lower_case_table_names in Linux behaves like in Windows

my box shows lower_case_table_names=1

show variables like 'lower_case_table%';

+------------------------+-------+

| Variable_name          | Value |

+------------------------+-------+

| lower_case_table_names | 1     |

+------------------------+-------+

but, the column names are store in mixed case. The manual says that when this variable is equal to 1, everything should be stored in lower-case and compared in case-insensitive manner.