Channel's 4 broadcasting of the Muslim call to prayer during the holy month of Ramadan was the broadcaster's most-complained about programme last year.
It received 2,011 complaints about its 4Ramadan season with 1,658 specifically about the broadcast of the daily call to prayer.
Writing in the broadcaster's annual report, Channel 4's head of factual Ralph Lee said: "The level of Islamophobia we encountered with the 4Ramadan season was unexpected, though much of it came from communities that were either very polarised or very un-diverse."
Mr Lee said he personally received hundreds of emails complaining about the broadcast after he defended it in a column for Radio Times, where he said it would "act as a nationwide Tannoy system" and a provocation to viewers "in the very real sense of the word".
Channel 4 received a total of 16,835 complaints over 2013 with the second most-complained about show being Crazy About One Direction - a documentary about the boyband's most devoted fans, which attracted 1,056 complaints.