Bridging the Autoimmune Abyss through New Discoveries
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© 2015 - All rights reserved. Bonnie Feldman DDS MBA Priya Sahdev Tiffany Simms Bridging the Autoimmune Abyss through New Discoveries
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Transcript of Bridging the Autoimmune Abyss through New Discoveries
© 2015 - All rights reserved.
Bonnie Feldman DDS MBAPriya SahdevTiffany Simms
Bridging the Autoimmune Abyss through New Discoveries
© 2015 - All rights reserved.
Bridging the Autoimmune Abyss through New Discoveries
+1.310.666.5312
www.drbonnie360.com
@DrBonnie360
www.facebook.com/YourAutoimmunityConnection
Bonnie Feldman, DDS, MBABusiness Development for Digital Health
Priya Sahdev, BSUCLA Class of 2016 Microbiology, Immunology, & Molecular Genetics
Tiffany Simms, BSUCLA Class of 2015Anthropology
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The Invisible Epidemic: Incidence & Prevalence• Feldman, Bonnie. “Why is Autoimmune Disease Under-served.” Slideshare (2015).
http://bit.ly/1B57pNb
• Groza, Tudor et al. “The Human Phenotype Ontology: Semantic Unification of Common and Rare Disease.” The American Journal of Human Genetics (2015). http://www.irdirc.org/the-human-phenotype-ontology-semantic-unification-of-common-and-rare-disease/
• Nakazawa Jackson, Donna. The Autoimmune Epidemic. New York: A Touchstone Book, 2008. Print
• “More than 450 Medicines in Development for Rare Diseases.” Medicines in Development (2013). http://phrma.org/Medicines-Development-Rare-Diseases
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Basic Science Foundation for Discovery
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New Discovery Fuels Collaboration: Immunology & Repertoire Sequencing• Burton, Bronwen et al. “Sequential transcriptional changes dictate safe and effective
antigen-specific immunotherapy.” Nature Communications (2014). http://scholar.qsensei.com/content/1yq4qh
• Norman, Jason et al. “Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease.” Cell (2015). http://f1000.com/prime/725326230
• Poletaev et al. “Immunophysiology versus immunopathology: Natural autoimmunity in human health and disease.” Pathophysiology 19.3 (2012): 221-231.<http://www.researchgate.net/publication/230655913_Immunophysiology_versus_immunopathology_Natural_autoimmunity_in_human_health_and_disease
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New Discovery Fuels Collaboration: Immunology & Repertoire Sequencing• Ramesh, Manish et al. “Clonal and Constricted T cell repertoire in Common Variable
Immune Deficiency.” Clinical immunology (Orlando, Fla.) (2015). http://www.bioportfolio.com/resources/pmarticle/1148910/Clonal-and-Constricted-T-cell-repertoire-in-Common-Variable-Immune-Deficiency.html
• Robins, Harlan. “Immunosequencing: applications of immune repertoire deep sequencing.” Current Opinion in Immunology 25.5 (2013): 646–52. http://www.researchgate.net/publication/258059445_Immunosequencing_applications_of_immune_repertoire_deep_sequencing
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New Discovery Fuels Collaboration: Immunology & Repertoire Sequencing• Robinson, William. “Sequencing the functional antibody repertoire—diagnostic and
therapeutic discovery.” Nature Reviews Rheumatology 11.3 (2015): 171–182. http://www.pubfacts.com/detail/25536486/Sequencing-the-functional-antibody-repertoire-diagnostic-and-therapeutic-discovery
• Spreafico, Roberto et al. “A circulating reservoir of pathogenic-like CD4+ T cells shares a genetic and phenotypic signature with the inflamed synovial micro-environment.” Annals of the Rheumatic Diseases (2014): annrheumdis–2014–206-226. http://www.researchgate.net/publication/269719321_A_circulating_reservoir_of_pathogenic-like_CD4_T_cells_shares_a_genetic_and_phenotypic_signature_with_the_inflamed_synovial_micro-environment
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Polyautoimmunity: No Longer Organ Specific• Castiblanco, John, Mauricio Arcos-Burgos, and Juan-Manuel Anaya. “What is next after the
genes for autoimmunity?” BMC Medicine 11 (2013): 197. http://www.biomedcentral.com/1741-7015/11/197
• Franco, -S, and -M Anaya. “The autoimmune tautology with a focus on antiphospholipid syndrome.” Lupus 23.12 (2014): 1273-1275. http://www.researchgate.net/publication/265733380_The_autoimmune_tautology_with_a_focus_on_antiphospholipid_syndrome
• Groza, Tudor et al. “The Human Phenotype Ontology: Semantic Unification of Common and Rare Disease.” The American Journal of Human Genetics (2015). http://www.irdirc.org/the-human-phenotype-ontology-semantic-unification-of-common-and-rare-disease/
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Polyautoimmunity: No Longer Organ Specific• Greenwood, Veronique. “Disease Networks Show Molecular Connections." Quanta
Magazine” (2015). https://www.quantamagazine.org/20150129-networks-reveal-the-connections-of-disease/
• Zippi, Maddalena. “Extraintestinal manifestations in a large series of Italian inflammatory bowel disease patients.” World Journal of Gastroenterology 20.46 (2014): 17463-17467.http://docrchive.com/document/extraintestinal-manifestations-in-a-large-series-of-italian-inflammatory-bowel-disease-patients-7348008145211277/
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Personal Trial and Error: Treatments & Therapies• Bot, Adrian et al. “Target discovery for T cell therapy: next steps to advance
Immunotherapies.” Journal for Immunotherapy of Cancer (2015). http://www.immunotherapyofcancer.org/content/pdf/s40425-015-0061-5.pdf
• Burton, Bronwen et al. “Sequential transcriptional changes dictate safe and effective antigen-specific immunotherapy.” Nature Communications (2014). http://research-information.bristol.ac.uk/en/publications/sequential-transcriptional-changes-dictate-safe-and-effective-antigenspecific-immunotherapy(8e1716fd-8874-45eb-84a9-0dc5540e26a8)/export.html
• Chang, Christopher. “Unmet needs in the treatment of autoimmunity: From aspirin to stem cells.” Autoimmunity Reviews 13 (2014). http://www.researchgate.net/publication/259917083_Unmet_Needs_in_the_Treatment_of_Autoimmunity_From_Aspirin_to_Stem_Cells
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Personal Trial and Error: Treatments & Therapies• Curatola, Gerard. “Oral Microbiome Homeostasis: The New Frontier in Oral Care Therapies.”
Symbiosis (2013):1-3. http://www.symbiosisonlinepublishing.com/dentistry-oraldisorders-therapy/dentistry-oraldisorders-therapy05.php
• Gertner, Jon. “What’s Lurking In Your Microbiome? Possibly, a Cure for Disease.” Fast Company (2015). http://www.fastcompany.com/3039891/gut-check
• Nakazawa Jackson, Donna. The Autoimmune Epidemic. New York: A Touchstone Book, 2008. Print.
• Olle, Bernat. “Medicines from microbiota.” Nature Biotechnology 31.4 (2013): 309-315. http://www.researchgate.net/publication/236128149_Medicines_from_microbiota
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Personal Trial and Error: Treatments & Therapies• Petrof et al. “Microbial ecosystems therapeutics: a new paradigm in medicine?” Beneficial
microbes 4.1 (2013): 53-65. http://www.researchgate.net/publication/233963283_Microbial_ecosystems_therapeutics_A_new_paradigm_in_medicine
• Sabatos-Peyton, Catherine A, Johan Verhagen, and David C Wraith. “Antigen-specific immunotherapy of autoimmune and allergic diseases.” Current opinion in immunology 22.5 (2010): 609–15. http://www.researchgate.net/publication/46305185_Antigen-specific_immunotherapy_of_autoimmune_and_allergic_diseases
• Velasquez-Manoff, Moises. An Epidemic of Absence. New York: Scribner, 2012. Print.
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Treatments & Therapies: Fecal Microbiota Transplants • Borody, Thomas, and Alexander Khoruts. “Fecal microbiota transplantation and emerging
applications.” Nature Reviews Gastroenterology and Hepatology 9.2 (2011): 88–96. http://www.researchgate.net/publication/51901488_Borody_TJ_Khoruts_A.._Fecal_microbiota_transplantation_and_emerging_applications._Nat_Rev_Gastroenterol_Hepatol_9_88-96
• Brüssow, Harald. “Microbiota and the human nature: know thyself.” Environmental Microbiology 17.1 (2015): 10–15. http://www.researchgate.net/publication/269727325_Microbiota_and_the_human_nature_know_thyself
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Treatments & Therapies: Fecal Microbiota Transplants • Petrof, Elaine, and Alexander Khoruts. “From stool transplants to next-generation
microbiota therapeutics.” Gastroenterology 146.6 (2014): 1573-1582. http://www.researchgate.net/publication/259698247_From_Stool_Transplants_to_Next-generation_Microbiota_Therapeutics
• Scher, Jose et al. “Decreased Bacterial Diversity Characterizes the Altered Gut Microbiota in Patients With Psoriatic Arthritis, Resembling Dysbiosis in Inflammatory Bowel Disease.” Arthritis & Rheumatology 67.1 (2015): 128–139. http://www.researchgate.net/publication/266974816_Decreased_Bacterial_Diversity_Characterizes_the_Altered_Gut_Microbiota_in_Patients_With_Psoriatic_Arthritis_Resembling_Dysbiosis_in_Inflammatory_Bowel_Disease
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Treatments & Therapies: Prebiotics and Probiotics • Bindels, Laure et al. “Towards a more comprehensive concept for prebiotics.” Nature
Reviews Gastroenterology & Hepatology (2015). http://www.researchgate.net/publication/274319084_Towards_a_more_comprehensive_concept_for_prebiotics
• Derrien, Muriel, and Johan Vlieg. “Fate, activity, and impact of ingested bacteria within the human gut microbiota.” Trends in Microbiology (2015). http://www.researchgate.net/publication/274405159_Fate_activity_and_impact_of_ingested_bacteria_within_the_human_gut_microbiota
• Vieira, Angélica, Mauro Teixeira, and Flaviano Martins. “The Role of Probiotics and Prebiotics in Inducing Gut Immunity.” Frontiers in Immunology 4 (2013): 445. http://www.researchgate.net/publication/259492313_The_Role_of_Probiotics_and_Prebiotics_in_Inducing_Gut_Immunity
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The Microbiome Lifeline• Ackerman, Jennifer. “The Ultimate Social Network.” Scientific American 306.6 (2012): 36–43.
http://www.researchgate.net/publication/225084801_The_ultimate_social_network
• Brusca, Samuel, Steven Abramson, and Jose Scher. “Microbiome and mucosal inflammation as extra-articular triggers for rheumatoid arthritis and autoimmunity.” Current Opinion in Rheumatology (2014). http://www.researchgate.net/publication/258700816_Brusca_S.B._Abramson_S.B.__Scher_J.U._Microbiome_and_mucosal_inflammation_as_extra-articular_triggers_for_rheumatoid_arthritis_and_autoimmunity._Curr._Opin._Rheumatol._26_101-107
• Brüssow, Harald. “Microbiota and the human nature: know thyself.” Environmental Microbiology 17.1 (2015): 10–15. http://www.researchgate.net/publication/269727325_Microbiota_and_the_human_nature_know_thyself
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The Microbiome Lifeline• Garrett, Wendy. “From cell biology to the microbiome: An intentional infinite loop.” The
Journal of Cell Biology (2015). http://www.researchgate.net/publication/279862421_From_cell_biology_to_the_microbiome_An_intentional_infinite_loop
• Hevia, Arancha et al. “Intestinal Dysbiosis Associated with Systemic Lupus Erythematosus.” mBio (2014). http://www.academia.edu/13411926/Intestinal_dysbiosis_associated_with_systemic_lupus_erythematosus
• Kamada, Nobuhiko et al. “Role of the gut microbiota in immunity and inflammatory disease.” Nature Reviews Immunology 13.5 (2013): 321–335. http://www.researchgate.net/publication/236337970_Role_of_gut_microbiota_in_immunity_and_inflammatory_disease
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The Microbiome Lifeline• Proal, Amy, Paul Albert, and Trevor Marshall. “Inflammatory disease and the human
microbiome.” Discovery medicine 17.95 (2014): 257–65. http://www.researchgate.net/publication/262782132_Inflammatory_disease_and_the_human_microbiome
• “Modern Medicine: Microbes Maketh Man." The Economist, (2012). http://www.economist.com/node/21560559
• Waldor, Matthew et al. “Where next for microbiome research?” PLoS biology 13.1 (2015). http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1002050
• Yurkovetskiy, Leonid, Joseph Pickard, and Alexander Chervonsky. “Microbiota and Autoimmunity: Exploring New Avenues.” Cell Host & Microbe (2015). http://scifeeds.com/journal-article/microbiota-and-autoimmunity-exploring-new-avenues/
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The Microbiome Lifeline: Gut As An Organ of Immunity• Campbell, Andrew. “Autoimmunity and the Gut.” Autoimmune Diseases 2014 (2014): 152-428.
http://www.researchgate.net/publication/262886119_Autoimmunity_and_the_Gut
• Goldszmid, Romina, and Giorgio Trinchieri. “The price of immunity.” Nature Immunology 13.10 (2012): 932–8. http://www.researchgate.net/publication/230879962_The_price_of_immunity
• Kamada, Nobuhiko et al. “Role of the gut microbiota in immunity and inflammatory disease.” Nature Reviews Immunology 13.5 (2013): 321–335. http://www.researchgate.net/publication/236337970_Role_of_gut_microbiota_in_immunity_and_inflammatory_disease
• Kohn, David. “Joint Pain, From the Gut.” The Atlantic (2015). http://www.theatlantic.com/health/archive/2015/01/joint-pain-from-the-gut/383772/
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The Microbiome Lifeline: Gut As An Organ of Immunity• Mowat, Allan, and William Agace. “Regional specialization within the intestinal immune
system.” Nature Reviews Immunology 14.10 (2014): 667–85. http://www.researchgate.net/publication/265862048_Regional_specialization_within_the_intestinal_immune_system
• Sorini, Chiara, and Marika Falcone. “Shaping the (auto)immune response in the gut: the role of intestinal immune regulation in the prevention of type 1 diabetes.” American journal of clinical and experimental immunology 2.2 (2013): 156–71. http://www.researchgate.net/publication/251876845_Shaping_the_(auto)immune_response_in_the_gut_the_role_of_intestinal_immune_regulation_in_the_prevention_of_type_1_diabetes
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The Microbiome Lifeline: Gut As An Organ of Immunity• Strober, Warren. “Impact of the gut microbiome on mucosal inflammation.” Trends in
Immunology (2013). http://www.researchgate.net/publication/255984931_Impact_of_the_gut_microbiome_on_mucosal_inflammation
• Yurkovetskiy, Leonid, Joseph Pickard, and Alexander Chervonsky. “Microbiota and Autoimmunity: Exploring New Avenues.” Cell Host & Microbe (2015). http://www.researchgate.net/publication/276358904_Microbiota_and_Autoimmunity_Exploring_New_Avenues
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The Microbiome Lifeline: Gut-Brain Axis• Alcock, Joe, Carlo Maley, and Athena Aktipis. “Is eating behavior manipulated by the
gastrointestinal microbiota? Evolutionary pressures and potential mechanisms.” BioEssays (2014). https://ucsf.box.com/shared/static/pdz2z4b5fdvwlpr9hfdh.pdf
• Brod, Samuel et al. “‘As above, so below’ examining the interplay between emotion and the immune system.” Immunology 143.3 (2014): 311–8. http://www.researchgate.net/publication/263291162_As_above_so_below_Examining_the_interplay_between_emotion_and_the_Immune_System
• Forsythe, Paul et al. “Mood and gut feelings.” Brain, Behavior, and Immunity (2010). http://www.journals.elsevier.com/brain-behavior-and-immunity/
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The Microbiome Lifeline: Gut-Brain Axis• Foster, Jane, and Karen-Anne Neufeld. “Gut–brain axis: how the microbiome influences
anxiety and depression.” Trends in Neurosciences (2013). http://www.researchgate.net/publication/235404335_Gut-brain_axis_How_the_microbiome_influences_anxiety_and_depression
• Hadhazy, Adam. “Think Twice: How the Gut’s ‘Second Brain’ Influences Mood and Well-Being." Scientific American (2010). http://www.scientificamerican.com/article/gut-second-brain/
• Mayer, Emeran et al. “Gut Microbes and the Brain: Paradigm Shift in Neuroscience.” The Journal of Neuroscience (2014). http://www.researchgate.net/publication/268233441_Gut_Microbes_and_the_Brain_Paradigm_Shift_in_Neuroscience
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The Microbiome Lifeline: Gut-Brain Axis• O’Mahony et al. “Serotonin, tryptophan metabolism and the brain-gut-microbiome axis.”
Behavioural Brain Research 277 (2015): 3248. http://www.researchgate.net/publication/264389028_Serotonin_Tryptophan_Metabolism_and_the_Brain-Gut-_Microbiome_Axis
• Steenbergen, Laura et al. “A randomized controlled trial to test the effect of multispecies probiotics on cognitive reactivity to sad mood.” Brain, Behavior, and Immunity (2015). http://www.researchgate.net/publication/274781872_A_randomized_controlled_trial_to_test_the_effect_of_multispecies_probiotics_on_cognitive_reactivity_to_sad_mood
© 2015 - All rights reserved.
The Microbiome Lifeline: Fixing Your Leaky Gut is Key• Derrien, Muriel, and Johan Vlieg. “Fate, activity, and impact of ingested bacteria within the
human gut microbiota.” Trends in Microbiology (2015). http://www.researchgate.net/publication/274405159_Fate_activity_and_impact_of_ingested_bacteria_within_the_human_gut_microbiota
• Fasano, Alessio. “Leaky gut and autoimmune diseases.” Clinical reviews in allergy & immunology 42.1 (2012): 71–8. http://www.researchgate.net/publication/51823457_Leaky_gut_and_autoimmune_diseases
• Ghosh, Subrata et al. “New tools and approaches for improved management of inflammatory bowel diseases.” Journal of Crohn’s and Colitis 8.10 (2014): 1246–53. http://www.researchgate.net/publication/261756210_New_tools_and_approaches_for_improved_management_of_inflammatory_bowel_diseases
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The Microbiome Lifeline: Fixing Your Leaky Gut is Key• Kostic, Aleksandar, Ramnik Xavier, and Dirk Gevers. “The Microbiome in Inflammatory Bowel
Disease: Current Status and the Future Ahead.” Gastroenterology 146.6 (2014): 1489–99. http://www.researchgate.net/publication/260374207_The_Microbiome_in_Inflammatory_Bowel_Diseases_Current_Status_and_the_Future_Ahead
• Strober, Warren. “Impact of the gut microbiome on mucosal inflammation.” Trends in Immunology (2013). http://www.researchgate.net/publication/255984931_Impact_of_the_gut_microbiome_on_mucosal_inflammation
• Wlodarska, Marta, Aleksandar Kostic, and Ramnik Xavier. “An Integrative View of Microbiome-Host Interactions in Inflammatory Bowel Diseases.” Cell Host & Microbe (2015). http://www.researchgate.net/publication/276359033_An_Integrative_View_of_Microbiome-Host_Interactions_in_Inflammatory_Bowel_Diseases
© 2015 - All rights reserved.
The Microbiome Lifeline: Fixing Your Leaky Gut is Key• Zippi, Maddalena. “Extraintestinal manifestations in a large series of Italian inflammatory
bowel disease patients.” World Journal of Gastroenterology 20.46 (2014): 17463-17467. http://docrchive.com/document/extraintestinal-manifestations-in-a-large-series-of-italian-inflammatory-bowel-disease-patients-7348008145211277/
© 2015 - All rights reserved.
The Microbiome Lifeline: Health Starts in the Mouth• Atanasova, Kalina, and Özlem Yilmaz. “Prelude to oral microbes and chronic diseases: past,
present and future.” Microbes and Infection (2015). http://www.researchgate.net/publication/274258034_Prelude_to_Oral_Microbes_and_Chronic_Diseases_Past_Present_and_Future
• Costalonga, Massimo, and Mark Herzberg. “The oral microbiome and the immunobiology of periodontal disease and caries.” Immunology Letters (2014). http://www.researchgate.net/publication/268079979_The_oral_microbiome_and_the_immunobiology_of_periodontal_disease_and_caries
• He, Jinzhi et al. “The oral microbiome diversity and its relation to human diseases.” Folia Microbiologica (2014). http://www.researchgate.net/publication/264987867_The_oral_microbiome_diversity_and_its_relation_to_human_diseases
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The Microbiome Lifeline: Health Starts in the Mouth• Marsh, P, and D Bradshaw. “Dental plaque as a biofilm.” Journal of Industrial Microbiology
15.3 (1995): 169–175. http://www.researchgate.net/publication/14678794_Dental_plaque_as_a_biofilm._J_Ind_Microbiol
• Schwarzberg, Karen et al. “The Personal Human Oral Microbiome Obscures the Effects of Treatment on Periodontal Disease.” PLoS ONE 9.1 (2014). http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0086708
• Steinberg, Doron. “Dental Chatter: Bacterial Cross Talk in the Biofilm of the Oral Cavity.” ‐Israel Journal of Chemistry (2015). http://onlinelibrary.wiley.com/doi/10.1002/ijch.201400143/abstract
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The Microbiome Lifeline: Health Starts in the Mouth• Struzycka, Izabela. “The oral microbiome in dental caries.” Polish journal of microbiology /
Polskie Towarzystwo Mikrobiologów = The Polish Society of Microbiologists 63.2 (2014): 127–35. http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0086708
• Warinner, Christina, Camilla Speller, and Matthew Collins. “A new era in palaeomicrobiology: prospects for ancient dental calculus as a long-term record of the human oral microbiome.” Philosophical Transactions of the Royal Society of London B: Biological Sciences 370.1660 (2015). http://www.pubfacts.com/detail/25487328/A-new-era-in-palaeomicrobiology:-prospects-for-ancient-dental-calculus-as-a-long-term-record-of-the-
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The Microbiome Lifeline: Health Starts in the Mouth• Zarco, Vess, and Ginsburg. “The oral microbiome in health and disease and the potential
impact on personalized dental medicine.” Oral Diseases 18.2 (2012): 109–120. http://www.researchgate.net/publication/51628583_The_oral_microbiome_in_health_and_disease_and_the_potential_impact_on_personalized_dental_medicine
• Zhang, Xuan et al. “The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment.” Nature Medicine (2015). http://www.researchgate.net/publication/280036160_The_oral_and_gut_microbiomes_are_perturbed_in_rheumatoid_arthritis_and_partly_normalized_after_treatment
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Data as an Enabling Tool: Getting Closer to Precision Medicine
© 2015 - All rights reserved.
Big Data: Top-Down Bottom-Up Convergence• Dove, Edward, Vural Özdemir, and Yann Joly. “Harnessing Omics Sciences, Population Databases, and
Open Innovation Models for Theranostics Guided Drug Discovery and Development.” ‐ Drug Development Research (2012). http://www.researchgate.net/publication/263060822_Harnessing_Omics_Sciences_Population_Databases_and_Open_Innovation_Models_for_TheranosticsGuided_Drug_Discovery_and_Development
• Farh, Kyle et al. “Genetic and epigenetic fine mapping of causal autoimmune disease variants.” Nature 518.7539 (2015): 337–43. http://www.researchgate.net/publication/267753091_Genetic_and_epigenetic_fine_mapping_of_causal_autoimmune_disease_variants
• Greene, Casey et al. “Understanding multicellular function and disease with human tissue-specific networks.” Nature Genetics (2015). http://www.researchgate.net/publication/275525447_Understanding_multicellular_function_and_disease_with_human_tissue-specific_networks
© 2015 - All rights reserved.
Big Data: Top-Down Bottom-Up Convergence• Groza, Tudor et al. “The Human Phenotype Ontology: Semantic Unification of Common and
Rare Disease.” The American Journal of Human Genetics (2015). http://www.researchgate.net/publication/279631558_The_Human_Phenotype_Ontology_Semantic_Unification_of_Common_and_Rare_Disease
• Ramos-Casals, Manuel et al. “Google-driven search for big data in autoimmune geoepidemiology: Analysis of 394,827 patients with systemic autoimmune diseases.” Autoimmunity Reviews (2015). http://www.researchgate.net/publication/274513423_Google-driven_search_for_big_data_in_autoimmune_geoepidemiology_Analysis_of_394827_patients_with_systemic_autoimmune_diseases
© 2015 - All rights reserved.
Big Data: Top-Down Bottom-Up Convergence• Stanberry, Larissa et al. “Integrative Analysis of Longitudinal Metabolomics Data from a
Personal Multi-Omics Profile.” Metabolites (2013). http://www.researchgate.net/publication/256413714_Integrative_Analysis_of_Longitudinal_Metabolomics_Data_from_a_Personal_Multi-Omics_Profile
• Xu et al. “Comprehensive serological profiling of human populations using a synthetic human virome.” Science (2015). http://www.researchgate.net/publication/277778734_Viral_immunology._Comprehensive_serological_profiling_of_human_populations_using_a_synthetic_human_virome
© 2015 - All rights reserved.
Systems Biology and Personal Data• Kim, Ho-Youn, Hae-Rim Kim, and Sang-Heon Lee. “Advances in Systems Biology Approaches
for Autoimmune Diseases.” Immune Network 14.2 (2014): 73–80. http://www.pubfacts.com/detail/24851096/Advances-in-systems-biology-approaches-for-autoimmune-diseases
• Leung, Elaine et al. “Network-based drug discovery by integrating systems biology and computational technologies.” Briefings in Bioinformatics 14.4 (2013): 491–505. http://www.researchgate.net/publication/230644421_Network-based_drug_discovery_by_integrating_systems_biology_and_computational_technologies
• Schork, and Nicholas. “Personalized medicine: Time for one-person trials.” Nature News (2015). http://www.researchgate.net/publication/275668184_Personalized_medicine_Time_for_one-person_trials
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Systems Biology and Personal Data• Smarr, Larry. “Quantifying your body: A how to guide from a systems biology perspective.” ‐
Biotechnology Journal 7.8 (2012): 980–991. http://www.researchgate.net/publication/230658785_Quantifying_your_body_A_how-to_guide_from_a_systems_biology_perspective
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Predictive Modeling• Ahmed, Usman et al. “Biomarkers of early stage osteoarthritis, rheumatoid arthritis and
musculoskeletal health.” Scientific Reports (2015). http://www.researchgate.net/publication/273781983_Biomarkers_of_early_stage_osteoarthritis_rheumatoid_arthritis_and_musculoskeletal_health
• Chopra, Monika, Kulwinder Singh, and Neelam Verma. “AUTOIMMUNE AND INFLAMMATORY DISEASES BIOMARKERS.” International Journal of Biomedical and Advance Research (2012). http://www.researchgate.net/publication/272761554_AUTOIMMUNE_AND_INFLAMMATORY_DISEASES_BIOMARKERS
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Predictive Modeling • Dagan, Amir, and Shaye Kivity. "Cutting edge data in autoimmunity: as presented in the 9th
international congress of autoimmunity." Cutting Edge in Autoimmunity 61.1 (2015): 1-3. Web http://www.researchgate.net/publication/269177309_Cutting_edge_data_in_autoimmunity_as_presented_in_the_9th_international_congress_of_autoimmunity
• Jaberi Douraki, Majid et al. “Autoimmune responses in T1DM: quantitative methods to ‐understand onset, progression, and prevention of disease.” Pediatric Diabetes 15.3 (2014): 162–174. http://www.researchgate.net/publication/262339657_Autoimmune_responses_in_T1DM_quantitative_methods_to_understand_onset_progression_and_prevention_of_disease
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Predictive Modeling• Lee, James, and Kenneth Smith. “Prognosis in autoimmune and infectious disease: new insights
from genetics.” Clinical & Translational Immunology 3.5 (2014): 15. http://www.researchgate.net/publication/269715667_Prognosis_in_autoimmune_and_infectious_disease_new_insights_from_genetics
• Norman, Jason et al. “Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease.” Cell (2015). http://www.researchgate.net/publication/271448551_Disease-Specific_Alterations_in_the_Enteric_Virome_in_Inflammatory_Bowel_Disease
• Stanberry, Larissa et al. “Integrative Analysis of Longitudinal Metabolomics Data from a Personal Multi-Omics Profile.” Metabolites (2013). http://www.researchgate.net/publication/256413714_Integrative_Analysis_of_Longitudinal_Metabolomics_Data_from_a_Personal_Multi-Omics_Profile
•
© 2015 - All rights reserved.
Autoimmunity: Sorting through the Multiple Causes
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Causes of Autoimmunity: Genetics & Genomics • Archer, Nassif, and O’Brien. “Genetic variants of SLC11A1 are associated with both
autoimmune and infectious diseases: systematic review and meta-analysis.” Genes and Immunity (2015). http://www.researchgate.net/publication/274724921_Genetic_variants_of_SLC11A1_are_associated_with_both_autoimmune_and_infectious_diseases_systematic_review_and_meta-analysis
• Dieli-Crimi, Romina, Carmen Cénit, and Concepción Núñez. “The genetics of celiac disease: A comprehensive review of clinical implications.” Journal of Autoimmunity (2015). http://www.mdlinx.com/allergy-immunology/medical-news-article/2015/07/21/celiac-disease-epigenetics-gene-expression-hla/6248457/
• Farh, Kyle et al. “Genetic and epigenetic fine mapping of causal autoimmune disease variants.” Nature 518.7539 (2015): 337–43. http://www.nature.com/nature/journal/v518/n7539/full/nature13835.html
© 2015 - All rights reserved.
Causes of Autoimmunity: Genetics & Genomics • Gupta, Bhawna, and David Hawkins. “Epigenomics of autoimmune diseases.” Immunology and
Cell Biology 93.3 (2015): 271–276. http://www.nature.com/icb/journal/v93/n3/full/icb201518a.html
• Lee, James, and Kenneth Smith. “Prognosis in autoimmune and infectious disease: new insights from genetics.” Clinical & Translational Immunology 3.5 (2014). http://www.nature.com/cti/journal/v3/n5/full/cti20148a.html
• Marson, Alexander, William Housley, and David Hafler. “Genetic basis of autoimmunity.” Journal of Clinical Investigation (2015). http://www.ncbi.nlm.nih.gov/pubmed/26030227
• McGarvey, Peter et al. “In silico analysis of autoimmune diseases and genetic relationships to vaccination against infectious diseases.” BMC Immunology 15.1 (2014): 61. http://www.researchgate.net/publication/267753091_Genetic_and_epigenetic_fine_mapping_of_causal_autoimmune_disease_variants
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Causes of Autoimmunity: Genetics & Genomics • Mikacenic, Carmen et al. “Cutting edge: Genetic variation in TLR1 is associated with Pam3CSK4-
induced effector T cell resistance to regulatory T cell suppression.” Journal of immunology (Baltimore, Md. : 1950) 193.12 (2014): 5786–90. http://www.researchgate.net/publication/267931277_Cutting_Edge_Genetic_Variation_in_TLR1_Is_Associated_with_Pam(3)CSK(4)-Induced_Effector_T_Cell_Resistance_to_Regulatory_T_Cell_Suppression
• “NIH researchers reveal link between powerful gene regulatory elements and autoimmune diseases.” National Institutes Into Health (2015). http://www.nih.gov/news/health/feb2015/niams-17.htm
• Oftedal, Bergithe et al. “Dominant Mutations in the Autoimmune Regulator AIRE Are Associated with Common Organ-Specific Autoimmune Diseases.” Immunity (2015). http://www.researchgate.net/publication/278792204_Dominant_Mutations_in_the_Autoimmune_Regulator_AIRE_Are_Associated_with_Common_Organ-Specific_Autoimmune_Diseases
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Causes of Autoimmunity: Genetics & Genomics • Parkes, Miles et al. “Genetic insights into common pathways and complex relationships
among immune-mediated diseases.” Nature Reviews Genetics (2013). http://www.researchgate.net/publication/255689274_Genetic_insights_into_common_pathways_and_complex_relationships_among_immune-mediated_diseases._Nat_Rev_Genet
• Richardson, Bruce, and Dipak Patel. “Epigenetics in 2013: DNA methylation and miRNA—key roles in systemic autoimmunity.” Nature Reviews Rheumatology 10.2 (2014): 72–74. http://www.researchgate.net/publication/255689274_Genetic_insights_into_common_pathways_and_complex_relationships_among_immune-mediated_diseases._Nat_Rev_Genet
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Causes of Autoimmunity: Genetics & Genomics • Ritchie, Marylyn et al. “Methods of integrating data to uncover genotype-phenotype
interactions.” Nature Reviews Genetics (2015). http://www.researchgate.net/publication/270910379_Methods_of_integrating_data_to_uncover_genotype-phenotype_interactions
• Wang, Xuefeng, Eric Xing, and Daniel Schaid. “Kernel methods for large-scale genomic data analysis.” Briefings in bioinformatics 16.2 (2015): 183–92. http://www.researchgate.net/publication/264164029_Kernel_methods_for_large-scale_genomic_data_analysis
• Yang, Chin-An, and Bor-Luen Chiang. “Inflammasomes and human autoimmunity: A comprehensive review.” Journal of Autoimmunity (2015). http://www.researchgate.net/publication/49688650_Inflammasomes_and_autoimmunity
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Causes of Autoimmunity: Environment• Ballantyne, Sarah. The Paleo Approach. Las Vegas: Victory Belt Publishing Inc, 2013. Print.
• Blum, Susan. The Immune System Recovery Plan. New York: Scribner, 2013. Print.
• Bogdanos, Dimitrios et al. “Infectome: A platform to trace infectious triggers of autoimmunity.” Autoimmunity Reviews 12.7 (2013): 726740. http://www.researchgate.net/publication/233983999_Infectome_A_platform_to_trace_infectious_triggers_of_autoimmunity
• Campbell, Andrew. “Autoimmunity and the Gut.” Autoimmune Diseases 2014 (2014): 152428. http://www.researchgate.net/publication/262886119_Autoimmunity_and_the_Gut
• Horton, Daniel et al. “Antibiotic Exposure and Juvenile Idiopathic Arthritis: A Case–Control Study” Rutgers University (2015). http://www.sciencedaily.com/releases/2015/07/150720092257.htm
© 2015 - All rights reserved.
Causes of Autoimmunity: Environment• Javierre, Hernando, and Ballestar. “Environmental triggers and epigenetic deregulation in
autoimmune disease.” (2011). http://www.researchgate.net/publication/51976993_Environmental_triggers_and_epigenetic_deregulation_in_autoimmune_disease
• Nakazawa Jackson, Donna. The Autoimmune Epidemic. New York: A Touchstone Book, 2008. Print.
• Obregon-Tito, Alexandra et al. “Subsistence strategies in traditional societies distinguish gut microbiomes.” Nature Communications 6 (2015). http://www.researchgate.net/publication/274071457_Subsistence_strategies_in_traditional_societies_distinguish_gut_microbiomes
© 2015 - All rights reserved.
Causes of Autoimmunity: Environment• Terato, Kuniaki, Christopher Do, and Hiroshi Shionoya. “Slipping through the Cracks: Linking Low
Immune Function and Intestinal Bacterial Imbalance to the Etiology of Rheumatoid Arthritis.” Autoimmune Diseases 2015 (2015). http://www.hindawi.com/journals/ad/2015/636207/
• Velasquez-Manoff, Moises. An Epidemic of Absence. New York: Scribner, 2012. Print.
• Vojdani, Aristo. “A Potential Link between Environmental Triggers and Autoimmunity.” Autoimmune Diseases 2014 (2014). http://www.researchgate.net/publication/273894696_Slipping_through_the_Cracks_Linking_Low_Immune_Function_and_Intestinal_Bacterial_Imbalance_to_the_Etiology_of_Rheumatoid_Arthritis
• Vojdani, Aristo, Michael Pollard, and Andrew Campbell. “Environmental Triggers and Autoimmunity.” Autoimmune Diseases 2014 (2014): 798029. http://www.researchgate.net/publication/271221861_Environmental_Triggers_and_Autoimmunity
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Causes of Autoimmunity: Hormones• Blum, Susan. The Immune System Recovery Plan. New York: Scribner, 2013. Print.
• Perlmutter, David. Grain Brain. New York: Little, Brown and Company, 2013. Print.
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Causes of Autoimmunity: Pathogenesis • Blum, Susan. The Immune System Recovery Plan. New York: Scribner, 2013. Print.
• Brady, David M. "Molecular Mimicry, the Hygiene Hypothesis, Stealth Infections and Other Examples of Disconnect between Medical Research and the Practice of Clinical Medicine in Autoimmune Disease" Open Journal of Rheumatology and Autoimmune Disease (2013): 33-39. Web. http://www.researchgate.net/publication/262068728_Molecular_Mimicry_the_Hygiene_Hypothesis_Stealth_Infections_and_Other_Examples_of_Disconnect_between_Medical_Research_and_the_Practice_of_Clinical_Medicine_in_Autoimmune_Disease>
• Brusca, Abramson, and Scher. “Microbiome and mucosal inflammation as extra-articular triggers for rheumatoid arthritis and autoimmunity.” (2014). http://www.researchgate.net/publication/258700816_Brusca_S.B._Abramson_S.B.__Scher_J.U._Microbiome_and_mucosal_inflammation_as_extra-articular_triggers_for_rheumatoid_arthritis_and_autoimmunity._Curr._Opin._Rheumatol._26_101-107
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Causes of Autoimmunity: Pathogenesis • Craft, Joe, and Saeed Fatenejad. “Self antigens and epitope spreading in systemic
autoimmunity.” Arthritis & Rheumatism 40.8 (1997): 1374–1382. http://onlinelibrary.wiley.com/doi/10.1002/art.1780400803/abstract
• Cusick, Libbey, and Fujinami. “Molecular mimicry as a mechanism of autoimmune disease” (2012). http://www.ncbi.nlm.nih.gov/pubmed/22095454
• Farh, Kyle et al. “Genetic and epigenetic fine mapping of causal autoimmune disease variants.” Nature 518.7539 (2015): 337–43. http://www.nature.com/nature/journal/v518/n7539/full/nature13835.html#close
• McLean, Mairi et al. “Does the microbiota play a role in the pathogenesis of autoimmune diseases?” Gut (2014). http://www.researchgate.net/publication/268790142_Does_the_microbiota_play_a_role_in_the_pathogenesis_of_autoimmune_diseases
© 2015 - All rights reserved.
Causes of Autoimmunity: Pathogenesis • Roederer, Mario et al. “The genetic architecture of the human immune system: a
bioresource for autoimmunity and disease pathogenesis.” Cell 161.2 (2015): 387–403. http://www.cell.com/cell/abstract/S0092-8674(15)00247-0?rss=yes
• Rosenblum, Michael D., Kelly A. Remedios, and Abul K. Abbas. "Mechanisms of Human Autoimmunity." The Journal of Clinical Investigation 125.6 (2015): 2228-2233. Web. http://www.researchgate.net/publication/275217316_Mechanisms_of_human_autoimmunity
• Smilek, Dawn, and William Clair. “Solving the puzzle of autoimmunity: critical questions.” F1000Prime Reports 7 (2015). http://www.ncbi.nlm.nih.gov/pubmed/25750735
© 2015 - All rights reserved.
Causes of Autoimmunity: Pathogenesis • Theofilopoulos, Argyrios, Wolfgang Dummer, and Dwight Kono. “T cell homeostasis and
systemic autoimmunity.” Journal of Clinical Investigation 108.3 (2001): 335-340. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC209358/
• Wen, Haitao, Edward Miao, and Jenny Ting. “Mechanisms of NOD-like Receptor-Associated Inflammasome Activation.” Immunity 39.3 (2013). http://www.sciencedirect.com/science/article/pii/S1074761313003890
© 2015 - All rights reserved.
Causes of Autoimmunity: Microbiome Diet• Lerner, Aaron, and Torsten Matthias. “Changes in intestinal tight junction permeability
associated with industrial food additives explain the rising incidence of autoimmune disease.” Autoimmunity Reviews (2015). http://www.researchgate.net/publication/272186939_Changes_in_intestinal_tight_junction_permeability_associated_with_industrial_food_additives_explain_the_rising_incidence_of_autoimmune_disease
• Manzel, Arndt et al. “Role of ‘Western Diet’ in Inflammatory Autoimmune Diseases.” Current Allergy and Asthma Reports 14.1 (2013): 404. http://www.researchgate.net/publication/259335985_Role_of_Western_Diet_in_Inflammatory_Autoimmune_Diseases
• Perlmutter, David. Grain Brain. New York: Little, Brown and Company, 2013. Print.
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Causes of Autoimmunity: Microbiome Diet• Sonnenburg, Erica, and Justin Sonnenburg. “Starving our Microbial Self: The Deleterious
Consequences of a Diet Deficient in Microbiota-Accessible Carbohydrates.” Cell Metabolism (2014). http://www.researchgate.net/publication/265055722_Starving_our_Microbial_Self_The_Deleterious_Consequences_of_a_Diet_Deficient_in_Microbiota-Accessible_Carbohydrates
• Youm, Yun-Hee et al. “The ketone metabolite β-hydroxybutyrate blocks NLRP3 inflammasome–mediated inflammatory disease.” Nature Medicine 21.3 (2015): 263–9. http://www.researchgate.net/publication/272354552_The_ketone_metabolite_-hydroxybutyrate_blocks_NLRP3_inflammasomemediated_inflammatory_disease
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Prevention and Lifestyle Modifications: What We Can Do
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications• “Translating the Science of Wellness and Healing.” Samueli Institute. 2011.
https://www.samueliinstitute.org/File%20Library/About%20Us/SP11_lowres.pdf
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Food• Ballantyne, Sarah. The Paleo Approach. Las Vegas: Victory Belt Publishing Inc, 2013. Print.
• Blum, Susan. The Immune System Recovery Plan. New York: Scribner, 2013. Print.
• Charlebois, Ashley, Greg Rosenfeld, and Brian Bressler. “The Impact of Dietary Interventions on the Symptoms of Inflammatory Bowel Disease: A Systematic Review.” Critical Reviews in Food Science and Nutrition (2015). http://www.researchgate.net/publication/270651195_The_Impact_of_Dietary_Interventions_on_the_Symptoms_of_Inflammatory_Bowel_Disease_A_Systematic_Review
• Clarke, and Mullin. “A Review of Complementary and Alternative Approaches to Immunomodulation.” Nutrition in Clinical Practice 23.1 (2008): 49–62. http://www.researchgate.net/publication/5647579_A_review_of_complementary_and_alternative_approaches_to_immunomodulation
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Food• Halmos, Emma, and Peter Gibson. “Dietary management of IBD—insights and advice.” Nature
Reviews Gastroenterology & Hepatology 12.3 (2015): 133–146. http://www.researchgate.net/publication/272083767_Dietary_management_of_IBDinsights_and_advice
• LeBlanc et al. “Bacteria as vitamin suppliers to their host: a gut microbiota perspective” (2013). http://www.researchgate.net/publication/230782474_Bacteria_as_vitamin_suppliers_to_their_host_A_gut_microbiota_perspective
• Mullin, Gerard and Kathie Swift. The Inside Tract. New York: Rodale, 2011. Print.
• Nakazawa Jackson, Donna. The Autoimmune Epidemic. New York: A Touchstone Book, 2008. Print.
• Perlmutter, David. Grain Brain. New York: Little, Brown and Company, 2013. Print.
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Food• Sanfilippo, Diane. Practical Paleo: a customized approach to health and a whole-foods
lifestyle. Las Vegas: Victory Belt Publishing Inc, 2012. Print.
• Subramanian, Sathish et al. “Cultivating Healthy Growth and Nutrition through the Gut Microbiota.” Cell (2015). http://www.researchgate.net/publication/274259147_Cultivating_Healthy_Growth_and_Nutrition_through_the_Gut_Microbiota
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Prevention and Lifestyle Modifications: Exercise• Brourman, Sherry, and Randy Rodman. Walk Yourself Well. www.SherryBrourman.com.
2005. Print.
• Perlmutter, David. Grain Brain. New York: Little, Brown and Company, 2013. Print.
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Meditation• Blum, Susan. The Immune System Recovery Plan. New York: Scribner, 2013. Print.
• Nakazawa Jackson, Donna. The Autoimmune Epidemic. New York: A Touchstone Book, 2008. Print.
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Digital Health• Altshuler, David and et al. "Creating a Global Alliance to Enable Responsible Sharing of
Genomic and Clinical Data." 2013 June 3. http://genomicsandhealth.org/about-the-global-alliance/key-documents/white-paper-creating-global-alliance-enable-responsible-shar
• Cnossen, Rick, Wendy Nilsen, et al. "White Paper: Data Collection and Mobile Technologies." Precision Medicine Meeting (2014): 1-13 Web http://www.nih.gov/precisionmedicine/whitepapers/Data-Collection-Mobile-Technologies.pdf
• Elenko, Eric, Lindsay Underwood, and Daphne Zohar. “Defining digital medicine.” Nature Biotechnology (2015). http://www.researchgate.net/publication/276208474_Defining_digital_medicine
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Digital Health• Housman, Dan. "Marketing Research: Collaboration Proclamation." Medical Marketing &
Media (2015): 36- 37. Web. http://www.mmm-online.com/features/marketing-research-collaboration-proclamation/article/400196/
• Maecker, Holden, Tamsin M. Lindstrom, and et al. "New Tools for Classification and Monitoring of Autoimmune Diseases." Nature Reviews Rheumatology. 8.1 (2012): 317-328. Web http://www.researchgate.net/publication/225078353_New_tools_for_classification_and_monitoring_of_autoimmune_diseases
© 2015 - All rights reserved.
Prevention and Lifestyle Modifications: Digital Health• Margolis, Peter, Laura Peterson, and Michael Seid. “Collaborative Chronic Care Networks
(C3Ns) to transform chronic illness care.” Pediatrics 131.Supplement 4 (2013): S219–S223. http://www.researchgate.net/publication/269912722_Collaborative_Chronic_Care_Networks_(C3Ns)_to_Transform_Chronic_Illness_Care
• Milani, Richard, and Carl Lavie. “Health care 2020: reengineering health care delivery to combat chronic disease.” The American journal of medicine 128.4 (2014): 337–43. http://www.researchgate.net/publication/268692852_Health_Care_2020_Reengineering_Health_Care_Delivery_to_Combat_Chronic_Disease
• Topol, Eric. The Patient Will See You Now. New York: Basic Books, 2015. Print.
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