Jeanette E Eckel-Passow

Summary

Affiliation: Mayo Clinic
Country: USA

Publications

  1. ncbi request reprint Normalization of two-channel microarray experiments: a semiparametric approach
    J E Eckel
    Department of Health Sciences Research, Mayo Clinic Rochester, MN 55905, USA
    Bioinformatics 21:1078-83. 2005
  2. ncbi request reprint Experimental design and analysis of antibody microarrays: applying methods from cDNA arrays
    Jeanette E Eckel-Passow
    Department of Health Sciences Research, Mayo Clinic, 200 First Street Southwest, Rochester, MN 55905, USA
    Cancer Res 65:2985-9. 2005
  3. ncbi request reprint Regression analysis for comparing protein samples with 16O/18O stable-isotope labeled mass spectrometry
    J E Eckel-Passow
    Division of Biostatistics, Department of Health Sciences Research 200 First Street SW, Rochester, MN 55905, USA
    Bioinformatics 22:2739-45. 2006
  4. pmc Software comparison for evaluating genomic copy number variation for Affymetrix 6.0 SNP array platform
    Jeanette E Eckel-Passow
    Division of Biomedical Statistics and Informatics, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA
    BMC Bioinformatics 12:220. 2011
  5. pmc Quality assessment metrics for whole genome gene expression profiling of paraffin embedded samples
    Douglas W Mahoney
    Biomedical Statistics and Informatics, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA
    BMC Res Notes 6:33. 2013
  6. ncbi request reprint A method for automatically interpreting mass spectra of 18O-labeled isotopic clusters
    Christopher J Mason
    Mayo Proteomics Research Center, Mayo Clinic College of Medicine, Rochester, Minnesota 55905, USA
    Mol Cell Proteomics 6:305-18. 2007
  7. pmc Integrated analysis of gene expression, CpG island methylation, and gene copy number in breast cancer cells by deep sequencing
    Zhifu Sun
    Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic College of Medicine, Rochester, Minnesota, United States of America
    PLoS ONE 6:e17490. 2011
  8. doi request reprint ANKS1B is a smoking-related molecular alteration in clear cell renal cell carcinoma
    Jeanette E Eckel-Passow
    Department of Health Sciences Research, Mayo Clinic, 4500 San Pablo Road, Jacksonville, FL 32224, USA
    BMC Urol 14:14. 2014
  9. pmc A new statistic for identifying batch effects in high-throughput genomic data that uses guided principal component analysis
    Sarah E Reese
    Department of Biostatistics, Biostatistics Shared Resource Core, VCU Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23284, USA, Division of Biomedical Statistics and Informatics and Division of Epidemiology, Department of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USA
    Bioinformatics 29:2877-83. 2013
  10. pmc Incidence of Pseudomonas aeruginosa bacteremia: a population-based study
    Majdi N Al-Hasan
    Department of Medicine, Division of Infectious Diseases, College of Medicine, Mayo Clinic, Rochester, MN 55905, USA
    Am J Med 121:702-8. 2008

Detail Information

Publications23

  1. ncbi request reprint Normalization of two-channel microarray experiments: a semiparametric approach
    J E Eckel
    Department of Health Sciences Research, Mayo Clinic Rochester, MN 55905, USA
    Bioinformatics 21:1078-83. 2005
    ....
  2. ncbi request reprint Experimental design and analysis of antibody microarrays: applying methods from cDNA arrays
    Jeanette E Eckel-Passow
    Department of Health Sciences Research, Mayo Clinic, 200 First Street Southwest, Rochester, MN 55905, USA
    Cancer Res 65:2985-9. 2005
    ..The objective of this article is to discuss statistical methods that have been developed for cDNA arrays and describe how the methods can be directly applied to antibody arrays...
  3. ncbi request reprint Regression analysis for comparing protein samples with 16O/18O stable-isotope labeled mass spectrometry
    J E Eckel-Passow
    Division of Biostatistics, Department of Health Sciences Research 200 First Street SW, Rochester, MN 55905, USA
    Bioinformatics 22:2739-45. 2006
    ..Although discussed in the context of (16)O/(18)O stable-isotope labeled data, the multivariable regression models are generalizable to other stable-isotope labeled technologies...
  4. pmc Software comparison for evaluating genomic copy number variation for Affymetrix 6.0 SNP array platform
    Jeanette E Eckel-Passow
    Division of Biomedical Statistics and Informatics, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA
    BMC Bioinformatics 12:220. 2011
    ..0. We compared bias and variance in the locus-level copy number data, the concordance amongst regions of copy number gains/deletions and the false-positive rate amongst deleted segments...
  5. pmc Quality assessment metrics for whole genome gene expression profiling of paraffin embedded samples
    Douglas W Mahoney
    Biomedical Statistics and Informatics, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA
    BMC Res Notes 6:33. 2013
    ....
  6. ncbi request reprint A method for automatically interpreting mass spectra of 18O-labeled isotopic clusters
    Christopher J Mason
    Mayo Proteomics Research Center, Mayo Clinic College of Medicine, Rochester, Minnesota 55905, USA
    Mol Cell Proteomics 6:305-18. 2007
    ..We describe in detail the operation of the algorithm and demonstrate its use on datasets with known and unknown ratios...
  7. pmc Integrated analysis of gene expression, CpG island methylation, and gene copy number in breast cancer cells by deep sequencing
    Zhifu Sun
    Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic College of Medicine, Rochester, Minnesota, United States of America
    PLoS ONE 6:e17490. 2011
    ..The role of gene amplification/deletion appears to more modest, although several potentially significant genes appear to be regulated by copy number aberrations...
  8. doi request reprint ANKS1B is a smoking-related molecular alteration in clear cell renal cell carcinoma
    Jeanette E Eckel-Passow
    Department of Health Sciences Research, Mayo Clinic, 4500 San Pablo Road, Jacksonville, FL 32224, USA
    BMC Urol 14:14. 2014
    ..We used a multi-stage design to identify and validate genes that are associated with smoking-related ccRCC...
  9. pmc A new statistic for identifying batch effects in high-throughput genomic data that uses guided principal component analysis
    Sarah E Reese
    Department of Biostatistics, Biostatistics Shared Resource Core, VCU Massey Cancer Center, Virginia Commonwealth University, Richmond, VA 23284, USA, Division of Biomedical Statistics and Informatics and Division of Epidemiology, Department of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USA
    Bioinformatics 29:2877-83. 2013
    ..However, PCA yields linear combinations of the variables that contribute maximum variance and thus will not necessarily detect batch effects if they are not the largest source of variability in the data...
  10. pmc Incidence of Pseudomonas aeruginosa bacteremia: a population-based study
    Majdi N Al-Hasan
    Department of Medicine, Division of Infectious Diseases, College of Medicine, Mayo Clinic, Rochester, MN 55905, USA
    Am J Med 121:702-8. 2008
    ..The incidence of Pseudomonas aeruginosa bacteremia has not been defined in a population-based investigation...
  11. pmc An insight into high-resolution mass-spectrometry data
    J E Eckel-Passow
    Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic College of Medicine, 200 First Street SW, Rochester, MN 55905, USA
    Biostatistics 10:481-500. 2009
    ..Areas in need of statistical research for proteomic data include alignment, experimental design, abundance normalization, and statistical analysis...
  12. pmc An integrated model of the transcriptome of HER2-positive breast cancer
    Krishna R Kalari
    Department of Cancer Biology, Mayo Clinic, Jacksonville, Florida, United States of America Department of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, Minnesota, United States of America
    PLoS ONE 8:e79298. 2013
    ....
  13. pmc Expression of endothelin 2 and localized clear cell renal cell carcinoma
    Brian M Bot
    Division of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, MN 55905, USA
    Hum Pathol 43:843-9. 2012
    ..If supportive mechanistic data can be produced, endothelin 2 could represent a potential target for chemopreventive or neoadjuvant therapeutics for clear cell renal cell carcinoma...
  14. pmc Statistical analysis of relative labeled mass spectrometry data from complex samples using ANOVA
    Ann L Oberg
    Division of Biostatistics, Department of Health Sciences Research, Mayo Clinic, 200 First Street SW, Rochester, Minnesota 55905, USA
    J Proteome Res 7:225-33. 2008
    ..The modeling approach, implementation, and useful visualization tools are demonstrated via a case study of complex biological samples assessed using the iTRAQ relative labeling protocol...
  15. pmc Identification of a novel percent mammographic density locus at 12q24
    Kristen N Stevens
    Department of Health Sciences Research, Mayo Clinic, Charlton 6 239, 200 First St SW, Rochester, MN 55905, USA
    Hum Mol Genet 21:3299-305. 2012
    ..Understanding the mechanism underlying this association will provide insight into the genetics of breast tissue composition...
  16. doi request reprint Comparison of fluorescence in situ hybridization (FISH) and dual-ISH (DISH) in the determination of HER2 status in breast cancer
    Aaron S Mansfield
    Department of Oncology, Mayo Clinic, Rochester, MN 55905, USA
    Am J Clin Pathol 139:144-50. 2013
    ..Using a cohort of difficult specimens, we observed less than 95% concordance between FISH and DISH. DISH may underestimate the HER2/chromosome 17 ratio, or FISH may overestimate this ratio...
  17. doi request reprint Characterizing the clinical benefit of ipilimumab in patients who progressed on high-dose IL-2
    Richard W Joseph
    Division of Hematology and Oncology, Mayo Clinic, Jacksonville, FL 32224, USA
    J Immunother 35:711-5. 2012
    ..Prospective trials of HD IL-2 followed by ipilimumab could potentially identify patients most likely to benefit from a sequential approach of HD IL-2 followed by ipilimumab...
  18. pmc Expression profiling of formalin-fixed paraffin-embedded primary breast tumors using cancer-specific and whole genome gene panels on the DASLĀ® platform
    Monica M Reinholz
    Department of Laboratory Medicine and Pathology, Mayo Clinic, 200 First St SW, Rochester, Minnesota 55905, USA
    BMC Med Genomics 3:60. 2010
    ..5K) and 24,526-gene panel (24K) platforms at differentiating nine human epidermal growth factor receptor 2- positive (HER2+) and 11 HER2-negative (HER2-) paraffin-embedded breast tumors...
  19. doi request reprint The Mayo prosthetic joint infection risk score: implication for surgical site infection reporting and risk stratification
    Elie F Berbari
    Department of Medicine, Division of Infectious Diseases, Section of Orthopedic Infections, Mayo Clinic, Rochester, Minnesota 55905, USA
    Infect Control Hosp Epidemiol 33:774-81. 2012
    ..The goal of this study was to develop a prognostic scoring system for the development of prosthetic joint infection (PJI) that could risk-stratify patients undergoing total hip (THA) or total knee (TKA) arthroplasties...
  20. pmc Progressive but previously untreated CLL patients with greater array CGH complexity exhibit a less durable response to chemoimmunotherapy
    Neil E Kay
    Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA
    Cancer Genet Cytogenet 203:161-8. 2010
    ..1 deletion and in the more favorable genetic subtype characterized by the presence of 13q14.1 deletion. This aCGH study adds information on the association between poor trial response and increasing genetic complexity as CLL progresses...
  21. pmc Tissue microarrays: one size does not fit all
    Jeanette E Eckel-Passow
    Department of Health Sciences Research, Mayo Clinic College of Medicine, Rochester, Minnesota, USA
    Diagn Pathol 5:48. 2010
    ..Furthermore, TMA performance across multiple biomarkers has not been systematically explored...
  22. doi request reprint A prospective longitudinal analysis of cytomegalovirus (CMV)-specific CD4+ and CD8+ T cells in kidney allograft recipients at risk of CMV infection
    Albert J Eid
    Divisions of Infectious Diseases, Department of Medicine, College of Medicine, Mayo Clinic, Rochester, MN, USA
    Transpl Int 23:506-13. 2010
    ..On the other hand, the clinical utility of CMV-specific T cell assays will need to be assessed in a larger cohort of CMV D+/R- kidney recipients who remain at high-risk of delayed-onset CMV disease...
  23. doi request reprint Kinetics of interferon-gamma producing cytomegalovirus (CMV)-specific CD4+ and CD8+ T lymphocytes and the risk of subsequent CMV viremia after allogeneic hematopoietic stem cell transplantation
    A J Eid
    Mayo Clinic College of Medicine, Rochester, Minnesota 55905, USA
    Transpl Infect Dis 11:519-28. 2009
    ..Deficiencies in cytomegalovirus (CMV)-specific T lymphocytes impair the immunologic response against CMV reactivation after allogeneic hematopoietic stem cell transplantation (HSCT)...