The Royal College of Paediatrics and Child Health, which represents 20,000 pediatricians, has claimed the proposed rules, published in December, will "cause distress" and create a "negative environment" as students will not be "supported to be themselves," Daily Mail reports.
It told the UK Department of Education that it does not think parents should always know if their child has been referring to themselves as a different gender and is "particularly concerned" with young children being disallowed from changing their pronouns.
The department's guidance has stated that schools must "allow for watchful waiting" and take into account "the seriousness and context of the request" for a child wanting to change their gender.
The Royal College also accused the UK government of breaching the UN Convention on Children's Human Rights with the new guidance.
In a statement written by Professor Andrew Rowland, the college's Child Protection Officer, the college said: "We are deeply concerned that the proposed guidance poses a risk to children and young people in that, if enacted, many of the measures set out are likely to cause distress for those who may be gender questioning or with gender incongruence, and their peers, and foster a negative school environment where children are not supported to be themselves."
The statement also demands civil servants work with "support networks for transgender children" and consult with "trans voice organizations" to "protect the psychological safety" of young children.
The college's response to the new guidelines sparked massive backlash, with one government source calling it "astonishing" and calling out the Royal College for being "totally captured" by trans activists.
In response, Tory MP Nick Fletcher said, "There is no science or evidence behind the idea of 'gender identity' - it is a concept which can only confuse and harm.
"The RCPCH appears to be losing its way and needs to look again at its relationship with science, truth, and child safeguarding."
Helen Joyce, director of advocacy at women's rights group Sex Matters, said: "It is very worrying that a medical college has taken such an ignorant and biased position.
"Parents should routinely be informed of anything substantive concerning their children, unless there are specific concerns that go beyond parents' rejection of trans ideology.
The statement also reveals a remarkable blindness to what safeguarding means for other children - in particular girls, whose human rights are breached if they are forced to share private spaces with trans-identifying boys.
"Defending the use of preferred pronouns for primary-aged children ignores the dangers of social transition and what experts describe as the 'school-to-clinic pipeline'."