Havens A, Jung Y, Sun Y, Wang J, Shah R, Buhring H, et al. The role of sialomucin CD164 (MGC-24v or endolyn) in prostate cancer metastasis. BMC Cancer. 2006;6:195 pubmed
    ..Our findings suggest that CD164 may participate in the localization of prostate cancer cells to the marrow and is further evidence that tumor metastasis and hematopoietic stem cell trafficking may involve similar processes. ..
  9. Kleer C. Carcinoma of the breast with medullary-like features: diagnostic challenges and relationship with BRCA1 and EZH2 functions. Arch Pathol Lab Med. 2009;133:1822-5 pubmed publisher
    ..These concepts illustrate the important relationships among histopathologic features; genomic profile; single gene abnormalities, such as BRCA1 and EZH2; and growth regulation in this subset of breast carcinomas. ..

More Information

Publications232 found, 100 shown here

  1. Dalebroux Z, Yagi B, Sahr T, Buchrieser C, Swanson M. Distinct roles of ppGpp and DksA in Legionella pneumophila differentiation. Mol Microbiol. 2010;76:200-19 pubmed publisher
    ..Thus, DksA responds to the level of ppGpp and other stress signals to co-ordinate L. pneumophila differentiation. ..
  2. Reka A, Chen G, Jones R, Amunugama R, Kim S, Karnovsky A, et al. Epithelial-mesenchymal transition-associated secretory phenotype predicts survival in lung cancer patients. Carcinogenesis. 2014;35:1292-300 pubmed publisher
    ..These results demonstrate that integrative analysis of the critical biological process of EMT provides mechanism-based and clinically relevant biomarkers with significant prognostic value. ..
  3. Saiya Cork K, Collins R, Parkin B, Ouillette P, Kuizon E, Kujawski L, et al. A pathobiological role of the insulin receptor in chronic lymphocytic leukemia. Clin Cancer Res. 2011;17:2679-92 pubmed publisher
    ..Our aggregate biochemical and clinical outcome data suggest biologically meaningful elevated INSR expression in a substantial subset of all CLL cases, including many cases with del11q. ..
  4. Yu J, He S, Friedman J, Akimoto M, Ghosh D, Mears A, et al. Altered expression of genes of the Bmp/Smad and Wnt/calcium signaling pathways in the cone-only Nrl-/- mouse retina, revealed by gene profiling using custom cDNA microarrays. J Biol Chem. 2004;279:42211-20 pubmed
    ..We hypothesize that Bmp/Smad and Wnt/Ca(2+) pathways participate in cell-cell communication in the mature retina, and expression changes observed in the Nrl(-/-) retina reflect their biased utilization in rod versus cone homeostasis. ..
  5. Zhou W, Hildebrandt F. Molecular cloning and expression of phospholipase C epsilon 1 in zebrafish. Gene Expr Patterns. 2009;9:282-8 pubmed publisher
    ..Our results suggest that zebrafish may be used as a model organism to address the function of PLCepsilon during the development of these organs. ..
  6. Habtezion A, Toivola D, Asghar M, Kronmal G, Brooks J, Butcher E, et al. Absence of keratin 8 confers a paradoxical microflora-dependent resistance to apoptosis in the colon. Proc Natl Acad Sci U S A. 2011;108:1445-50 pubmed publisher
    ..Therefore, unlike the proapoptotic effect of K8 mutation or absence in hepatocytes, lack of K8 confers resistance to colonocyte apoptosis in a microflora-dependent manner. ..
  7. Su G, Burant C, Beecher C, Athey B, Meng F. Integrated metabolome and transcriptome analysis of the NCI60 dataset. BMC Bioinformatics. 2011;12 Suppl 1:S36 pubmed publisher
    ..We expect the availability of large scale metabolome data in the coming years will significantly promote the discovery of novel biomarkers, which will in turn improve the understanding of molecular mechanism underlying diseases. ..
  8. Zhao W, Berthier C, Lewis E, McCune W, Kretzler M, Kaplan M. The peroxisome-proliferator activated receptor-γ agonist pioglitazone modulates aberrant T cell responses in systemic lupus erythematosus. Clin Immunol. 2013;149:119-32 pubmed publisher
    ..We conclude that PPAR-γ agonists selectively modulate CD4+ T cell function in SLE supporting the concept that pioglitazone and related,-agents should be explored as potential therapies in this disease. ..
  9. Dai L, Li C, Shedden K, Lee C, Li C, Quoc H, et al. Quantitative proteomic profiling studies of pancreatic cancer stem cells. J Proteome Res. 2010;9:3394-402 pubmed publisher
    ..Ingenuity Pathway analysis of these differential expression signatures further suggests significant involvement of signaling pathways related to apoptosis, cell proliferation, inflammation, and metastasis. ..
  10. Manna S, Tanaka N, Krausz K, Haznadar M, Xue X, Matsubara T, et al. Biomarkers of coordinate metabolic reprogramming in colorectal tumors in mice and humans. Gastroenterology. 2014;146:1313-24 pubmed publisher
    ..These urine and tissue markers might be used in early detection of colorectal cancer. ..
  11. Ji B, Chen X, Misek D, Kuick R, Hanash S, Ernst S, et al. Pancreatic gene expression during the initiation of acute pancreatitis: identification of EGR-1 as a key regulator. Physiol Genomics. 2003;14:59-72 pubmed
    ..Thus this study identified EGR-1 and several other novel genes likely to be important in the development and severity of acute pancreatitis. ..
  12. Iwashita T, Kruger G, Pardal R, Kiel M, Morrison S. Hirschsprung disease is linked to defects in neural crest stem cell function. Science. 2003;301:972-6 pubmed
    ..Gene expression profiling, combined with reverse genetics and analyses of stem cell function, suggests that Hirschsprung disease is caused by defects in neural crest stem cell function. ..
  13. Abend J, Low J, Imperiale M. Global effects of BKV infection on gene expression in human primary kidney epithelial cells. Virology. 2010;397:73-9 pubmed publisher
    ..These results provide information about how BKV interacts with a cell type in which it both establishes persistence and undergoes lytic reactivation...
  14. Shedden K, Chen W, Kuick R, Ghosh D, Macdonald J, Cho K, et al. Comparison of seven methods for producing Affymetrix expression scores based on False Discovery Rates in disease profiling data. BMC Bioinformatics. 2005;6:26 pubmed
    ..Performance of array processing methods in disease profiling and other realistic biological studies should be given greater consideration when comparing Affymetrix processing methods. ..
  15. Kahlenberg J, Thacker S, Berthier C, Cohen C, Kretzler M, Kaplan M. Inflammasome activation of IL-18 results in endothelial progenitor cell dysfunction in systemic lupus erythematosus. J Immunol. 2011;187:6143-56 pubmed publisher
    ..Thus, the effects of IFN-? are complex and contribute to an elevated risk of cardiovascular disease by suppression of IL-1? pathways and by upregulation of the inflammasome machinery and potentiation of IL-18 activation. ..
  16. Gudjonsson J, Aphale A, Grachtchouk M, Ding J, Nair R, Wang T, et al. Lack of evidence for activation of the hedgehog pathway in psoriasis. J Invest Dermatol. 2009;129:635-40 pubmed publisher
    ..The absence of elevated Hh target gene expression in lesional psoriatic skin indicates that the Hh pathway is not activated in this disease, raising questions regarding the proposed use of Hh antagonists as antipsoriatic agents. ..
  17. Civelek M, Wu Y, Pan C, Raulerson C, Ko A, He A, et al. Genetic Regulation of Adipose Gene Expression and Cardio-Metabolic Traits. Am J Hum Genet. 2017;100:428-443 pubmed publisher
    ..These results provide candidate genes for further investigation of their potential roles in adipose biology and in regulating cardio-metabolic traits. ..
  18. Androsavich J, Chau B, Bhat B, Linsley P, Walter N. Disease-linked microRNA-21 exhibits drastically reduced mRNA binding and silencing activity in healthy mouse liver. RNA. 2012;18:1510-26 pubmed publisher
    ..Consequently, enhanced association with polysome-associated mRNA is likely to explain in part the gain of miR-21 function often found in diseased or stressed cells. ..
  19. Liu P, Lassén E, Nair V, Berthier C, Suguro M, Sihlbom C, et al. Transcriptomic and Proteomic Profiling Provides Insight into Mesangial Cell Function in IgA Nephropathy. J Am Soc Nephrol. 2017;28:2961-2972 pubmed publisher
    ..The genes, proteins, and corresponding pathways identified provide novel insights into the pathophysiologic mechanisms leading to IgAN. ..
  20. Yu J, Othman M, Farjo R, Zareparsi S, MacNee S, Yoshida S, et al. Evaluation and optimization of procedures for target labeling and hybridization of cDNA microarrays. Mol Vis. 2002;8:130-7 pubmed
    ..These procedures have been used for expression profiling with 3 microgram of starting RNA. Our studies should encourage further use of microarray technology for gene profiling during eye development and in retinal diseases. ..
  21. Sartor M, Leikauf G, Medvedovic M. LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data. Bioinformatics. 2009;25:211-7 pubmed publisher
    ..It is applicable in experiments involving two or more sample types, and accepts significance statistics of the investigator's choice as input. ..
  22. McLean K, Gong Y, Choi Y, Deng N, Yang K, Bai S, et al. Human ovarian carcinoma–associated mesenchymal stem cells regulate cancer stem cells and tumorigenesis via altered BMP production. J Clin Invest. 2011;121:3206-19 pubmed publisher
    ..Taken together, our data suggest that MSCs in the ovarian tumor microenvironment have an expression profile that promotes tumorigenesis and that BMP inhibition may be an effective therapeutic approach for ovarian cancer. ..
  23. Gong S, Gong T, Shum L. Identification of markers of the midface. J Dent Res. 2005;84:69-72 pubmed
    ..With the identification of these genes, and possibly others, functional analyses can be conducted to improve our understanding of the mechanisms and pathways by which the midface forms. ..
  24. Krolewski D, Medina A, Kerman I, Bernard R, Burke S, Thompson R, et al. Expression patterns of corticotropin-releasing factor, arginine vasopressin, histidine decarboxylase, melanin-concentrating hormone, and orexin genes in the human hypothalamus. J Comp Neurol. 2010;518:4591-611 pubmed publisher
    ..These results suggest that human hypothalamic neurons involved in the regulation of the HPA axis display distinct neurochemical patterns that may encompass multiple local nuclei. ..
  25. Girard S, Vossman E, Misek D, Podevin P, Hanash S, Brechot C, et al. Hepatitis C virus NS5A-regulated gene expression and signaling revealed via microarray and comparative promoter analyses. Hepatology. 2004;40:708-18 pubmed
    ..Supplementary material for this article can be found on the HEPATOLOGY website ( ..
  26. Mandal M, Heckenlively J, Burch T, Chen L, Vasireddy V, Koenekoop R, et al. Sequencing arrays for screening multiple genes associated with early-onset human retinal degenerations on a high-throughput platform. Invest Ophthalmol Vis Sci. 2005;46:3355-62 pubmed
    ..In addition, these arrays offer a unique opportunity to interrogate complex patterns of inheritance due to the involvement of more than one gene by screening multiple genes on a single platform. ..
  27. Hess J, Bittner C, Zeisig D, Bach C, Fuchs U, Borkhardt A, et al. c-Myb is an essential downstream target for homeobox-mediated transformation of hematopoietic cells. Blood. 2006;108:297-304 pubmed
    ..These results suggest that c-Myb is essential but not sufficient for Hoxa9/Meis1 mediated transformation. ..
  28. Davis G, Flannery E, Mobley H. Helicobacter pylori HP1512 is a nickel-responsive NikR-regulated outer membrane protein. Infect Immun. 2006;74:6811-20 pubmed publisher
    ..pylori 26695. Taken together, these data suggest that HP1512 encodes a NikR-nickel-regulated outer membrane protein...
  29. Privette L, Gonzalez M, Ding L, Kleer C, Petty E. Altered expression of the early mitotic checkpoint protein, CHFR, in breast cancers: implications for tumor suppression. Cancer Res. 2007;67:6064-74 pubmed
  30. Duda T, Remigio E. Variation and evolution of toxin gene expression patterns of six closely related venomous marine snails. Mol Ecol. 2008;17:3018-32 pubmed publisher
    ..These results suggest that the evolution of conotoxin expression patterns is incredibly dynamic and the differentiation of venoms of Conus is controlled in part by the evolution of unique conotoxin expression patterns. ..
  31. Burkitt K, Chun S, Dang D, Dang L. Targeting both HIF-1 and HIF-2 in human colon cancer cells improves tumor response to sunitinib treatment. Mol Cancer Ther. 2009;8:1148-56 pubmed publisher
    ..Second, disruption of HIF-1?, HIF-2?, or both HIF-1? and HIF-2? genes directly inhibited tumor cell proliferation. These preclinical findings have clinical implications and suggest novel clinical trials. ..
  32. Swindell W. Genes and gene expression modules associated with caloric restriction and aging in the laboratory mouse. BMC Genomics. 2009;10:585 pubmed publisher
    ..The association between CR and aging warrants further study, but most evidence indicates that CR does not induce a genome-wide "reversal" of age-associated gene expression patterns. ..
  33. Taveirne M, Theriot C, Livny J, DiRita V. The complete Campylobacter jejuni transcriptome during colonization of a natural host determined by RNAseq. PLoS ONE. 2013;8:e73586 pubmed publisher
    ..Our results provide new insights into how C. jejuni responds and adapts to the cecal environment and reveals new functions involved in colonization of its natural host. ..
  34. Mirel B, Görg C. Scientists' sense making when hypothesizing about disease mechanisms from expression data and their needs for visualization support. BMC Bioinformatics. 2014;15:117 pubmed publisher
  35. O Brien P, Hur J, Robell N, Hayes J, Sakowski S, Feldman E. Gender-specific differences in diabetic neuropathy in BTBR ob/ob mice. J Diabetes Complications. 2016;30:30-7 pubmed publisher
    ..Similar to males, female BTBR ob/ob mice display robust DPN, and pathways related to inflammation are dysregulated in peripheral nerve. ..
  36. McCoy S, Reed T, Berthier C, Tsou P, Liu J, Gudjonsson J, et al. Scleroderma keratinocytes promote fibroblast activation independent of transforming growth factor beta. Rheumatology (Oxford). 2017;56:1970-1981 pubmed publisher
    ..The mechanisms by which fibroblasts are induced to become pro-fibrotic remain unclear. Thus, we examined the ability of SSc keratinocytes to promote fibroblast activation and the source of this effect...
  37. McCullumsmith R, Meador Woodruff J. Striatal excitatory amino acid transporter transcript expression in schizophrenia, bipolar disorder, and major depressive disorder. Neuropsychopharmacology. 2002;26:368-75 pubmed
    ..These results suggest that changes in striatal transporter mRNA expression are restricted to neuronal EAATs and extend the body of evidence implicating abnormal glutamatergic neurotransmission in schizophrenia and mood disorders. ..
  38. Girard S, Shalhoub P, Lescure P, Sabile A, Misek D, Hanash S, et al. An altered cellular response to interferon and up-regulation of interleukin-8 induced by the hepatitis C viral protein NS5A uncovered by microarray analysis. Virology. 2002;295:272-83 pubmed
    ..Our findings provide a mechanism for NS5A-mediated interferon resistance. ..
  39. Ross S, Erickson R, Gerin I, DeRose P, Bajnok L, Longo K, et al. Microarray analyses during adipogenesis: understanding the effects of Wnt signaling on adipogenesis and the roles of liver X receptor alpha in adipocyte metabolism. Mol Cell Biol. 2002;22:5989-99 pubmed
    ..These findings demonstrate new metabolic roles for LXR alpha and increase our understanding of adipogenesis. ..
  40. Varambally S, Dhanasekaran S, Zhou M, Barrette T, Kumar Sinha C, Sanda M, et al. The polycomb group protein EZH2 is involved in progression of prostate cancer. Nature. 2002;419:624-9 pubmed
    ..Thus, dysregulated expression of EZH2 may be involved in the progression of prostate cancer, as well as being a marker that distinguishes indolent prostate cancer from those at risk of lethal progression. ..
  41. Ma J, Jin R, Jia X, Dobry C, Wang L, Reggiori F, et al. An interrelationship between autophagy and filamentous growth in budding yeast. Genetics. 2007;177:205-14 pubmed
    ..This physiological connection highlights the central role of autophagy in regulating the cell's nutritional state and the responsiveness of PHG to that state. ..
  42. Kato K, Cui S, Kuick R, Mineishi S, Hexner E, Ferrara J, et al. Identification of stem cell transcriptional programs normally expressed in embryonic and neural stem cells in alloreactive CD8+ T cells mediating graft-versus-host disease. Biol Blood Marrow Transplant. 2010;16:751-71 pubmed publisher
    ..Thus, these findings identify that a group of stem cell genes could play important roles in sustaining terminally differentiated alloreactive CD8(+) T(E) and may be therapeutic targets for controlling GVHD. ..
  43. Hur J, Sullivan K, Schuyler A, Hong Y, Pande M, States D, et al. Literature-based discovery of diabetes- and ROS-related targets. BMC Med Genomics. 2010;3:49 pubmed publisher
    ..Literature mining compiled ROS-diabetes related targets from the biomedical literature and led us to evaluate the biological relevance of selected targets in the pathogenesis of diabetic neuropathy. ..
  44. Reka A, Kuick R, Kurapati H, Standiford T, Omenn G, Keshamouni V. Identifying inhibitors of epithelial-mesenchymal transition by connectivity map-based systems approach. J Thorac Oncol. 2011;6:1784-92 pubmed publisher
    ..This study demonstrates the potential of a systems approach in identifying novel modulators of a complex biological process. ..
  45. Wang R, Asangani I, Chakravarthi B, Ateeq B, Lonigro R, Cao Q, et al. Role of transcriptional corepressor CtBP1 in prostate cancer progression. Neoplasia. 2012;14:905-14 pubmed
    ..Taken together, our studies demonstrated that dysregulated expression of CtBP1 plays an important role in prostate cancer progression and may serve as a viable therapeutic target. ..
  46. Olszewski M, Huffnagle G, Traynor T, McDonald R, Cook D, Toews G. Regulatory effects of macrophage inflammatory protein 1alpha/CCL3 on the development of immunity to Cryptococcus neoformans depend on expression of early inflammatory cytokines. Infect Immun. 2001;69:6256-63 pubmed
    ..We conclude that, in the absence of other innate immune response effector molecules, MIP-1alpha is crucial to prevent the development of EP and to control C. neoformans dissemination to the brain. ..
  47. Wu J, Rutkowski D, Dubois M, Swathirajan J, Saunders T, Wang J, et al. ATF6alpha optimizes long-term endoplasmic reticulum function to protect cells from chronic stress. Dev Cell. 2007;13:351-64 pubmed
    ..These results suggest that the vertebrate ATF6alpha pathway evolved to maintain ER function when cells are challenged with chronic stress and provide a rationale for the overlap among the three UPR pathways. ..
  48. Zhai Y, Kuick R, Nan B, Ota I, Weiss S, Trimble C, et al. Gene expression analysis of preinvasive and invasive cervical squamous cell carcinomas identifies HOXC10 as a key mediator of invasion. Cancer Res. 2007;67:10163-72 pubmed
    ..Other genes with differential expression in invasive SCC versus HSIL may contribute to tumor progression or may be useful as markers for cancer diagnosis or progression risk. ..
  49. Li S, Liu C, Li N, Hao T, Han T, Hill D, et al. Genome-wide coactivation analysis of PGC-1alpha identifies BAF60a as a regulator of hepatic lipid metabolism. Cell Metab. 2008;8:105-17 pubmed publisher
    ..These results define a role for the SWI/SNF complexes in the regulation of lipid homeostasis. ..
  50. Podlaha O, Zhang J. Processed pseudogenes: the 'fossilized footprints' of past gene expression. Trends Genet. 2009;25:429-34 pubmed publisher
    ..Thus, processed pseudogenes might serve as fossilized footprints of the expression of their parent genes, shedding light on ancient transcriptomes that could provide significant insights into the evolution of gene expression. ..
  51. Hall C, Zhang H, Baile S, Ljungman M, Kuhstoss S, Keller E. p21CIP-1/WAF-1 induction is required to inhibit prostate cancer growth elicited by deficient expression of the Wnt inhibitor Dickkopf-1. Cancer Res. 2010;70:9916-26 pubmed publisher
    ..Collectively, our findings demonstrate that DKK-1 overexpression supports tumor growth in part by restricting expression of p21(CIP1/WAF1) through a mechanism independent of canonical Wnt signaling. ..
  52. Chen F, Ding X, Ding Y, Xiang Z, Li X, Ghosh D, et al. Proinflammatory caspase-2-mediated macrophage cell death induced by a rough attenuated Brucella suis strain. Infect Immun. 2011;79:2460-9 pubmed publisher
    ..This unique cell death differs from apoptosis, which is not proinflammatory. It is also different from classical pyroptosis, which is caspase-1 mediated...
  53. Pearson M, Yep A, Smith S, Mobley H. Transcriptome of Proteus mirabilis in the murine urinary tract: virulence and nitrogen assimilation gene expression. Infect Immun. 2011;79:2619-31 pubmed publisher
    ..mirabilis uses glutamate dehydrogenase to monitor carbon-nitrogen balance, and this ability contributes to the pathogenic potential of P. mirabilis in the urinary tract...
  54. Figueroa Romero C, Hur J, Bender D, Delaney C, Cataldo M, Smith A, et al. Identification of epigenetically altered genes in sporadic amyotrophic lateral sclerosis. PLoS ONE. 2012;7:e52672 pubmed publisher
    ..This study represents an initial identification of epigenetic regulatory mechanisms in sALS which may improve our understanding of sALS pathogenesis for the identification of biomarkers and new therapeutic targets. ..
  55. Ju W, Greene C, Eichinger F, Nair V, Hodgin J, Bitzer M, et al. Defining cell-type specificity at the transcriptional level in human disease. Genome Res. 2013;23:1862-73 pubmed publisher
    ..Identified cell-lineage-specific transcripts are expected to play essential tissue-specific roles in organogenesis and disease and can provide starting points for the development of organ-specific diagnostics and therapies. ..
  56. Temple W, Mendelsohn L, Kim G, Nekritz E, Gustafson W, Lin L, et al. Vesicular monoamine transporter protein expression correlates with clinical features, tumor biology, and MIBG avidity in neuroblastoma: a report from the Children's Oncology Group. Eur J Nucl Med Mol Imaging. 2016;43:474-481 pubmed publisher
    ..VMAT1 and VMAT2 are expressed in the majority of neuroblastomas. Expression correlates with other biological features. The expression level of VMAT2 but not that of VMAT1 correlates with avidity for MIBG. ..
  57. Gudjonsson J, Johnston A, Stoll S, Riblett M, Xing X, Kochkodan J, et al. Evidence for altered Wnt signaling in psoriatic skin. J Invest Dermatol. 2010;130:1849-59 pubmed publisher
  58. Ellsworth S, Rabatic B, Chen J, Zhao J, Campbell J, Wang W, et al. Principal component analysis identifies patterns of cytokine expression in non-small cell lung cancer patients undergoing definitive radiation therapy. PLoS ONE. 2017;12:e0183239 pubmed publisher
  59. Williams T, Williams M, Kuick R, Misek D, McDonagh K, Hanash S, et al. Candidate downstream regulated genes of HOX group 13 transcription factors with and without monomeric DNA binding capability. Dev Biol. 2005;279:462-80 pubmed
    ..Our results suggest that HOX protein-protein interactions without direct HOX DNA-binding may play a larger role in HOX transcriptional regulation than generally assumed, and DNA-binding appears critical for repression. ..
  60. Uddin M, Aiello A, Wildman D, Koenen K, Pawelec G, de Los Santos R, et al. Epigenetic and immune function profiles associated with posttraumatic stress disorder. Proc Natl Acad Sci U S A. 2010;107:9470-5 pubmed publisher
  61. Standiford T, Kuick R, Bhan U, Chen J, Newstead M, Keshamouni V. TGF-?-induced IRAK-M expression in tumor-associated macrophages regulates lung tumor growth. Oncogene. 2011;30:2475-84 pubmed publisher
    ..Together, our data demonstrates that TGF-?-dependent induction of IRAK-M expression is an important, clinically relevant mechanism by which tumors may circumvent anti-tumor responses of macrophages. ..
  62. Albertus D, Seder C, Chen G, Wang X, Hartojo W, Lin L, et al. AZGP1 autoantibody predicts survival and histone deacetylase inhibitors increase expression in lung adenocarcinoma. J Thorac Oncol. 2008;3:1236-44 pubmed publisher
    ..The presence of AZGP1 serum autoantibody may be used as a prognostic marker in patients with AD. Furthermore, up-regulation of AZGP1 mRNA in AD may be affected by chromatin remodeling by means of histone acetylation. ..
  63. Zacks D. Gene transcription profile of the detached retina (An AOS Thesis). Trans Am Ophthalmol Soc. 2009;107:343-82 pubmed
    ..We also define the early activation of kinases that might be responsible for the detachment-induced changes in gene transcription...
  64. Rahman A, Hershey S, Ahmed S, Nibbelink K, Simpson R. Heart extracellular matrix gene expression profile in the vitamin D receptor knockout mice. J Steroid Biochem Mol Biol. 2007;103:416-9 pubmed
    ..This data supports a role for 1,25D in heart ECM metabolism and suggests that MMPs and TIMPs expression may be modulated by vitamin D. ..
  65. Watson R, Spalding A, Zielske S, Morgan M, Kim A, Bommer G, et al. GSK3beta and beta-catenin modulate radiation cytotoxicity in pancreatic cancer. Neoplasia. 2010;12:357-65 pubmed
    ..Further understanding of this pathway may enhance the development of clinical trials combining drugs inhibiting beta-catenin activation with radiation and chemotherapy in locally advanced pancreatic cancer. ..
  66. Liu D, Sartor M, Nader G, Gutmann L, Treutelaar M, Pistilli E, et al. Skeletal muscle gene expression in response to resistance exercise: sex specific regulation. BMC Genomics. 2010;11:659 pubmed publisher
    ..The findings from the present study provide insight into the molecular mechanisms for sex differences in muscle phenotypes and for muscle transcriptional regulation associated with training adaptations to resistance exercise. ..
  67. Sam L, Lipson D, Raz T, Cao X, Thompson J, Milos P, et al. A comparison of single molecule and amplification based sequencing of cancer transcriptomes. PLoS ONE. 2011;6:e17305 pubmed publisher
    ..A better understanding of the technical and analytical factors introducing platform specific biases in high throughput transcriptome sequencing applications will be critical in cross platform meta-analytic studies. ..
  68. O Connell P, Zhang W, Menon M, Yi Z, Schroppel B, Gallon L, et al. Biopsy transcriptome expression profiling to identify kidney transplants at risk of chronic injury: a multicentre, prospective study. Lancet. 2016;388:983-93 pubmed publisher
    ..National Institutes of Health. ..
  69. Li X, Udager A, Hu C, Qiao X, Richards N, Gumucio D. Dynamic patterning at the pylorus: formation of an epithelial intestine-stomach boundary in late fetal life. Dev Dyn. 2009;238:3205-17 pubmed publisher
    ..Finally, we define a unique expression domain at the pylorus itself and detect novel pylorus-specific patterns for the transcription factor Gata3 and the secreted protein nephrocan...
  70. Krill K, Gurdziel K, Heaton J, Simon D, Hammer G. Dicer deficiency reveals microRNAs predicted to control gene expression in the developing adrenal cortex. Mol Endocrinol. 2013;27:754-68 pubmed publisher
    ..Together these data suggest a role for miRNA-mediated regulation of a subset of genes that are essential for normal adrenal growth and homeostasis. ..
  71. Yoon H, Foster N, Meyers J, Steen P, Visscher D, Pillai R, et al. Gene expression profiling identifies responsive patients with cancer of unknown primary treated with carboplatin, paclitaxel, and everolimus: NCCTG N0871 (alliance). Ann Oncol. 2016;27:339-44 pubmed publisher
    ..Everolimus combined with CP demonstrated promising antitumor activity and an acceptable side-effect profile. A tumor biomarker identifying TOO may be useful to select CUP patients for specific antitumor regimens. NCT00936702. ..
  72. Garcia E, Brumbaugh A, Mobley H. Redundancy and specificity of Escherichia coli iron acquisition systems during urinary tract infection. Infect Immun. 2011;79:1225-35 pubmed publisher
    ..Overall, our results suggest that UPEC iron receptors provide both functional redundancy and niche specificity for this pathogen as it colonizes distinct sites within the urinary tract. ..
  73. Prensner J, Iyer M, Sahu A, Asangani I, Cao Q, Patel L, et al. The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Nat Genet. 2013;45:1392-8 pubmed publisher
    ..These results suggest that SChLAP1 contributes to the development of lethal cancer at least in part by antagonizing the tumor-suppressive functions of the SWI/SNF complex. ..
  74. Strong A, Hunter R, Jones R, Bowles A, Dutreil M, Gaupp D, et al. Obesity inhibits the osteogenic differentiation of human adipose-derived stem cells. J Transl Med. 2016;14:27 pubmed publisher
    ..Collectively, these results indicate that obesity reduces the osteogenic differentiation capacity of ASCs such that they may have a limited suitability as a cell source for tissue engineering. ..
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