Vaccine controversies have occurred since almost 80 years before the terms vaccine and vaccination were introduced, and continue to this day. Despite scientific consensus that recommended vaccines are safe and effective, unsubstantiated scares regarding their safety still occur, resulting in outbreaks and deaths from vaccine-preventable diseases.      Another source of controversy is whether mandatory vaccination policies violate civil liberties or religious principles. 
Safety concerns often follow a pattern: a potential adverse effect is hypothesized; a premature announcement is made; the initial study is not reproduced; and finally, it takes several years for the vaccine to regain public confidence.  A modern and notable example involved Andrew Wakefield 's discredited claim that MMR vaccines cause autism , which, in 2011, was described as "perhaps, the most damaging medical hoax of the last 100 years".  Immunization programs depend on public confidence to be effective. Evidence surrounding vaccination shows that prevented suffering and death from infectious diseases outweighs the rare adverse effects of vaccination. 
Early attempts to prevent smallpox involved deliberate inoculation with the disease in hopes that a mild case would confer immunity. Originally called inoculation, this technique was later called variolation to avoid confusion with cowpox inoculation ( vaccination ) when that was introduced by Edward Jenner . Although variolation had a long history in China and India, it was first used in North America and England in 1721. Reverend Cotton Mather introduced variolation to Boston, Massachusetts, during the 1721 smallpox epidemic. Despite strong opposition in the community,  Mather convinced Dr. Zabdiel Boylston to try it. Boylston first experimented on his 6-year-old son, his slave, and his slave's son; each subject contracted the disease and was sick for several days, until the sickness vanished and they were "no longer gravely ill". Boylston went on to variolate thousands of Massachusetts residents, and many places were named for him in gratitude as a result. Lady Mary Wortley Montagu introduced variolation to England. She had seen it used in Turkey and, in 1718, had her son successfully variolated in Constantinople under the supervision of Dr. Charles Maitland . When she returned to England in 1721, she had her daughter variolated by Maitland. This aroused considerable interest, and Sir Hans Sloane organized the variolation of some inmates in Newgate Prison . These were successful, and after a further short trial in 1722, two daughters of Caroline of Ansbach Princess of Wales were variolated without mishap. With this royal approval, the procedure became common when smallpox epidemics threatened.
Religious arguments against inoculation were soon advanced. For example, in a 1772 sermon entitled "The Dangerous and Sinful Practice of Inoculation", the English theologian Reverend Edmund Massey argued that diseases are sent by God to punish sin and that any attempt to prevent smallpox via inoculation is a "diabolical operation".  It was customary at the time for popular preachers to publish sermons, which reached a wide audience. This was the case with Massey, whose sermon reached North America, where there was early religious opposition, particularly by John Williams . A greater source of opposition there was Dr. William Douglass , a medical graduate of Edinburgh University and a Fellow of the Royal Society , who had settled in Boston. : 114–22
As with variolation, there was some religious opposition to vaccination, although this was balanced to some extent by support from clergymen, such as Reverend Robert Ferryman, a friend of Jenner's, and Rowland Hill , : 221 who not only preached in its favour but also performed vaccination themselves. There was also opposition from some variolators who saw the loss of a lucrative monopoly. William Rowley published illustrations of deformities allegedly produced by vaccination, lampooned in James Gillray 's famous caricature depicted on this page, and Benjamin Moseley likened cowpox to syphilis , starting a controversy that would last into the 20th century. : 203–5
There was legitimate concern from supporters of vaccination about its safety and efficacy, but this was overshadowed by general condemnation, particularly when legislation started to introduce compulsory vaccination. The reason for this was that vaccination was introduced before laboratory methods were developed to control its production and account for its failures. Vaccine was maintained initially through arm-to-arm transfer and later through production on the skin of animals, and bacteriological sterility was impossible. Further, identification methods for potential pathogens were not available until the late 19th to early 20th century. Diseases later shown to be caused by contaminated vaccine included erysipelas , tuberculosis , tetanus , and syphilis. This last, though rare—estimated at 750 cases in 100 million vaccinations—attracted particular attention. Much later, Dr. Charles Creighton , a leading medical opponent of vaccination, claimed that the vaccine itself was a cause of syphilis and devoted a book to the subject. As cases of smallpox started to occur in those who had been vaccinated earlier, supporters of vaccination pointed out that these were usually very mild and occurred years after the vaccination. In turn, opponents of vaccination pointed out that this contradicted Jenner's belief that vaccination conferred complete protection. : 17–21 The views of opponents of vaccination that it was both dangerous and ineffective led to the development of determined anti-vaccination movements in England when legislation was introduced to make vaccination compulsory.
Because of its greater risks, variolation was banned in England by the 1840 Vaccination Act , which also introduced free voluntary vaccination for infants. Thereafter Parliament passed successive acts to enact and enforce compulsory vaccination.  The 1853 act introduced compulsory vaccination, with fines for non-compliance and imprisonment for non-payment. The 1867 act extended the age requirement to 14 years and introduced repeated fines for repeated refusal for the same child. Initially, vaccination regulations were organised by the local Poor Law Guardians, and in towns where there was strong opposition to vaccination, sympathetic Guardians were elected who did not pursue prosecutions. This was changed by the 1871 act, which required Guardians to act. This significantly changed the relationship between the government and the public, and organized protests increased.  In Keighley , Yorkshire, in 1876 the Guardians were arrested and briefly imprisoned in York Castle, prompting large demonstrations in support of the "Keighley Seven". : 108–9 The protest movements crossed social boundaries. The financial burden of fines fell hardest on the working class, who would provide the largest numbers at public demonstrations.  Societies and publications were organized by the middle classes, and support came from celebrities such as George Bernard Shaw and Alfred Russel Wallace , doctors such as Charles Creighton and Edgar Crookshank , and parliamentarians such as Jacob Bright and James Allanson Picton .  By 1885, with over 3,000 prosecutions pending in Leicester , a mass rally there was attended by over 20,000 protesters.
Under increasing pressure, the government appointed a Royal Commission on Vaccination in 1889, which issued six reports between 1892 and 1896, with a detailed summary in 1898.  Its recommendations were incorporated into the 1898 Vaccination Act, which still required compulsory vaccination but allowed exemption on the grounds of conscientious objection on presentation of a certificate signed by two magistrates.   These were not easy to obtain in towns where magistrates supported compulsory vaccination, and after continued protests, a further act in 1907 allowed exemption on a simple signed declaration. Although this solved the immediate problem, the compulsory vaccination acts remained legally enforceable, and determined opponents lobbied for their repeal. No Compulsory Vaccination was one of the demands of the 1900 Labour Party General Election Manifesto .  This was done as a matter of routine when the National Health Service was introduced in 1948, with "almost negligible" opposition from supporters of compulsory vaccination. 
Vaccination in Wales was covered by English legislation, but the Scottish legal system was separate. Vaccination was not made compulsory there until 1863, and conscientious objection was allowed after vigorous protest only in 1907. : 10–11
In the late 19th century, the city of Leicester in the UK received much attention because of the way smallpox was managed there. There was particularly strong opposition to compulsory vaccination, and medical authorities had to work within this framework. They developed a system that did not use vaccination but was based on the notification of cases, the strict isolation of patients and contacts, and the provision of isolation hospitals.  This proved successful but required acceptance of compulsory isolation rather than vaccination. C. Killick Millard , initially a supporter of compulsory vaccination, was appointed Medical Officer of Health in 1901. He moderated his views on compulsion but encouraged contacts and his staff to accept vaccination. This approach, developed initially due to overwhelming opposition to government policy, became known as the Leicester Method.   In time it became generally accepted as the most appropriate way to deal with smallpox outbreaks and was listed as one of the "important events in the history of smallpox control" by those most involved in the World Health Organization 's successful Smallpox Eradication Campaign. The final stages of the campaign, generally referred to as "surveillance containment", owed much to the Leicester method.  
In the US, President Thomas Jefferson took a close interest in vaccination, alongside Dr. Waterhouse, chief physician at Boston. Jefferson encouraged the development of ways to transport vaccine material through the Southern states, which included measures to avoid damage by heat, a leading cause of ineffective batches. Smallpox outbreaks were contained by the latter half of the 19th century, a development widely attributed to the vaccination of a large portion of the population. Vaccination rates fell after this decline in smallpox cases, and the disease again became epidemic in the late 19th century (see Smallpox ). 
After an 1879 visit to New York by prominent British anti-vaccinationist William Tebb , The Anti-Vaccination Society of America was founded.   The New England Anti-Compulsory Vaccination League formed in 1882, and the Anti-Vaccination League of New York City in 1885.  Tactics in the US largely followed those used in England.  Vaccination in the US was regulated by individual states, in which there followed a progression of compulsion, opposition, and repeal similar to that in England. Although generally organized on a state-by-state basis, the vaccination controversy reached the US Supreme Court in 1905. There, in the case of Jacobson v. Massachusetts , the court ruled that states have the authority to require vaccination against smallpox during a smallpox epidemic. 
John Pitcairn , the wealthy founder of the Pittsburgh Plate Glass Company (now PPG Industries ), emerged as a major financier and leader of the American anti-vaccination movement. On March 5, 1907, in Harrisburg, Pennsylvania, he delivered an address to the Committee on Public Health and Sanitation of the Pennsylvania General Assembly criticizing vaccination.  He later sponsored the National Anti-Vaccination Conference, which, held in Philadelphia in October 1908, led to the creation of The Anti-Vaccination League of America. When the league organized later that month, members chose Pitcairn as their first president. 
On December 1, 1911, Pitcairn was appointed by Pennsylvania Governor John K. Tener to the Pennsylvania State Vaccination Commission, and subsequently authored a detailed report strongly opposing the commission's conclusions.  He remained a staunch opponent of vaccination until his death in 1916.
In November 1904, in response to years of inadequate sanitation and disease, followed by a poorly explained public health campaign led by the renowned Brazilian public health official Oswaldo Cruz , citizens and military cadets in Rio de Janeiro arose in a Revolta da Vacina , or Vaccine Revolt . Riots broke out on the day a vaccination law took effect; vaccination symbolized the most feared and most tangible aspect of a public health plan that included other features, such as urban renewal, that many had opposed for years. 
Later vaccines and antitoxins
Opposition to smallpox vaccination continued into the 20th century and was joined by controversy over new vaccines and the introduction of antitoxin treatment for diphtheria . Injection of horse serum into humans as used in antitoxin can cause hypersensitivity , commonly referred to as serum sickness . Moreover, the continued production of smallpox vaccine in animals and the production of antitoxins in horses prompted anti-vivisectionists to oppose vaccination.
Diphtheria antitoxin was serum from horses that had been immunized against diphtheria, and was used to treat human cases by providing passive immunity . In 1901, antitoxin from a horse named Jim was contaminated with tetanus and killed 13 children in St Louis , Missouri. This incident, together with nine deaths from tetanus from contaminated smallpox vaccine in Camden, New Jersey , led directly and quickly to the passing of the Biologics Control Act in 1902. 
Robert Koch developed tuberculin in 1890. Inoculated into individuals who have had tuberculosis , it produces a hypersensitivity reaction, and is still used to detect those who have been infected. However, Koch used tuberculin as a vaccine. This caused serious reactions and deaths in individuals whose latent tuberculosis was reactivated by the tuberculin. This was a major setback for supporters of new vaccines. : 30–31 Such incidents and others ensured that any untoward results concerning vaccination and related procedures received continued publicity, which grew as the number of new procedures increased.
In 1955, in a tragedy known as the Cutter incident , Cutter Laboratories produced 120,000 doses of the Salk polio vaccine that inadvertently contained some live polio virus along with inactivated virus. This vaccine caused 40,000 cases of polio, 53 cases of paralysis, and five deaths. The disease spread through the recipients' families, creating a polio epidemic that led to a further 113 cases of paralytic polio and another five deaths. It was one of the worst pharmaceutical disasters in US history. 
Later 20th-century events included the 1982 broadcast of DPT: Vaccine Roulette , which sparked debate over the DPT vaccine ,  and the 1998 publication of a fraudulent academic article by Andrew Wakefield  which sparked the MMR vaccine controversy . Also recently, the HPV vaccine has become controversial due to concerns that it may encourage promiscuity when given to 11- and 12-year-old girls.  
Arguments against vaccines in the 21st century are often similar to those of 19th-century anti-vaccinationists. 
Scientific evidence for the effectiveness of large-scale vaccination campaigns is well established. Vaccination campaigns helped eradicate smallpox , which once killed as many as one in seven children in Europe ,  and have nearly eradicated polio . As a more modest example, infections caused by Haemophilus influenzae , a major cause of bacterial meningitis and other serious diseases in children, have decreased by over 99% in the US since the introduction of a vaccine in 1988. It is estimated that full vaccination, from birth to adolescence, of all US children born in a given year would save 33,000 lives and prevent 14 million infections.
Some argue that these reductions in infectious disease are a result of improved sanitation and hygiene (rather than vaccination), or that these diseases were already in decline before the introduction of specific vaccines. These claims are not supported by scientific data; the incidence of vaccine-preventable diseases tended to fluctuate over time until the introduction of specific vaccines, at which point the incidence dropped to near zero. A Centers for Disease Control website aimed at countering common misconceptions about vaccines argued, "Are we expected to believe that better sanitation caused incidence of each disease to drop, just at the time a vaccine for that disease was introduced?" 
Other critics argue that the immunity granted by vaccines is only temporary and requires boosters, whereas those who survive the disease become permanently immune.  As discussed below, the philosophies of some practitioners are incompatible with the idea that vaccines are effective. 
Incomplete vaccine coverage increases the risk of disease for the entire population, including those who have been vaccinated, because it reduces herd immunity . For example, the measles vaccine is given to children between the ages of 9 and 12 months, and the short window between the disappearance of maternal antibody (before which the vaccine often fails to seroconvert ) and natural infection means that vaccinated children are frequently still vulnerable. Herd immunity lessens this vulnerability if all the children are vaccinated. Increasing herd immunity during an outbreak or risk of outbreak is perhaps the most widely accepted justification for mass vaccination. Mass vaccination also helps to increase coverage rapidly, thus obtaining herd immunity, when a new vaccine is introduced.
Herd immunity also decreases risk to people who have a compromised immune system. Some people who have a compromised immune system cannot get certain vaccines and thus are at increased risk if those around them are not vaccinated for those diseases. If the immunocompromised person is surrounded by people who have not been vaccinated and have the disease, that person will likely contract the disease. The outcome for people with compromised immune systems who subsequently get infected is often worse than that of the general population. Herd immunity decreases this risk. 
Commonly used vaccines are a cost-effective and preventive way of promoting health, compared to the treatment of acute or chronic disease. In the US during the year 2001, routine childhood immunizations against seven diseases were estimated to save over $40 billion per birth-year cohort in overall social costs, including $10 billion in direct health costs , and the societal benefit-cost ratio for these vaccinations was estimated to be 16.5. 
If a vaccination program successfully reduces the disease threat, it may reduce the perceived risk of disease as cultural memories of the effects of that disease fade. At this point, parents may feel they have nothing to lose by not vaccinating their children.  If enough people hope to become free-riders , gaining the benefits of herd immunity without vaccination, vaccination levels may drop to a level where herd immunity ceases to be as effective. 
Events following reductions in vaccination
In several countries, reductions in the use of some vaccines were followed by increases in the diseases' morbidity and mortality.   According to the Centers for Disease Control and Prevention , continued high levels of vaccine coverage are necessary to prevent resurgence of diseases that have been nearly eliminated. Pertussis remains a major health problem in developing countries, where mass vaccination is not practiced; the World Health Organization estimates it caused 294,000 deaths in 2002. 
Stockholm, smallpox (1873–74)
An anti-vaccination campaign motivated by religious objections, concerns about effectiveness, and concerns about individual rights led to the vaccination rate in Stockholm dropping to just over 40%, compared to about 90% elsewhere in Sweden. A major smallpox epidemic began there in 1873. It led to a rise in vaccine uptake and an end of the epidemic. 
During the Vietnam War, vaccination was necessary for soldiers to fight overseas. Because disease follows soldiers, they had to receive vaccines preventing cholera, influenza, measles, meningococcal, plague, poliovirus, smallpox, tetanus, diphtheria, typhoid, typhus, and yellow fever. However, the diseases mainly prevalent in Vietnam at this time were measles and polio. After arriving in Vietnam, the United States Military conducted the "Military Public Health Assistance Project".  This public health program was a joint United States Military and Government of Vietnam concept to create or expand public medical facilities throughout South Vietnam.  Local villages in Vietnam were inoculated. The United States military screened patients, dispensed medication, distributed clothing and food, and even passed out propaganda such as comic books. 
UK, pertussis (1970s–80s)
In a 1974 report ascribing 36 reactions to whooping cough (pertussis) vaccine, a prominent public-health academic claimed that the vaccine was only marginally effective and questioned whether its benefits outweigh its risks, and extended television and press coverage caused a scare. Vaccine uptake in the UK decreased from 81% to 31%, and pertussis epidemics followed, leading to the deaths of some children. Mainstream medical opinion continued to support the effectiveness and safety of the vaccine; public confidence was restored after the publication of a national reassessment of vaccine efficacy. Vaccine uptake then increased to levels above 90%, and disease incidence declined dramatically. 
Sweden, pertussis (1979–96)
In the vaccination moratorium period that occurred when Sweden suspended vaccination against whooping cough (pertussis) from 1979 to 1996, 60% of the country's children contracted the disease before the age of 10; close medical monitoring kept the death rate from whooping cough at about one per year. 
Netherlands, measles (1999–2000)
An outbreak at a religious community and school in the Netherlands resulted in 3 deaths and 68 hospitalizations among 2,961 cases. The population in the several provinces affected had a high level of immunization, with the exception of one of the religious denominations , which traditionally does not accept vaccination. 95 percent of those who contracted measels were unvaccinated.
UK and Ireland, measles (2000)
As a result of the MMR vaccine controversy , vaccination rates dropped sharply in the United Kingdom after 1996.  From late 1999 until the summer of 2000, there was a measles outbreak in North Dublin , Ireland. At the time, the national immunization level had fallen below 80%, and in part of North Dublin the level was around 60%. There were more than 100 hospital admissions from over 300 cases. Three children died and several more were gravely ill, some requiring mechanical ventilation to recover. 
Nigeria, polio, measles, diphtheria (2001–)
In the early first decade of the 21st century, conservative religious leaders in northern Nigeria , suspicious of Western medicine , advised their followers not to have their children vaccinated with oral polio vaccine. The boycott was endorsed by the governor of Kano State , and immunization was suspended for several months. Subsequently, polio reappeared in a dozen formerly polio-free neighbors of Nigeria, and genetic tests showed the virus was the same one that originated in northern Nigeria. Nigeria had become a net exporter of the polio virus to its African neighbors. People in the northern states were also reported to be wary of other vaccinations, and Nigeria reported over 20,000 measles cases and nearly 600 deaths from measles from January through March 2005.  In 2006, Nigeria accounted for over half of all new polio cases worldwide.  Outbreaks continued thereafter; for example, at least 200 children died in a late-2007 measles outbreak in Borno State . 
Indiana, United States, measles (2005)
Multiple states, United States, measles (2013–)
In 2000, measles was declared eliminated from the United States because internal transmission had been interrupted for one year; remaining reported cases were due to importation.
The Centers for Disease Control and Prevention (CDC) reported that the three biggest outbreaks of measles in 2013 were attributed to clusters of people who were unvaccinated due to their philosophical or religious beliefs. As of August 2013, three pockets of outbreak—New York City, North Carolina, and Texas—contributed to 64% of the 159 cases of measles reported in 16 states. 
The number of cases in 2014 quadrupled to 644,  including transmission by unvaccinated visitors to Disneyland in California.  Some 97% of cases in the first half of the year were confirmed to be due directly or indirectly to importation (the remainder were unknown), and 49% from the Philippines. 165 of the 288 victims (57%) during that time were confirmed to be unvaccinated by choice; 30 (10%) were confirmed to have been vaccinated. The final count of measles in 2014 was 668 cases in 27 states.
From January 1 to June 26, 2015, 178 people from 24 states and the District of Columbia were reported to have measles. Most of these cases (117 cases [66%]) were part of a large multi-state outbreak linked to Disneyland in California, continued from 2014. Analysis by the CDC scientists showed that the measles virus type in this outbreak (B3) was identical to the virus type that caused the large measles outbreak in the Philippines in 2014. On July 2, 2015, the first confirmed death from measles in 12 years was recorded. An immunocompromised woman in Washington State was infected and later died of pneumonia due to measles. 
In spring 2017, a measles outbreak occurred in Minnesota. As of June 16, 78 cases of measles had been confirmed in the state, 71 were unvaccinated and 65 were Somali-Americans.      The outbreak has been attributed to low vaccination rates among Somali-American children, which can be traced back to 2008, when Somali parents expressed concerns about disproportionately high numbers of Somali preschoolers in special education classes who were receiving services for autism spectrum disorder. Around this time, Andrew Wakefield visited Minneapolis, teaming up with vaccine-skeptical groups to rase concerns about the MMR vaccine.  Multiple studies have shown no connection between the MMR vaccine and autism . 
In 2013, an outbreak of measles occurred in the Welsh city of Swansea . One death was reported.  Some estimates indicate that while MMR uptake for two-year-olds was at 94% in Wales in 1995, it had fallen to as low as 67.5% in Swansea by 2003, meaning the region had a "vulnerable" age group.  This has been linked to the MMR vaccine controversy , which caused a significant number of parents to fear allowing their children to receive the MMR vaccine.  5 June 2017 saw a new measles outbreak in Wales, at Lliswerry High School in the town of Newport . 
United States, tetanus
As of September 2017, a measles epidemic was ongoing across Europe, especially Eastern Europe. In Romania, there were about 9300 cases of measels, and 34 people – all of whom were unvaccinated – had died of measles.  This was preceded by a 2008 controversy regarding the HPV vaccine. In 2012, doctor Christa Todea-Gross published a free downloadable book online, this book contained misinformation about vaccination from abroad translated into Romanian, which significantly stimulated the growth of the anti-vaccine movement.  The government of Romania officially declared a measles epidemic in September 2016, and started an information campaign to encourage parents to have their children vaccinated. By February 2017, however, the stockpile of MMR vaccines was depleted, and doctors were overburdened. Around April, the vaccine stockpile had been restored, but by May 2017, the death toll had risen to 25. 
Few deny the vast improvements vaccination has made to public health; a more common concern is their safety.  As with any medical treatment, there is a potential for vaccines to cause serious complications, such as severe allergic reactions,  but unlike most other medical interventions, vaccines are given to healthy people and so a higher standard of safety is expected.  While serious complications from vaccinations are possible, they are extremely rare and much less common than similar risks from the diseases they prevent.  As the success of immunization programs increases and the incidence of disease decreases, public attention shifts away from the risks of disease to the risk of vaccination,  and it becomes challenging for health authorities to preserve public support for vaccination programs. 
Concerns about immunization safety often follow a pattern. First, some investigators suggest that a medical condition of increasing prevalence or unknown cause is an adverse effect of vaccination. The initial study and subsequent studies by the same group have inadequate methodology—typically a poorly controlled or uncontrolled case series . A premature announcement is made about the alleged adverse effect, resonating with individuals suffering from the condition, and underestimating the potential harm of forgoing vaccination to those whom the vaccine could protect. Other groups attempt to replicate the initial study but fail to get the same results. Finally, it takes several years to regain public confidence in the vaccine.  Adverse effects ascribed to vaccines typically have an unknown origin, an increasing incidence , some biological plausibility , occurrences close to the time of vaccination, and dreaded outcomes.  In almost all cases, the public health effect is limited by cultural boundaries: English speakers worry about one vaccine causing autism, while French speakers worry about another vaccine causing multiple sclerosis, and Nigerians worry that a third vaccine causes infertility. 
Thiomersal (spelled "thimerosal" in the US) is an antifungal preservative used in small amounts in some multi-dose vaccines (where the same vial is opened and used for multiple patients) to prevent contamination of the vaccine.  Despite thiomersal's efficacy, the use of thiomersal is controversial because it contains mercury . As a result, in 1999, the Centers for Disease Control (CDC) and the American Academy of Pediatrics (AAP) asked vaccine makers to remove thiomersal from vaccines as quickly as possible on the precautionary principle . Thiomersal is now absent from all common US and European vaccines, except for some preparations of influenza vaccine .  (Trace amounts remain in some vaccines due to production processes, at an approximate maximum of 1 microgramme, around 15% of the average daily mercury intake in the USA for adults and 2.5% of the daily level considered tolerable by the WHO .   ) The action sparked concern that thiomersal could have been responsible for autism.  The idea is now considered disproven, as incidence rates for autism increased steadily even after thiomersal was removed from childhood vaccines.  Currently there is no accepted scientific evidence that exposure to thiomersal is a factor in causing autism.  Since 2000, parents in the United States have pursued legal compensation from a federal fund arguing that thiomersal caused autism in their children.  A 2004 Institute of Medicine (IOM) committee favored rejecting any causal relationship between thiomersal-containing vaccines and autism. 
In the UK, the MMR vaccine was the subject of controversy after the publication in The Lancet of a 1998 paper by Andrew Wakefield and others reporting case histories of 12 children mostly with autism spectrum disorders with onset soon after administration of the vaccine.  At a 1998 press conference, Wakefield suggested that giving children the vaccines in three separate doses would be safer than a single vaccination. This suggestion was not supported by the paper, and several subsequent peer-reviewed studies have failed to show any association between the vaccine and autism.  It later emerged that Wakefield had received funding from litigants against vaccine manufacturers and that he had not informed colleagues or medical authorities of his conflict of interest ;  had this been known, publication in The Lancet would not have taken place in the way that it did.  Wakefield has been heavily criticized on scientific grounds and for triggering a decline in vaccination rates  (vaccination rates in the UK dropped to 80% in the years following the study),  as well as on ethical grounds for the way the research was conducted.  In 2004, the MMR-and-autism interpretation of the paper was formally retracted by 10 of Wakefield's 12 coauthors,  and in 2010 The Lancet ' s editors fully retracted the paper.  Wakefield was struck off the UK medical register , with a statement identifying deliberate falsification in the research published in The Lancet ,  and is barred from practising medicine in the UK. 
The CDC,  the IOM of the National Academy of Sciences ,  and the UK National Health Service  have all concluded that there is no evidence of a link between the MMR vaccine and autism. A systematic review by the Cochrane Library concluded that there is no credible link between the MMR vaccine and autism, that MMR has prevented diseases that still carry a heavy burden of death and complications, that the lack of confidence in MMR has damaged public health, and that the design and reporting of safety outcomes in MMR vaccine studies are largely inadequate. 
In 2009, The Sunday Times reported that Wakefield had manipulated patient data and misreported results in his 1998 paper, creating the appearance of a link with autism.  A 2011 article in the British Medical Journal described how the data in the study had been falsified by Wakefield so that it would arrive at a predetermined conclusion.  An accompanying editorial in the same journal described Wakefield's work as an "elaborate fraud " that led to lower vaccination rates, putting hundreds of thousands of children at risk and diverting energy and money away from research into the true cause of autism. 
A special court convened in the United States to review claims under the National Vaccine Injury Compensation Program ruled on February 12, 2009 that parents of autistic children are not entitled to compensation in their contention that certain vaccines caused autism in their children. 
Vaccine overload is the notion that giving many vaccines at once may overwhelm or weaken a child's immature immune system and lead to adverse effects.  Despite scientific evidence that strongly contradicts this idea,  some parents of autistic children believe that vaccine overload causes autism.  The resulting controversy has caused many parents to delay or avoid immunizing their children.  Such parental misperceptions are major obstacles towards immunization of children. 
The concept of vaccine overload is flawed on several levels.  Despite the increase in the number of vaccines over recent decades, improvements in vaccine design have reduced the immunologic load from vaccines; the total number of immunological components in the 14 vaccines administered to US children in 2009 is less than 10% of what it was in the 7 vaccines given in 1980.  A study published in 2013 found no correlation between autism and the antigen number in the vaccines the children were administered up to the age of two. Of the 1,008 children in the study, one quarter of those diagnosed with autism were born between 1994 and 1999, when the routine vaccine schedule could contain more than 3,000 antigens (in a single shot of DTP vaccine ). The vaccine schedule in 2012 contains several more vaccines, but the number of antigens the child is exposed to by the age of two is 315.   Vaccines pose a very small immunologic load compared to the pathogens naturally encountered by a child in a typical year;  common childhood conditions such as fevers and middle-ear infections pose a much greater challenge to the immune system than vaccines,  and studies have shown that vaccinations, even multiple concurrent vaccinations, do not weaken the immune system  or compromise overall immunity.  The lack of evidence supporting the vaccine overload hypothesis, combined with these findings directly contradicting it, has led to the conclusion that currently recommended vaccine programs do not "overload" or weaken the immune system.   
Any experiment based on withholding vaccines from children has been considered unethical,  and observational studies would likely be confounded by differences in the health care-seeking behaviours of under-vaccinated children. Thus, no study directly comparing rates of autism in vaccinated and unvaccinated children has been done. However, the concept of vaccine overload is biologically implausible, vaccinated and unvaccinated children have the same immune response to non-vaccine-related infections, and autism is not an immune-mediated disease, so claims that vaccines could cause it by overloading the immune system go against current knowledge of the pathogenesis of autism. As such, the idea that vaccines cause autism has been effectively dismissed by the weight of current evidence. 
There is evidence that schizophrenia is associated with prenatal exposure to rubella , influenza , and toxoplasmosis infection. For example, one study found a sevenfold increased risk of schizophrenia when mothers were exposed to influenza in the first trimester of gestation. This may have public health implications, as strategies for preventing infection include vaccination, simple hygiene, and, in the case of toxoplasmosis, antibiotics.  Based on studies in animal models, theoretical concerns have been raised about a possible link between schizophrenia and maternal immune response activated by virus antigens; a 2009 review concluded that there was insufficient evidence to recommend routine use of trivalent influenza vaccine during the first trimester of pregnancy, but that the vaccine was still recommended outside the first trimester and in special circumstances such as pandemics or in women with certain other conditions.  The CDC's Advisory Committee on Immunization Practices , the American College of Obstetricians and Gynecologists , and the American Academy of Family Physicians all recommend routine flu shots for pregnant women, for several reasons:
- their risk for serious influenza-related medical complications during the last two trimesters;
- their greater rates for flu-related hospitalizations compared to non-pregnant women;
- the possible transfer of maternal anti-influenza antibodies to children, protecting the children from the flu; and
- several studies that found no harm to pregnant women or their children from the vaccinations.
Despite this recommendation, only 16% of healthy pregnant US women surveyed in 2005 had been vaccinated against the flu.
Aluminium compounds are used as immunologic adjuvants to increase the effectiveness of many vaccines. The aluminium apparently simulates or causes small amounts of tissue damage, driving the body to respond more powerfully to what it sees as a serious infection and promoting the development of a lasting immune response.   In some cases these compounds have been associated with redness, itching, and low-grade fever,  but the use of aluminium in vaccines has not been associated with serious adverse events.  In some cases, aluminium-containing vaccines are associated with macrophagic myofasciitis (MMF), localized microscopic lesions containing aluminium salts that persist for up to 8 years. However, recent case-controlled studies have found no specific clinical symptoms in individuals with biopsies showing MMF, and there is no evidence that aluminium-containing vaccines are a serious health risk or justify changes to immunization practice. 
Swine flu vaccine
During the 2009 flu pandemic , significant controversy broke out regarding whether the 2009 H1N1 flu vaccine was safe in, among other countries, France . Numerous different French groups publicly criticized the vaccine as potentially dangerous. 
Other safety concerns
Other safety concerns about vaccines have been published on the Internet, in informal meetings, in books, and at symposia. These include hypotheses that vaccination can cause sudden infant death syndrome , epileptic seizures , allergies , multiple sclerosis , and autoimmune diseases such as type 1 diabetes , as well as hypotheses that vaccinations can transmit bovine spongiform encephalopathy , hepatitis C virus , and HIV . These hypotheses have been investigated, with the conclusion that currently used vaccines meet high safety standards and that criticism of vaccine safety in the popular press is not justified.  Large well-controlled epidemiologic studies have been conducted and the results do not support the hypothesis that vaccines cause chronic diseases. Furthermore, some vaccines are probably more likely to prevent or modify than cause or exacerbate autoimmune diseases. 
Compulsory vaccination policies have provoked opposition at various times from those who argue that governments should not infringe on an individual's freedom to make medical decisions for themselves.  
In the United States, mandatory vaccination laws sometimes provoke opposition from members of anti-government or libertarian factions, who express concern for what they view as the convergence or merger of the public and private sectors. They point to possible conflicts of interest due to vaccine research funding and misinformation that fuels debate on both sides.  Others argue that, for compulsory vaccination to effectively prevent disease, there must be not only available vaccines and a population willing to immunize, but also sufficient ability to decline vaccination on grounds of personal belief. 
Vaccination offers ethical issues beyond the normal issues of a parent deciding on medical care for their children, as unvaccinated individuals may spread disease to people (especially children and the elderly) with weaker immune systems, and to individuals in whom the vaccine has not been effective. For this reason, even where not required by law some schools and doctors' surgeries have prohibited parents with unvaccinated children from enrolling.   A further complication arises in emergency room and urgent care facilities, particularly those geared towards treating children as an unvaccinated child is often brought to these facilities after acquiring the disease and showing symptoms. Other children that are in the facility with compromised immune systems are then exposed.  Mandatory vaccination also raises ethical issues regarding parental rights and informed consent . 
Vaccination has been opposed on religious grounds ever since it was introduced. Some Christian opponents argued, when vaccination was first becoming widespread, that if God had decreed that someone should die of smallpox, it would be a sin to thwart God's will via vaccination.  Religious opposition continues to the present day, on various grounds, raising ethical difficulties when the number of unvaccinated children threatens harm to the entire population.  Many governments allow parents to opt out of their children's otherwise mandatory vaccinations for religious reasons; some parents falsely claim religious beliefs to get vaccination exemptions. 
In the United States, there are currently only three states (Mississippi, West Virginia, and California) that do not provide exemptions based on religious beliefs. 
The cell cultures of some viral vaccines, and the virus of the rubella vaccine,  are derived from tissues taken from therapeutic abortions performed in the 1960s, leading to moral questions. For example, the principle of double effect , originated by Thomas Aquinas , holds that actions with both good and bad consequences are morally acceptable in specific circumstances, and the question is how this principle applies to vaccination.  The Vatican Curia has expressed concern about the rubella vaccine's embryonic cell origin, saying that Catholics have "a grave responsibility to use alternative vaccines and to make a conscientious objection with regard to those which have moral problems".  The Vatican concluded that until an alternative becomes available, it is acceptable for Catholics to use the existing vaccine, writing, "This is an unjust alternative choice, which must be eliminated as soon as possible."  In the US, some parents claim religious exemptions when their real motivation for avoiding vaccines is supposed safety concerns. 
Many forms of alternative medicine are based on philosophies that oppose vaccination (including germ theory denialism ) and have practitioners who voice their opposition. These include some elements of the chiropractic community, some homeopaths , and naturopaths .  The reasons for this negative vaccination view are complicated and rest at least in part on the early philosophies that shaped the foundation of these groups. 
Historically, chiropractic strongly opposed vaccination based on its belief that all diseases were traceable to causes in the spine and therefore could not be affected by vaccines. Daniel D. Palmer (1845–1913), the founder of chiropractic, wrote: "It is the very height of absurdity to strive to 'protect' any person from smallpox or any other malady by inoculating them with a filthy animal poison."  Vaccination remains controversial within the profession.  Most chiropractic writings on vaccination focus on its negative aspects;  A 1995 survey of US chiropractors found that about one third believed there was no scientific proof that immunization prevents disease.  While the Canadian Chiropractic Association supports vaccination,  a survey in Alberta in 2002 found that 25% of chiropractors advised patients for, and 27% advised against, vaccinations for patients or for their children. 
Although most chiropractic colleges try to teach about vaccination in a manner consistent with scientific evidence, several have faculty who seem to stress negative views.  A survey of a 1999–2000 cross-section of students of Canadian Memorial Chiropractic College (CMCC), which does not formally teach anti-vaccination views, reported that fourth-year students opposed vaccination more strongly than did first-year students, with 29.4% of fourth-year students opposing vaccination.  A follow-up study on 2011–12 CMCC students found that pro-vaccination attitudes heavily predominated. Students reported support rates ranging from 83.9% to 90%. One of the study's authors proposed the change in attitude to be due to the lack of the previous influence of a "subgroup of some charismatic students who were enrolled at CMCC at the time, students who championed the Palmer postulates that advocated against the use of vaccination". 
The American Chiropractic Association and the International Chiropractic Association support individual exemptions to compulsory vaccination laws.  In March 2015, the Oregon Chiropractic Association invited Andrew Wakefield , chief author of a fraudulent research paper , to testify against Senate Bill 442,  "a bill that would eliminate nonmedical exemptions from Oregon's school immunization law".  The California Chiropractic Association lobbied against a 2015 bill ending belief exemptions for vaccines. They had also opposed a 2012 bill related to vaccination exemptions. 
Several surveys have shown that some practitioners of homeopathy , particularly homeopaths without any medical training, advise patients against vaccination.  For example, a survey of registered homeopaths in Austria found that only 28% considered immunization an important preventive measure, and 83% of homeopaths surveyed in Sydney, Australia , did not recommend vaccination.  Many practitioners of naturopathy also oppose vaccination. 
Homeopathic "vaccines" (nosodes) are ineffective because they do not contain any active ingredients and thus do not stimulate the immune system. They can be dangerous if they take the place of effective treatments.  Some medical organizations have taken action against nosodes. In Canada, the labeling of homeopathic nosodes require the statement: "This product is neither a vaccine nor an alternative to vaccination." 
Alternative medicine proponents gain from promoting vaccine conspiracy theories through the sale of ineffective and expensive medications, supplements, and procedures such as chelation therapy and hyperbaric oxygen therapy , sold as able to cure the 'damage' caused by vaccines.  Homeopaths in particular gain through the promotion of water injections or 'nosodes' which are alleged to have a 'natural' vaccine-like effect.  Additional bodies with a vested interest in promoting the "unsafeness" of vaccines may include lawyers and legal groups organizing court cases and class action lawsuits against vaccine providers. Conversely, alternative medicine providers have accused the vaccine industry of misrepresenting the safety and effectiveness of vaccines, covering up and suppressing information, and influencing health policy decisions for financial gain. 
In the late 20th century, vaccines were a product with low profit margins ,  and the number of companies involved in vaccine manufacture declined. In addition to low profits and liability risks, manufacturers complained about low prices paid for vaccines by the CDC and other US government agencies.  In the early 21st century, the vaccine market greatly improved with the approval of the vaccine Prevnar , along with a small number of other high-priced blockbuster vaccines , such as Gardasil and Pediarix, which each had sales revenues of over $1 billion in 2008. 
The United States has a very complex history with compulsory vaccination , particularly in enforcing compulsory vaccinations both domestically and abroad to protect American soldiers during times of war. There are hundreds of thousands of examples of soldier deaths that were not the result of combat wounds, but were instead from disease. Among wars with high death tolls from disease is the Civil War where an estimated 620,000 soldiers died from disease. American soldiers in other countries have spread diseases which ultimately disrupted entire societies and healthcare systems with famine and poverty.
The Spanish–American War began in April 1898 and ended in August 1898. During this time the United States gained control of Cuba, Puerto Rico, and the Philippines from Spain. As a military police power and as colonizers the United States took a very hands-on approach in administering healthcare particularly vaccinations to natives during the invasion and conquest of these countries. Although the Spanish–American War occurred during the era of "bacteriological revolution" where knowledge of disease was bolstered by germ theory , more than half of the soldier casualties in this war were from disease. Unknowingly, American soldiers acted as agents of disease transmission, fostering bacteria in their haphazardly made camps. These soldiers invaded Cuba, Puerto Rico, and the Philippines and connected parts of these countries that had never before been connected due to the countries sparse nature thereby beginning epidemics. The mobility of American soldiers around these countries encouraged a newfound mobility of disease that quickly infected natives.
Military personnel used Rudyard's Kipling's poem " The White Man's Burden " to explain their imperialistic actions in Cuba, the Philippines, and Puerto Rico and the need for the United States to help the "dark-skinned Barbarians" reach modern sanitary standards. American actions abroad before, during, and after the war emphasized a need for proper sanitation habits especially on behalf of the natives. Natives who refuse to oblige with American health standards and procedures risked fines or imprisonment. One penalty in Puerto Rico included a $10 fine for a failure to vaccinate and an additional $5 fine for any day you continue to be unvaccinated, refusal to pay resulted in ten or more days of imprisonment. If entire villages refused the army's current sanitation policy at any given time they risked being burnt to the ground in order to preserve the health and safety of soldiers from endemic smallpox and yellow fever. Vaccines were forcibly administered to the Puerto Ricans, Cubans, and Filipinos. Military personnel in Puerto Rico provided Public Health services which culminated in military orders that mandated vaccinations for children before they were six months as well as a general vaccination order. By the end of 1899 in Puerto Rico alone the U.S. military and other hired native vaccinators called practicantes , vaccinated an estimated 860,000 natives in a five-month period. This period began the United States' movement toward an expansion of medical practices that included "tropical medicine" in an attempt to protect the lives of soldiers abroad.