All Stories

  1. Interrogating the microbiome: experimental and computational considerations in support of study reproducibility

    Article • Drug Discovery Today, June 2018, Elsevier

    Stephanie Boue

  2. Supporting evidence-based analysis for modified risk tobacco products through a toxicology data-sharing infrastructure

    Article • F1000Research, September 2017, Faculty of 1000, Ltd.

    Stephanie Boue

  3. Aerosol from Tobacco Heating System 2.2 has reduced impact on mouse heart gene expression compared with cigarette smoke

    Article • Food and Chemical Toxicology, March 2017, Elsevier

    Stephanie Boue

  4. Crowd-Sourced Verification of Computational Methods and Data in Systems Toxicology: A Case Study with a Heat-Not-Burn Candidate Modified Risk Tobacco Product

    Article • Chemical Research in Toxicology, February 2017, American Chemical Society (ACS)

    Stephanie Boue

  5. Supporting evidence-based analysis for modified risk tobacco products through a toxicology data-sharing infrastructure

    Article • F1000Research, January 2017, Faculty of 1000, Ltd.

    julia Hoeng, Stephanie Boue

  6. Evaluation of the Tobacco Heating System 2.2. Part 4: 90-day OECD 413 rat inhalation study with systems toxicology endpoints demonstrates reduced exposure effects compared with cigarette smoke

    Article • Regulatory Toxicology and Pharmacology, November 2016, Elsevier

    Stephanie Boue

  7. Community-Reviewed Biological Network Models for Toxicology and Drug Discovery Applications

    Article • Gene Regulation and Systems Biology, July 2016, SAGE Publications

    julia Hoeng, Stephanie Boue

  8. Systems Toxicology

    Article • June 2016, Wiley

    Stephanie Boue

  9. An 8-Month Systems Toxicology Inhalation/Cessation Study in Apoe−/−Mice to Investigate Cardiovascular and Respiratory Exposure Effects of a Candidate Modified Risk Tobacco Product, THS 2.2, Compared With Conventional Cigarettes

    Article • Toxicological Sciences, May 2016, Oxford University Press (OUP)

    Stephanie Boue

  10. The Apoe−/− mouse model: a suitable model to study cardiovascular and respiratory diseases in the context of cigarette smoke exposure and harm reduction

    Article • Journal of Translational Medicine, May 2016, Springer Science + Business Media

    Stephanie Boue

  11. Effects of cigarette smoke, cessation and switching to a candidate modified risk tobacco product on the liver inApoe−/−mice – a systems toxicology analysis

    Article • Inhalation Toxicology, March 2016, Informa Healthcare

    Stephanie Boue

  12. SETD7 Regulates the Differentiation of Human Embryonic Stem Cells

    Article • PLoS ONE, February 2016, PLOS

    Stephanie Boue

  13. Comprehensive systems biology analysis of a 7-month cigarette smoke inhalation study in C57BL/6 mice

    Article • Scientific Data, January 2016, Nature

    Stephanie Boue

  14. Crowdsourcing and curation: perspectives from biology and natural language processing

    Article • Database, January 2016, Oxford University Press (OUP)

    Stephanie Boue, Dr Nikos C Kyrpides

  15. An 8-Month Systems Toxicology Inhalation/Cessation Study in Apoe−/−Mice to Investigate Cardiovascular and Respiratory Exposure Effects of a Candidate Modified Risk Tobacco Product, THS 2.2, Compared With Conventional Cigarettes

    Article • Toxicological Sciences, November 2015, Oxford University Press (OUP)

    Stephanie Boue

  16. Effects of Cigarette Smoke, Cessation, and Switching to Two Heat-Not-Burn Tobacco Products on Lung Lipid Metabolism inC57BL/6andApoe−/−Mice—An Integrative Systems Toxicology Analysis

    Article • Toxicological Sciences, November 2015, Oxford University Press (OUP)

    Stephanie Boue

  17. Systems Biology Research into Cardiovascular Disease: Contributions of Lipidomics-based Approaches to Biomarker Discovery

    Article • Current Drug Discovery Technologies, September 2015, Bentham Science Publishers

    Stephanie Boue

  18. Toxicity of aerosols of nicotine and pyruvic acid (separate and combined) in Sprague–Dawley rats in a 28-day OECD 412 inhalation study and assessment of systems toxicology

    Article • Inhalation Toxicology, July 2015, Taylor & Francis

    Stephanie Boue

  19. A 7-month cigarette smoke inhalation study in C57BL/6 mice demonstrates reduced lung inflammation and emphysema following smoking cessation or aerosol exposure from a prototypic modified risk tobacco product

    Article • Food and Chemical Toxicology, June 2015, Elsevier

    Stephanie Boue

  20. Enhancement of COPD biological networks using a web-based collaboration interface

    Article • F1000Research, May 2015, Faculty of 1000, Ltd.

    Stephanie Boue

  21. Transcriptional profiling and targeted proteomics reveals common molecular changes associated with cigarette smoke-induced lung emphysema development in five susceptible mouse strains

    Article • Inflammation Research, May 2015, Springer Science + Business Media

    Stephanie Boue

  22. Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems

    Article • Database, April 2015, Oxford University Press (OUP)

    Stephanie Boue

  23. Impact Assessment of Repeated Exposure of Organotypic 3D Bronchial and Nasal Tissue Culture Models to Whole Cigarette Smoke

    Article • Journal of Visualized Experiments, February 2015, MyJove Corporation

    Stephanie Boue

  24. REPUTATION-BASED COLLABORATIVE NETWORK BIOLOGY

    Article • November 2014, World Scientific Pub Co Pte Lt

    Stephanie Boue

  25. The species translation challenge—A systems biology perspective on human and rat bronchial epithelial cells

    Article • Scientific Data, June 2014, Nature

    Stephanie Boue

  26. A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability

    Article • Journal of Translational Medicine, January 2014, Springer Science + Business Media

    Stephanie Boue

  27. Cigarette smoke induces molecular responses in respiratory tissues of ApoE−/− mice that are progressively deactivated upon cessation

    Article • Toxicology, December 2013, Elsevier

    Stephanie Boue

  28. On Crowd-verification of Biological Networks

    Article • Bioinformatics and Biology Insights, October 2013, Libertas Academica, Ltd.

    Stephanie Boue

  29. Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge

    Article • Bioinformatics, August 2013, Oxford University Press (OUP)

    Stephanie Boue

  30. Cigarette-smoke-induced atherogenic lipid profiles in plasma and vascular tissue of apolipoprotein E-deficient mice are attenuated by smoking cessation

    Article • Atherosclerosis, July 2013, Elsevier

    Stephanie Boue

  31. Macrohistone Variants Preserve Cell Identity by Preventing the Gain of H3K4me2 during Reprogramming to Pluripotency

    Article • Cell Reports, April 2013, Elsevier

    Stephanie Boue

  32. Modulation of atherogenic lipidome by cigarette smoke in apolipoprotein E-deficient mice

    Article • Atherosclerosis, December 2012, Elsevier

    Stephanie Boue

  33. Waves of early transcriptional activation and pluripotency program initiation during human preimplantation development

    Article • Development, July 2011, The Company of Biologists

    Stephanie Boue

  34. LSD1 regulates the balance between self-renewal and differentiation in human embryonic stem cells

    Article • Nature, May 2011, Nature

    Stephanie Boue

  35. Recapitulation of premature ageing with iPSCs from Hutchinson–Gilford progeria syndrome

    Article • Nature, February 2011, Nature

    Stephanie Boue

  36. Methods for making induced pluripotent stem cells: reprogramming à la carte

    Article • Nature Reviews Genetics, February 2011, Nature

    Stephanie Boue

  37. Dedifferentiation, transdifferentiation and reprogramming: three routes to regeneration

    Article • Nature Reviews Molecular Cell Biology, February 2011, Nature

    Stephanie Boue

  38. Epigenetic Mechanisms that Regulate Cell Identity

    Article • Cell Stem Cell, November 2010, Elsevier

    Stephanie Boue

  39. Analysis of Human and Mouse Reprogramming of Somatic Cells to Induced Pluripotent Stem Cells. What Is in the Plate?

    Article • PLoS ONE, September 2010, PLOS

    Stephanie Boue

  40. Transcriptomics approach to investigate zebrafish heart regeneration

    Article • Journal of Cardiovascular Medicine, May 2010, Wolters Kluwer Health

    Stephanie Boue

  41. Generation of Induced Pluripotent Stem Cells from Human Cord Blood Using OCT4 and SOX2

    Article • Cell Stem Cell, October 2009, Elsevier

    Stephanie Boue

  42. Recent amplification and impact of MITEs on the genome of grapevine (Vitis vinifera L.)

    Article • Genome Biology and Evolution, May 2009, Oxford University Press (OUP)

    Stephanie Boue

  43. ASTD: The Alternative Splicing and Transcript Diversity database

    Article • Genomics, March 2009, Elsevier

    Stephanie Boue

  44. Global analysis of alternative splicing regulation by insulin and wingless signaling in Drosophila cells

    Article • Genome Biology, January 2009, Springer Science + Business Media

    Stephanie Boue

  45. Efficient and rapid generation of induced pluripotent stem cells from human keratinocytes

    Article • Nature Biotechnology, October 2008, Nature

    Stephanie Boue

  46. Homozygous PMS2 germline mutations in two families with early-onset haematological malignancy, brain tumours, HNPCC-associated tumours, and signs of neurofibromatosis type 1

    Article • European Journal of Human Genetics, September 2007, Nature

    Stephanie Boue

  47. Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis

    Article • Molecular Systems Biology, January 2007, EMBO

    Stephanie Boue

  48. Direct membrane protein–DNA interactions required early in nuclear envelope assembly

    Article • The Journal of Cell Biology, May 2006, Rockefeller University Press

    Stephanie Boue

  49. Similar gene expression profiles do not imply similar tissue functions

    Article • Trends in Genetics, March 2006, Elsevier

    Stephanie Boue

  50. Extraction of Transcript Diversity from Scientific Literature

    Article • PLoS Computational Biology, January 2005, PLOS

    Stephanie Boue

  51. Alternative splicing and evolution

    Article • BioEssays, October 2003, Wiley

    Stephanie Boue