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Project status

Welcome to the Marshall ProtocolA curative medical treatment for chronic inflammatory disease. Based on the Marshall Pathogenesis. Knowledge Base (MPKB)! Here is a chart of the progress of the project. Each article in the KB is tagged with a status badge - both on the working home page (this page) and in the “notes and comments” section at the bottom of each page. Those articles in their initial stages are tagged with a red badge while those that are ready for publication have a purple badge. Different colors in between indicate the badges are in an intermediary stage of completion.

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Outline of content

0. Resources for physicians

Resources for physicians e73 e145
- Physicians' concerns about the MP f136 f137 f138
- Notice for emergency medical personnel

1. Resources for patients

Resources for patients
Intro to the Marshall Pathogenesis
Intro to the Marshall Protocol
Duration of MP
patient interviews on Bacteriality
statistics on the MP f323
assessing published literature s149 s141 s151
- palliative vs. curative f227 f225
- animal models s154
- Differences between in vitro, in vivo, and in silico studies s153 s229
grappling w/ uncertainty about the MP f274
cost of the MP f159
medical abbreviations e256
glossary e25
translations of MP materials into foreign languages
- Spanish translations s256 s257
- French translations s277 s278 s279 s280 s281 s282
- Dutch translation
- Japanese translation

2. Autoimmunity Research Foundation

3. Starting the Protocol

Starting the protocol e4
pre-MP checklist
Working with a Marshall Protocol physician f121 e140
- finding a physician e134 e141
- doctors list e134 e141
- doctors list e134 e141
- Convincing the reluctant doctor to prescribe the Marshall Protocol
therapeutic probe f341 e136
list of safety warnings about the MP e6

4. Diseases

Note¹

Diseases
Members & diagnoses
aging s259 s263
- Presentations and publications
  - see Aging 2008 presentations
Addison's Disease
allergies and sensitivities f283
Alzheimer's Disease and dementia s260
- Patient experiences s261
alopecia
amylotrophic lateral sclerosis (ALS, Lou Gehrig's Disease) e245 s322 s323 s324
ankylosing spondylitis
anorexia and bulimia s60
- Symptoms
  - see loss of appetite
anxiety f248 s62
asthma s337
autism f13
bipolar disease s67 s71
- mania
- see depression
cancer s124 s137
- Evidence of infectious cause s115 s112 s129
  - inflammationThe complex biological response of vascular tissues to harmful stimuli such as pathogens or damaged cells. It is a protective attempt by the organism to remove the injurious stimuli as well as initiate the healing process for the tissue. s107 s114 s119
- Other treatments
  - see chemotherapy
- Other research s116 s117 s118 s128 s135 s133 s128 s130
- Tests & diagnosis f194 s111
  - sarcoidosis can cause false positives for cancer s56
  - granulomas versus cancer s126
- Types
  - bladder s131
  - breast s108
  - colorectal s136
  - colon s123 see also colonoscopy
  - eye s127
  - Hodgkin's Disease s120
  - liver s125
  - lung s122
  - ovarian s121
  - prostate s110
  - skin s109
cardiac (heart) disease F14 s74 s80
- Tests & diagnosis
  - see C-reactive protein (CRP)
- Management
  - see pacemakers
- Types
  - congestive heart failure f7 s75
  - coronary disease (atherosclerotic heart disease, atherosclerosis) s72 s89
  - myocarditis s77
- Other treatmentss
  - see fat/cholesterol restriction
cat scratch fever
cataracts s5
celiac disease
chronic fatigue syndrome (CFS/CFIDS) f297 s186 s194 s195
- classic history s188
- degree of illness and length of treatment s190 s191 s236
- Diagnosis s197 s196 s199
- Patient experiences s187 s192
- Other treatments
  - see anti-virals
co-infections f67 see also infections, acute
- bacteria
  - borrelia see borreliosis
  - Helicobacter pylori f69
  - rickettsia and mycobacteria f73
- fungi
  - candida, yeast and fungi f70 f220
  - Patient experiences f221
- parasites
  - intestinal parasites f77
  - protozoan parasites
    - babesia f75
- viruses f76 f68
  - Epstein-Barr virus
  - hepatitis
- see vitamin D test results and co-infections
Crohn's Disease e244
- Evidence of infectious cause s299 s302 s300
- Symptoms
  - see bloating and gas
  - see constipation
  - see diarrhea
  - see nausea and vomiting
  - see weight loss
- Patient experiences s301
- Relevant presentations s303
- vitamin D s305 s304
cystic fibrosis
depression s61
- Management f103 s372
- Other treatments
  - see sunlight
- Patient experiences s347 s348
diabetes s174 s177 s178
- see actions of Benicar
- Patient experiences s176
- Tests & diagnosis s175
- pancreatic transplants have a high failure rate s181
- symptoms
  - eye problems s180
epilepsy (seizures) s70
fibromyalgia
- Diagnosis
  - PTLDS, fibromyalgia can mask as s214
glaucoma s6
Grave’s disease
gum disease see periodontal disease
Hashimoto’s Thyroiditis
- bone health, thyroid function effect on s206
- hyperthyroidism s201
- hypothyroidism s200
  - Wilson's syndrome s208
- Other treatments
  - see thyroid supplementation
- Patient experiences s209 s354 s355 s356 s357
- Th1 inflammationThe complex biological response of vascular tissues to harmful stimuli such as pathogens or damaged cells. It is a protective attempt by the organism to remove the injurious stimuli as well as initiate the healing process for the tissue. and thyroid hormones s204 s203
HIV and AIDS s329 s330 s331 s332 s333 s334
hypertension
infections, acute
- measles f170 e95
irritable bowel syndrome (IBS)
- Symptoms
  - see bloating and gas
  - see constipation
  - see diarrhea
  - see nausea and vomiting
kidney stones
kidney disease
- Patient experiences f109
learning disabilities (ADHD, ADD, dyslexia)
lupus
- minocyclineBacteriostatic antibiotic used by Marshall Protocol patients. cause lupus? f118 f205
Lyme Disease s212 s221
- borreliosis f72 s219 s232 s235 s225 s228 s247
- business of “curing” Lyme s231
- cyst and coccoid forms s217 s353
- see donation of blood…
- neurological manifestations s63 s227
- Diagnosis s215 s224 s233 s238 s240
  - disability and Lyme s216 s292
- see in vivoA type of scientific study that analyzes an organism in its natural living environment. vs. in vitroA technique of performing a given procedure in a controlled environment outside of a living organism - usually a laboratory.
- jigsaw hypothesis s245
- see length of treatment for CFS/Lyme
- Patient experiences s234
- Other treatments
  - see antifungals
  - see high dose antibiotics
- politics s246
- Presentations and publications s222
- Post Treatment Lyme Disease Syndrome s210
  - Patient experiences s211
- reproduction s220 s223
- see tick, what to do when bitten
- up-to-date, info about Lyme is not s237
- see Dr. Marshall's at 30th Anniversary of Lyme
macular degeneration s14
multiple chemical sensitivity (MCS) f167 s283
- hospitalization for MCS patients
- Management
  - see electronic air purifiers
- Patient experiences s287
- metabolic changes in the brain s285
- product labeling s286
multiple sclerosis e243 s317a
- Evidence of infectious cause s311a s316a
  - antibiotics, use of s310a s318a
  - co-infections s306
  - cytokinesAny of various protein molecules secreted by cells of the immune system that serve to regulate the immune system. s309
- D-metabolites s307
- Diagnosis s308
- Other treatments
  - see interferon
- Patient experiences s315a
- Symptoms
  - see fatigue
obesity s265 f289
- childhood obesity s273
- Evidence of infectious cause
  - dementia, relation between obesity and s276
  - no causal link between lifestyle and obesity s274
  - regulatory T-cells contribute to Th1 skewness in obesity s271
  - social networks and obesity s272
- firmicutes and CWD species s267
- see mistaken consensus
- Other treatments
  - see diet pills
  - see probiotics
- Patient experiences s268 s270
obsessive compulsive disorder (OCD) s64
osteoarthritis e246 s249
osteoporosis and osteopenia
Parkinson's Disease
periodontal disease s171
- Types
  - gum disease
- Symptoms
  - see gingivitis
peripheral neuropathy
pernicious anemia (B12 deficiency)
psoriasis
pulmonary hypertension
Raynaud's syndrome s373
Reactive arthritis (Reiter's syndrome)
restless leg syndrome
rheumatoid arthritis F17
- Other treatments s254
  - see high-dose antibiotics
- Patient experiences s250
rickets (osteomalacia) e63
sarcoidosis e240 s18
scleroderma e247
schizophrenia s66
Secondary hyperparathyroidism
Sjogren's syndrome
stroke s86 s343
thyroid disease see Hashimoto's Thyroiditis
tinnitus see ears
ulcerative colitis s0
uveitis s0

5. Symptoms

Symptoms
cardiac f4 f5 s85
- arrhythmia
  - atrial fibrillation F8
    - see OlmesartanMedication taken regularly by patients on the Marshall Protocol for its ability to activate the Vitamin D Receptor. Also known by the trade name Benicar. in atrial fibrillation
  - heart palpitations
  - tachycardia f6
- cardiac immunopathology s76
gastrointestinal
- appetite, loss of e175
  - foods to help you gain weight
  - weight change f288
- bloating and gas
- constipation f287
- diarrhea f164
- liver and gall bladder f165 f201
- rectal
  - anal fissures
  - bleeding f256
    - Patient experiences f257
  - hemorrhoids
- upper gastrointestinal symptoms f147
  - nausea and vomiting
  - stomach and esophagus
- yeast infection and gluten sensitivity
head and neck
- see mental and neurological
- ears f119
- eyes f306 s3 s13
  - dry eyes
  - blurry vision
  - detached retina s16
  - Management s4
    - eye drops s10
  - optical phenomena s7
  - Patient experiences s2 s11
  - see also photosensitivityAbnormal sensitivity to sunlight and bright lights. Also referred to as sun flare or light flare.
  - vasculitis (visibly red conjunctiva) s17
- dental (teeth) and mouth s157
- lymph nodes
  - swollen/enlarged lymph nodes
    - indication of cancer? f210 f212
    - Patient experiences f213
- nosebleeds f260
- thirst
- throat
hormonal including sexual and endocrine
- low blood pressure
- body temperature
- hot flashes and menopause s336
- sexual
  - libido
  - Patient experiences f162
- night sweats f124
mental and neurological f178 f180 s58 s65 s69
- brain lesions
- cognitive dysfunction
- headaches and migraine headaches s100
- neurological immunopathology s68 f179 f180
  - Patient experiences f179 f273
- fatigue
- paresthesia f272
- peripheral neuropathy
- see photosensitivityAbnormal sensitivity to sunlight and bright lights. Also referred to as sun flare or light flare.
- insomnia and poor sleep
- seizures
muscle and bone
- muscle loss see weight loss
- pain s90
- see vitamin D and bone density
respiratory and breathing F18, F19, F21
- cold, flu and fever f314
- coughing
  - coughing and fainting (syncope) f149 f278
  - intolerable cough f148
  - Management f174
    - see guaifenesin
    - see oxygen, supplemental
- pneumothorax f175
- preventing acute lung infection for those who have poor lung function f218
- respiratory immunopathology f22 f128
skin s290
- edema (swelling) f219
- lumps f217
- Patient experiences f92
- rash f89 f90 f91
- vitilligo e248
urinary
Gray hair
other
- anemia f252
- fibrosis f228
  - effect on pace of tissue regeneration f232
- hair and nails f209
- see hypervitaminosis D

6. Diagnostic tests

Diagnostic tests f249
lipid profile
- cholesterol f195 f197
  - LDL (low-density lipoproteins)
  - HDL (high-density lipoproteins)
  - total cholesterol
- triglycerides f195
CBC (complete blood count) with differential
- basophils
- eosinophils
- ferritin f253
- hematocrit
- hemoglobin
- lymphocytes
- MCV (mean corpuscular volume)
- MCHC (mean corpuscular hemoglobin concentration)
- mean platelet volume
- natural killer cells
- neutrophils
- platelet count
- RDW (red cell distribution width)
- WBC (white blood cells) f317
electrolytes
- carbon dioxide (CO2)
- chloride
- potassium
  - factors influencing accuracy of test f135
  - what to do when elevated f132
  - Patient experiences f134
- sodium
  - what to do when sodium is low f145
enzymes f200
- albumin
- angiotensin-converting enzyme (ACE) f258 f259
- alkaline phosphatase (ALP)
- aspartate aminotransferase (AST)
- AST is also known as: Serum glutamic-oxaloacetic transaminase (SGOT)
- alanine aminotransferase (ALT) f202
- creatinine phosphokinase (CPK)
- gamma-glutamyl transferase (GGT)
- GGT is also known as gamma-glutamyl transpeptidase(GGTP)
- lipase
glycohemoglobin
- hemoglobin a1c (HbA1c) s182
hormones including thyroid
- adrenal function e232 e233
  - adrenocorticotropic hormone (ACTH)
  - cortisol
- C-peptide
- Test: Insulin
- parathyroid hormone (PTH)
- thyroid-stimulating hormone (TSH)
- triiodothyronine (T3)
- thyroxine (T4)
imaging f192
- bone density s376 s378 s379
  - dual energy x-ray absorptiometry (DEXA) f282
- colonoscopy s338
- CT (computed tomography) f190
- MRI (magnetic resonance imaging) f190
- x-ray
  - chest f189
lung (pulmonary) function f117 f229
minerals
other
- antinuclear antibodies (ANA) f250
- blood pressure
  - blood pressure monitors e148
- cytokinesAny of various protein molecules secreted by cells of the immune system that serve to regulate the immune system. e25
- homocysteine
- spinal tap
proteins
- total protein
- C-reactive protein (CRP) s73
- hs-CRP (high sensitivity C-reactive protein)
urinalysis
- bicarbonate
- bilirubin
- SED (erythrocyte sedimentation) rate, aka ESR
- pH
vitamins
- B vitamins
- vitamin D e24
  - when and how often to test f214
  - acceptable labs e23
    - letter from Quest diagnostics e22 e26 e27
  - converting between metric and English standard
  - co-infections f343
  - Vitamin D metabolite calculator
  - 25-D e28
  - 1,25-D e21
  - D metabolites instructions
- see vitamin D and bone density
waste products
- bilirubin
- blood urea nitrogen (BUN)
  - kidney tests worse since starting MP f106
  - see using lab tests to track immunopathologyA temporary increase in disease symptoms experienced by Marshall Protocol patients that results from the release of cytokines and endotoxins as disease-causing bacteria are killed.
- creatinine
  - what do when creatinine and potassium rises f110
- creatinine clearance test
- glucose
  - blood glucose meters e149
- uric acid

7. Marshall Protocol

11. Social and psychological aspects

12. Special issues

Special issues
children and the MP f56 f57
disability s291
donation of blood, bone marrow, organs or other tissues f245 f246 f247 s239 s359
hospital and emergencies
pregnancy and conception f24 s39
specialists, working with
- dentist
- optometrist
- surgeon
- tattoos f63
tick, what to do when bitten s218 s242
vaccines and TB tests f61
work
- letter to employer f9
- see protecting eyes at work
- see working while on disability

13. Science behind Pathogenesis

Science behind pathogenesis
- Th1 bacterial pathogens
  - Detecting bacteria with molecular methods
  - biofilm bacteria
  - L-form bacteria e74 e100 e101 e102 s230
- Th1 spectrum disorder e77 e114 e242 e84 f183 e82 e87 e241 s342
- successive infection and pea soup f171 e90 e91 e98 f168
- transmission
- Incidence and prevalence of chronic disease
- familial aggregation
- Koch's postulates
- horizontal gene transfer e85
- Innate immune response and Th1 inflammation
- vitamin D e50 e51 e52 e54 f318 e251 e68 e15 e17 e18 e53 f184 e62 e67 s150 e60 f348
- evolutionary perspective on chronic disease
- Rationale for pathogens as a cause for disease
- alternate models for chronic disease
  - spontaneous remission is a myth f206 f207
  - autoimmune theory of disease
  - environmental causes
  - genetic predisposition f127 s320a s253

14. Science behind Protocol

Science behind protocol
- immunopathology e112
- Science behind Marshall Protocol antibiotics see applications to the FDA for orphan drug status e99 f123 f240
  - Safety of MP antibiotics e88
  - Pulsed low dosing of antibiotics e96 f335
- Science behind olmesartan (Benicar)
  - kidney disease f107 f80 f86 f112 f113 f133
  - safety of high doses f114 f115 e39 e40

15. Publications & presentations

Publications and presentations by Autoimmunity Research Foundation
papers e30 e32
Albert, Proal, and Marshall: Vitamin D: the alternative hypothesis. (2009). Autoimmunity reviews.
- Proal, Albert, and Marshall: Autoimmune disease in the era of the metagenome. (2009). Autoimmunity reviews.
- Blaney, Albert, and Proal: Vitamin D metabolites as clinical markers in autoimmune and chronic disease. (2009). Annals.
- Proal, Albert, and Marshall: Dysregulation of the Vitamin D Nuclear Receptor may contribute to the higher prevalence of some autoimmune diseases in women. (2009). Annals.
- Perez, Albert, and Waterhouse: Reversing Bacteria-Induced Vitamin D Receptor Dysfunction is Key to Autoimmune Disease. (2009). Annals.
- Dr. Trevor Marshall: Vitamin D discovery outpaces FDA decision making. (2008). Bioessays.
- Dr. Trevor Marshall, Dr. Robert Lee, and Frances Marshall: Common angiotensin receptor blockers may directly modulate the immune system via VDR, PPAR and CCR2b. (2006). Theoretical biology and medical modeling.
- Dr. Trevor Marshall and Frances Marshall: Sarcoidosis succumbs to antibiotics - implications for autoimmune disease. (2003). Autoimmunity reviews.
lectures and conference presentations ²
- Amy Proal, Antibodies and infection in the era of metagenome
- Dr. Trevor Marshall, Clinical observations
- Dr. Trevor Marshall, It is time to bury Koch - Infectious Disease transitions to an understanding of the Metagenome
- Dr. Trevor Marshall: Understanding Human Disease requires study of a Metagenome, not just the Human Genome.
- Dr. Trevor Marshall: The Marshall Protocol in a Clinical Environment - Observations from the Initial Cohort.
- 6th International Congress on Autoimmunity at Porto, Portugal; September 2008
  - Amy Proal: Vitamin D induced dysregulation of nuclear receptors may account for higher prevalence of some autoimmune diseases in women; 6th International Congress on Autoimmunity, 2008.
  - Capt. Tom Perez MPH: Bacteria induced Vitamin D Receptor Dysfunction in Autoimmune Disease: Theoretical and practical Implications for Interpretation of Serum Vitamin D Metabolite Levels; 6th International Congress on Autoimmunity, 2008.
  - Dr. Greg Blaney: Vitamin D Metabolites as Clinical Markers in Autoimmune and Chronic Illness; 6th International Congress on Autoimmunity, 2008.
  - Dr. Trevor Marshall: VDR Receptor Competence Induces Recovery from Chronic Autoimmune Disease; 6th International Congress on Autoimmunity, 2008.
- Aging 2008 at Los Angeles, CA, 2008
  - Dr. Trevor Marshall: The VDR nuclear receptor is key to understanding ‘Diseases of the Aging’, Aging 2008, UCLA.
- Dr. Trevor Marshall: A new approach to treating intraphagocytic CWD bacterial pathogens in sarcoidosis, CFS, Lyme and other inflammatory diseases. American Academy of Environmental Medicine, 2006.
- Dr. Trevor Marshall: Molecular static and dynamic analyses reveal flaw in murine model used by US FDA to detect drug carcinogenicity, Days of Molecular Medicine, 2007.
- Dr. Trevor Marshall: Molecular mechanisms are driving the current epidemic of chronic disease, Bio21, 2006.
- Dr. Trevor Marshall: Molecular genomics offers new insight into the exact mechanism of action of common drugs - ARBs, statins and coritcosteroids, Center for Drug Evaluation and Research, Visiting Professor Lecture Series, March 7, 2006.
- Dr. Trevor Marshall: How borrelia evades the immune system, and how we help the immune system kill this Th1 bacterium. 30th Anniversary of Lyme Disease, 2005.
- Dr. Joyce Waterhouse: Vitamins D in chronic disease. Recovering from chronic disease - sarcoidosis, autoimmunity, AIDS and cancers, June 18, 2006.
- talks from LAX conference
- talks from Chicago conference
abstract presentations e31 e35
- Days of Molecular Medicine at Karolinska Institute, Sweden
  - Dr. Trevor Marshall: VDR nuclear receptor is key to recovery from cognitive dysfunction. Days of Molecular Medicine, 2008.
  - Meg Mangin RN: Monitoring cognitively-impaired subjects in an interactive Internet-based clincial trial of a multi-factorial treatment based on a molecular model of chronic disease. Days of Molecular Medicine, 2008.
  - Amy Proal: Cognitive dysfunction in women with chronic fatigue syndrome: examining the role of the endometrium, the nuclear receptors, and the antimicrobial peptides. Days of Molecular Medicine, 2008.
- Dr. Trevor Marshall: Bacterial capnine blocks transcription of human antimicrobial peptides, Metagenomics, 2007.
- Dr. Trevor Marshall: VDR nuclear receptor competence is the key to recovery from chronic inflammatory and autoimmune disease, Days of Molecular Medicine, 2006.
Articles
- Dr. Joyce Waterhouse: The Marshall Protocol for Lyme Disease and other chronic inflammatory conditions, Townsend Letter, April and May 2007.
book chapters
- Dr. Joyce Waterhouse et al. High levels of active 1,25-dihydroxyvitamin D despite low levels of the 25-hydroxyvitamin D precursor — implications of dysregulated vitamin D for diagnosis and treatment of chronic disease. Vitamin D: New Research, 2006.
applications to the FDA for orphan drug status e33
- other presentations, etc.
  - Amy Proal: Introduction to the Marshall Protocol.
    - available on DVD
  - 2008 survey of Marshall Protocol patients with autoimmune diagnoses
- DVDs available of select presentations e34
  - how to purchase them
- papers and presentations targeted for specific groups
  - see materials for doctors
  - see materials to present your insurance company in the event of Benicar denial

Welcome to the Marshall Protocol Knowledge Base (MPKB)!

This is the production version of the Knowledge Base. Here you will find articles in various states of development each of which will one day be made available to the public.

There are a number of ways to find content. Here are your options:

search for it using the search box in the top right corner (note the popout window which suggests matching pagenames)
scroll through the outline of content below
view the hierarchical index
look at the following “tag cloud”

aaem abstracts acute_infections aging alcohol amy_proal animal_models antimicrobial_peptides applications belinda_fenter bio21 bone_density book_chapters calcium capnine carbohydrates cognitive_dysfunction congress_on_autoimmunity contraindicated dentist diseases dmm dr._greg_blaney drinks drug_interactions foods foods_to_avoid frances_marshall genetics herbs horizontal_gene_transfer human_microbiome immunopathology immunosuppressants joyce_waterhouse_phd koch's_postulates light lyme_disease meg_mangin_rn metagenomics murine_model non-mp_treatments olmesartan orphan_drugs osteoporosis palliative papers pathogenesis paul_albert periodontal_disease physical_activity pregnancy presentations recommended_foods resources_for_physicians specialists study_design supplementation_policy supplements symptoms th1_disease thomas_perez tom_perez_mph transmission_of_disease trevor_marshall_phd tutorials videos weight_gain women 2004 2005 2006 2007 2008 2009

Three wikis serving three roles

There a total of three wikis, each of which serves an important role:

Knowledge Base (mpkb.mp-dev.com) - contains all the articles and content; red header (this one)
Project Planning (project.mp-dev.com) - contains plans for this project including style guide, infrastructure, etc.; orange header
Legacy Content (legacy.mp-dev.com) - contains legacy content (side topics, FAQs and essential information) from marshallprotocol.com in searchable format; green header; soon to be phased out.

MPKB design notes

Notes and comments

Those cryptic codes (e.g. “e124”) refer to records at the legacy content table.

Footnotes

¹⁾ Items in here should be diseases, not symptoms. I'm using the MeSH thesaurus as an arbiter.

²⁾ videos at Vimeo

Last modified: 07.02.2009 by paulalbert