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Healthwise Clinical Nutrition
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Welcome to HealthWise Clinical Nutrition

Dr. Mark Flannery is an expert in functional medicine practicing long distance with patients around the world as well as locally in Simi Valley of Los Angeles / Ventura County, CA.

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“Dr. Flannery is an outstanding clinician and teacher. He understands the complex interactions of the body and has the ability to clinically manage the most difficult cases.” —Datis Kharrazian, DHSc, DC, MNeuroSci, author of Why Do I Still Have Thyroid Symptoms? and Why Isn’t My Brain Working?

Specializing in helping those that suffer from:

  • Hashimoto’s hypothyroidism

  • Autoimmune disease

  • Chronic conditions

  • Gardasil and other vaccine damage

Dr. Mark Flannery, DC, FAAIM, DCBCN, DCCN, CNS has helped many patients suffering with Hashimoto’s hypothyroidism, multiple sclerosis, rheumatoid arthritis, vitiligo, chronic fatigue, fibromyalgia, digestive disorders and other autoimmune, chronic, and neuro-inflammatory conditions, improve their quality of life. He also specializes in helping patients who have had adverse reactions to the Gardasil and other vaccines.

Dr. Flannery lectures as an educator and scientific speaker for Datis Kharrazian, DHSc, DC, MNeuroSci, a pioneer in functional medicine and neurology and author of the book Why Do I Still Have Thyroid Symptoms? and Why Isn’t My Brain Working? Dr. Flannery teaches practitioners around the country the principles of functional medicine, endocrinology, and blood chemistry. He emphasizes to practitioners that they must uncover the underlying physiological dysfunctions causing a patients symptoms and not just supress the symptom itself.

Treating patients nationally, internationally, and in the Los Angeles / Ventura County area

Dr. Flannery works long distance with patients from around the world. His patients are from not only from across the United States, but also China, Spain, Argentina, United Kingdom, Saudi Arabia, Brazil, Turkey, the Philippines, Canada, Netherlands, Austria, Indonesia and many other countries. He also treats patients from throughout southern California in his Simi Valley, CA office in the Los Angeles / Ventura County area.

Dr. Flannery provides only the finest quality care using advanced nutritional therapies, detoxification programs, and sophisticated, cutting-edge laboratory testing. Dr. Flannery has a genuine concern for your health and well being!

Learn more about our services
Call (805) 205-9050 for an appointment today!

Contact Us

What is functional medicine?

mark-flannery-hashimotos-hypothyroidism-vaccine-damage-functional-medicine-kharrazian Functional medicine focuses on correcting physiological function versus overriding the problem with drugs or surgery. Using science-based lab tests, assessments, and in-office exams, we look at physiology and where the dysfunction lies.

Functional medicine recognizes the body is a highly complex web of interrelated functions. It’s impossible to consider hormone balance without also considering the health of the immune system, or to address brain function without addressing gut health. All these systems act in concert with one another and not as isolated systems. This approach requires an in-depth knowledge of physiology and how the different systems in the body work together.

Going beyond drugs or surgery to address the root cause

Many of our patients have been to numerous doctors and sometimes even the top medical clinics in the country. Some have also made the rounds of various alternative doctors. They’re often told their lab tests are fine and nothing more can be done.

In functional medicine we focus on treating the person not the disease. We don’t look at what drug or which surgery might mask or remove a problem. Nor do we mask symptoms with herbs or the latest nutrient. Instead, we examine a person’s physiology to see where the breakdown has occurred and how we can unwind vicious cycles that perpetuate autoimmune and inflammatory disorders:

  • Autoimmune disease: Hashimoto’s hypothyroidism, multiple sclerosis, Sjorgen’s, vitiligo, etc.

  • Hormone imbalances: PCOS, female hair loss, low male testosterone, PMS, menopause symptoms, etc.

  • Chronic health conditions: Joint pain, insomnia, allergies, skin rashes, weight loss issues, IBS, chronic fatigue syndrome, fibromyalgia, etc.

  • Brain-related: Brain fog, memory loss, Alzheimer’s, Parkinson’s, traumatic brain injury, trouble focusing, learning difficulties, ADHD, ADD, autism spectrum, etc.

  • Vaccine damage: Gardisil vaccine, other vaccine damage

Functional medicine is not for the person who wants a quick fix to mask a symptom. Our patients are interested in optimal health and are willing to do the work to achieve it. This may mean making changes to your diet or lifestyle, but can result in genuine, lasting corrections to your condition.

Health is not the absence of disease. It is the proper functioning of one’s physiology. Often doctors are looking so hard for the disease they miss the lack of function.

Recent Health Posts

Feeling alone with Hashimoto’s? Celebrities have it too

One of the worst things about an autoimmune disease such as Hashimoto’s hypothyroidism is how alone it can make you feel. Most autoimmune diseases do not have outwardly obvious symptoms. People with Hashimoto’s, most of whom are women, also know not to complain lest they be labeled a whiner or lazy. That’s why it’s so…

Details

Do you have chemical sensitivities? Tips for improving

Do perfumes or heavy fragrance make you gag or trigger your inflammation or autoimmune symptoms? Do scented products, gasoline fumes, car exhaust, tire stores, new rugs or carpet, or other sources of chemical odors give you headaches, fatigue, and other symptoms? You are not alone. An increasing number of people suffer from migraines, rashes, fatigue,…

Details

Antacid and antibiotics raise allergy risk in children

Addressing the root cause of your child’s acid reflux or frequent illnesses instead of a pharmaceutical quick fix could save you both bigger headaches down the road — a large study shows antacid and antibiotic use in early childhood significantly raises the risk of developing allergies. Researchers looked at the records of almost 800,000 children…

Details

Try new veggies & fruit to boost healthy gut bacteria

Want to improve your mood, health, and brain function? An ample and diverse supply of healthy gut bacteria has been shown to be essential, and that is best obtained through eating lots of different kinds of produce. Try going out of your comfort zone in the produce aisle and incorporating some new varieties of vegetables…

Details

Health Topics

acid reflux acidic adhd adrenal fatigue alkaline diet allergies Alzheimer's anemia anti-aging anxiety artificial sweeteners autism autoimmune autoimmune diet autoimmune disease blood sugar blood test BPA brain brain fog Brain health brain inflammation brain injury calorie burning cancer chemical sensitivities cholesterol chronic disease chronic fatigue chronic pain chronic stress circadian rhythm constipation dementia depression diabetes fatigue fish oil functional medicine gallbladder glutathione gluten gluten-free gluten-free diet gut bacteria hangover Hashimoto's heart disease heartburn hemorrhoids high blood pressure hypothyroidism inflammation insomnia insulin resistance leaky gut leaky gut diet low blood pressure low blood sugar memory loss multiple chemical sensitivies omega 3 placebo effect PMS pregnancy progesterone PTSD sibo sleep stress sugar TBI toxic chemicals trans fats weight loss

The doctor of the future will give no medicine, but will interest his patients in the care of the human frame, in a proper diet, and in the cause and prevention of disease. —Thomas Edison

Patient Testimonials

  • After having the first dose of Gardasil, my health started deteriorated at a rapid rate. I started having unbearable migraines once a month (had to sleep it off and any movement would result in me vomiting), knee pain, leg weakness when walking short distances, complete loss of menstrual cycle, abdominal pain, weight gain, brain fog, IBS symptoms and digestive problems. I experienced these health problems for at least five years while seeking a variety of medical attention (multiple endocrinologists, multiple GI doctors, multiple neurologists and multiple OBGYN’s). (more…)

    Gardasil Reaction Debilitates Washington Girl for 5 Years
  • So grateful for Dr Flannery and all his expertise and passion for functional medicine. My journey started about 13 years ago with my daughter’s stomach issues. As a toddler I took her to the family pediatrician, to urgent cares, we visited specialists from UCLA and other highly recommended doctors. They tested her for Celiac, Crohn’s, she had scans, X-Rays, blood work done – unfortunately no doctor we saw ever had an explanation. The typical response to us was – “it’s probably just constipation, have her take Miralax every day.” That wasn’t an acceptable response for me. I never gave up, we visited doctors over the years as she got older hoping someone would be able to offer us some type of answer as to why her stomach hurt her weekly. (more…)

    A mother’s heartfelt thank you
  • It was in 1997 when I was 27-years-old that my health first started to decline. I was an upbeat, energetic, extreme athlete up to that point in time. It wasn’t until a falling-out with my father which caused so much stress in my life that my health began to decline.

    It started out with headaches and moved on to depression. I became debilitated, so much so, that I could not even make a trip to the grocery store, it was too overwhelming. I tried to muster up enough energy just to go into work and make it back home. This was during my pre-healthcare days; I did not know anything about health. I was eating McDonalds 2 to 3 times per day and would order the fish sandwich when I felt like eating “healthy”. I saw specialist after specialist for my headaches, brain fog, fatigue, and my depression. I spent tens of thousands of dollars seeking help. No one could help me. (more…)

    Dr. Flannery’s testimonial
  • Dear Dr. Flannery,

    This month, as we begin a new year, I would like to express my deepest gratitude for your excellent treatment which has really given me my life back in so many ways. Last year at this time, I was struggling with blood sugar issues which were leading me towards type one and type two diabetes, gut issues including SIBO, inflammatory bowel disease, irritable bowel disease, severe constipation/motility issues, and multiple food allergies which put me on a severely limited diet.  My primary care doctor and gastroenterologists could not really help me anymore, and I was pretty incapacitated. I also had problems sleeping and had been taking sleeping pills on and off for many years. In addition, I was struggling with depression, anxiety, brain fog and a tremor, chronic pain, as well as a very low energy level. (more…)

    Thank you for giving me my life back!!
  • I was referred to Dr. Mark Flannery by a woman I work with after telling her about how tired I felt and the stomach pain, bloating and weight gain that I was suffering with. My condition was keeping me from spending quality time with my kids and I was losing focus at school. At first I thought it was normal “female” problems, but when the symptoms didn’t go away after 1-1/2 years , I knew I needed to take action. (more…)

    Digestive Problems and Weight Gain
  • When I first sought help at HealthWise Clinical Nutrition, I suffered from neck pain, inflammation, bloating, irritable bowel and trouble sleeping for more than 15 years! I had been to other chiropractors, physical therapists and on pain medication with no long-term effects.

    The HealthWise doctors took excellent care of me! Dr. Flannery (more…)

    Chronic Digestive Problems and Severe Neck Pain
  • I was diagnosed with Fibromyalgia back in 1991, but I have been in constant distress with my health for the past 50 years. The number of doctors I have seen would shock you! When one doctor was finished running tests that didn’t show anything, he would pass me to the next specialist for more tests. Medication has been part of my life for my asthma, on and off of antibiotics (more…)

    Fibromyalgia
  • I initially sought treatment with Dr. Flannery because I was diagnosed with osteopenia. I also was not sleeping well and would wake up with a pounding heart at 3 a.m. every morning.

    My medical doctor prescribed hormone replacement therapy. I became aware of the long-term negative effects of taking hormones (more…)

    Bone Loss / Memory Loss / Sleep Problems
  • In 2008 I visited Dr. Mark Flannery due to my complaint of a repeated acid-reflux disorder that was continually awakening me at night in bouts of great pain and distress. During my consultation, Dr. Flannery suggested that I have a complete blood work-up, which I did. Upon his review of my blood work he became very concerned about my overall health (more…)

    Heart Disease / Diabetes – The Unusual Patient Testimony
  • It took me a while to write this testimonial because I don’t know how to express how much I’m thankful to God for giving me the chance to meet Dr. Flannery and to be subjected under his care. The improvements have all been so overwhelming; I can’t believe that in eight months, I’m now feeling so much better—even better than my “old self.”

    At 22 years old, I’ve done so many abuses on my body without even realizing it: training too hard, (more…)

    Triathlete Overtrains and Loses Health
  • My experience with working with Dr. Mark Flannery over the past few years has been an incredibly pleasurable and beneficial one. Dr. Mark Flannery is a very informative, helpful, and caring Doctor that always takes the time to thoroughly explain everything to his patients and never hesitates to answer any questions or help in any way he can. When I first came to see Dr. Flannery (more…)

    Severe Digestive Problems, Extreme Pain, Fatigue
  • I have had a chronic cough for over 20 years. Thinking it was a food allergy but doing nothing about it in the beginning because it didn’t make me sick. It didn’t alter my life and it wasn’t very bad. It was only a small cough in the beginning occurring every once in a while.

    As the years went by my cough increased with other symptoms. I had a hard time getting through my day without coffee and the cough would start waking me up at night. Nine and a half years ago I quit working thinking (more…)

    Chronic Cough, Fatigue, Irritability, Food Sensitivities
  • In November of 2013 our family received devastating news, when our 9 year old son was diagnosed with Type 1 diabetes. Needless to say, we were at a loss since no one in our family had ever been diagnosed with an autoimmune condition. Immediately following his diagnoses, my wife and I began his treatment of the daily regimen of insulin shots, which very quickly proved to be an overwhelming and daunting task. My wife and I believed that we owed it to our son, to seek any alternative treatments (more…)

    Type 1 Diabetic No Longer Needs Insulin
  • After receiving the Gardisil vaccination in February, I experienced severe abdominal pain that brought on vomiting, headaches, back pain and high blood pressure. I was in and out of the hospital for a total of 12 days in 2 months while they performed many tests including: blood tests, multiple cat scans, an MRI and other tests revealing no definitive diagnosis.

    My sudden illness kept me from completing my schoolwork and I had to eventually (more…)

    Gardasil Reaction in Nebraska
  • After receiving the Gardasil vaccine, my daughter began experiencing an array of troubling symptoms, including numbness, severe swelling, and difficulty walking. At times, Alison’s ankles would swell so badly that she could not wear shoes. The doctors we originally sought just wanted to treat her symptoms with drugs instead of getting to the root of her problem. No one knew how to treat Alison’s “mysterious” illness, (more…)

    Gardasil Reaction in Louisiana
  • There are not enough words for me to be able to fully express my gratitude to Dr. Mark Flannery. It is because of him and the grace of God that I still have my daughter with me today.

    My daughter Cassie started experiencing side effects from the Gardasil vaccine immediately after her first injection, but because we were told the reaction was completely unrelated to Gardasil she continued with all three shots. It was after the third and final one that she became seriously ill. Cassie was hospitalized, her symptoms consisted of severe abdominal pain, nausea, vomiting, severe headaches (more…)

    Gardasil Reaction in Missouri
  • I have been injured on the 14th of March 2011 by the Gardasil vaccine. Right after that I started a severe back pain, nausea, total fatigue along with total body pain. At one stage I reached to a level that I lost the ability to walk more than two minutes as the pain was unbearable. This vaccine is the worst thing that ever happened to me. I looked for many doctors but none of them had a clue of what is going on with my body.

    Dr. Flannery is the only Doctor who I met that had a clear understanding of how much Gardasil can damage (more…)

    Gardasil Reaction in Saudi Arabia
  • My daughter BaLeigh was treated by Dr. Mark Flannery for side effects from the Gardasil vaccine. We live in New Mexico and, of course he is in Simi Valley, California. To my surprise the distance was not an obstacle in any way. The attention we received from Dr. Flannery far exceeded anything we experienced with local doctors.

    I cannot say enough positive things about the experience that we had with Dr. Flannery, (more…)

    Gardasil Reaction in New Mexico
  • In the middle of June 2009, Ashlie received her first and only Gardasil vaccine. Approximately 16 days later Ashlie began to complain that her legs were not working correctly. Looking back, I am not sure what I thought it was, but I had her take some Tylenol. The next morning, I came downstairs and Ashlie was lying on the couch. She told me that she had crawled from her room and down the stairs to get to the couch. She informed me she could not walk. I asked her to stand. She tried and fell to the floor.

    She was quickly taken to our local ER. The doctor threw his hands in the air saying (more…)

    Gardasil Reaction in California: Ashlie’s Near-Death Experience
  • Just wanted to say thank you! You have changed my life. Before we started care with you I felt miserable. My whole body was in pain. I never wanted to do anything except sleep all the time. But now I feel so much better then I use to! My pain and jerks have gotten better! The sound and the light sensitivity has also gotten better. I can handle light more and it doesn’t hurt my eyes as bad (more…)

    Gardasil Reaction in Texas: A Letter from Aubrey
  • I was struggling with fatigue which had been increasing over the last few years and had come to see Dr. Flannery as recommended by a friend of mine. I had seen my general physician and ruled out any problems that could be detected by her examination and blood tests. I did have elevated cholesterol, elevated blood calcium and early stage osteoporosis and was advised to go on prescription medication to treat these symptoms which I did not desire to do.

    From the beginning, I was treated with much care and concern. I was educated by Dr. Flannery (more…)

    Hashimoto’s hypothyroidism
  • Initially I was referred to HealthWise because I was so tired. I was on medication for my Thyroid but I wasn’t feeling like myself. I also suffered from severe neck and hip pain for the last 5 years.

    I didn’t know how complicated my condition was until I clearly saw my results from my blood tests. Dr. Flannery had a detailed approach to how he handled my condition and now I’m not as tired as I used to be. I can tell I’ve improved and that I continue to improve (more…)

    Hashimoto’s hypothyroidism
  • At 27 years old, I was training for a marathon and was in the best shape of my life. I was diagnosed with high blood pressure and prescribed medication. At 30 years old, I was diagnosed with Gall Bladder disease and referred to a surgeon. At 40 years old, I was diagnosed with Hashimoto’s Thyroid Disease and prescribed medication. Physicians blamed genetics. But, I thought there was an underlying issue causing these conditions.

    I saw many alternative health care professionals (more…)

    Autoimmune Hashimoto’s hypothyroidism
  • As a health care professional, I tried effortlessly to find someone that would address my health concerns. Nothing that Western medicine offered was effective. I knew that a pill was not the answer. After many years and thousands of dollars not covered by my insurance I stumbled upon a book “Why Do I Still Have Thyroid Symptoms? When My Lab Tests Are Normal” in 2010 by Dr. Datis Kharrazian. My passion is wellness research and I thought I could figure out my body and what it needed, evidenced by multiple supplements, multiple consults, and countless hours (more…)

    Hasimoto’s hypothyroidism, pre-diabetes, weight gain
  • For many years I knew something was wrong with my body. My fatigue was so unbearable it took everything I had to get out of bed. I had to take naps daily and still couldn’t function! I was gaining a steady 3 pounds a month regardless of my diet and exercise. I had pretty much NO memory and could not retain anything I heard or read. I had many more symptoms, to many to list. I was a mess!!

    I began what would end up being several years of research, going to doctor after doctor, (more…)

    Weight gain, Fatigue, Memory loss
  • While I was in college, I was diagnosed with diabetes and put on medications. I was then later diagnosed with hypothyroidism. Not only had I been diagnosed with two serious conditions, I had been losing pigmentation of my skin over a number of years, a condition known as vitiligo. The medication I was prescribed was not correcting my conditions, only managing my symptoms. I grew increasingly more frustrated with my medical treatment.

    I had been to a number of medical doctors through this process, but I felt like they could never pin point the problem.  (more…)

    Hashimoto’s hypothyroidism, type 1 diabetes, vitiligo
  • I truly believe that God directs our path to certain people and I am so glad that he directed me to Dr. Mark Flannery! Dr. Flannery has helped me so much, but let me start from the beginning. I am a mother of two boys and one of my boys has a muscle disease. Since he has been born there has been extra stress on me to make sure his health needs are taken care of all the time. I also work long hours, which complicates things. I wouldn’t eat for half the day and I drank two pots of coffee a day to keep me going. Despite all that coffee I was still tired all of the time. (more…)

    Hashimoto’s, Fatigue, Dizziness, Blurred Vision, Brain Fog
  • I brought my 6-week-old daughter in to HealthWise Chiropractic & Nutrition because I had heard chiropractic care could help with symptoms of colic. She had gas pains and cried everyday for hours. I switched formulas to try to see if that was the culprit, but that only constipated her. Needless to say, I was as tired and cranky as she was! (more…)

    Colic
  • I am a mother of a three-year-old boy and pregnant with my second. My first baby was breech and had to be born via c-section. I first met Dr. Vera during a M.O.P.S. meeting where she was educating us on how chiropractic can help with pregnancy discomforts. Also, she mentioned how chiropractic (more…)

    Pregnancy / VBAC
  • I was referred to HealthWise Chiropractic for treatment of painful symptoms associated with my first pregnancy. At 5 months pregnant, I suffered from low back pain, had difficulty walking, and had trouble getting in and out of bed.

    As of today I feel 70% better than when I first started chiropractic care. Dr. Vera (more…)

    Pregnancy / Pain
  • In the past two years I have suffered from consistent chest pain. During those two years, I consulted two different gastroenterologists, two pulmonary doctors, two cardiologists, a neurologist, have gone through two surgeries on my stomach, and have been put on and taken off over 15 different medications.

    My mom’s friend told her about HealthWise (more…)

    Chest Pain / Acid Reflux
  • All of my life I have been an outgoing, very friendly and happy person, involved in sports and striving to live a healthy lifestyle; that is until about four years ago. It did not happen overnight, but slowly I was becoming unhappy, lethargic, and uninvolved with friends and family. After going through two divorces, dealing with the stress of being a single mom, and struggling with family issues, my health had taken a back seat in my life. Over time, I was not only unhappy (more…)

    Depression, Weight Gain, Mental Fog, Forgetfulness
  • In 2008 I visited Dr. Mark Flannery due to my complaint of a repeated acid-reflux disorder that was continually awakening me at night in bouts of great pain and distress. During my consultation, Dr. Flannery suggested that I have a complete blood work-up, which I did. Upon his review of my blood work he became very concerned about my overall health and well-being. My cholesterol and triglyceride (more…)

    Heart Disease / Diabetes – The Unusual Patient Testimony
  • We feel truly blessed to have found Dr. Mark so quickly after the decline of our daughters’ health after their second Gardasil shot. Not only was I scared by the girls’ health but also by the lack of answers and attention we were getting from traditional medicine. Calling this nontraditional Doctor was a leap of faith in more ways than one. We were 1,300 miles away from him, our insurance (more…)

    Gardasil Reaction in South Dakota
  • For over eight years I dealt with several irritating symptoms, including weight gain, hypothyroidism, very low energy, ovarian cysts, and elevated levels of cholesterol and triglycerides. I never felt like I could gain control of one issue absolutely, so I found myself circling around with my general practitioner as we tried to alleviate only the most problematic of the symptoms as we went. We were not able to accomplish much more than frustration and a sense of defeat. My general practitioner finally shook his head and said I would just have to get used to being heavy for the rest of my life and to do my best to stay as healthy and fit as possible.

    Feeling like a lost cause, I began to discuss my health concerns (more…)

    Hypothyroidism, Weight gain, Low energy, Ovarian cysts, Alopecia
  • When my husband and I married in December of 2006, I was a healthy, slim 26 year old. During our first pregnancy, I gained an unexpected 55 lbs. even though I ate healthy, balanced meals and exercised regularly. A few days after our daughter was born, I had a very irritating rash that moved around my body. After many months, many doctors, and many heavy medications, I was diagnosed with post-natal hypothyroidism, then hypothyroidism and Hashimoto’s. I began taking some medication that seemed to be working because my rashes finally went away. The rashes lasted about 6 months after giving birth! However, about a year and half later, (more…)

    Post-natal hypothyroidism, Hashimoto’s hypothyroidism, rashes, brain fog, low energy…

Testimonial Topics

Autoimmunity Brain Fog Brain Health Chronic Pain Digestive Problems Fatigue Food Sensitivity Gardasil Vaccine Hashimotos Headaches Hypothyroidism Leaky Gut Low Energy Nausea Pain Sleep Problems Stomach Pain Vaccine Reaction Vomiting Weight Gain
Why Do You Still Have Thyroid Symptoms?
datis kharrazian
More Information
Our Office

HealthWise Clinical Nutrition
Dr. Mark Flannery
3695 Alamo St., Suite 102
Simi Valley, CA 93063

805.205.9050 Tel
818.704.5689 Fax
Skype: healthwise.office

Hours:
Monday – Friday
9:00 am to 5:00 pm

Closed for lunch 1:00 to 2:00

Health Blog Archive
  • Not just for children—adults need play for stress relief
    April 15, 2012
  • Are you sure you can eat wheat? Gluten tests often wrong
    April 25, 2012
  • Combined resveratrol and curcumin for autoimmune and inflammatory disorders
    September 9, 2012
  • Trans fats shrink the brain, increase dementia risk
    September 9, 2012
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