The venture, Aerospace Network Research Consortium, is for a period of four years and can be extended based on "mutual interests", according to a joint statement.
Financial terms of the agreement were not disclosed. Wipro Technologies is the software services arm of No. 3 software exporter Wipro Ltd.
"We have a great need for advanced, affordable aerospace network R&D," Naveed Hussain, vice president for engineering and technology, Boeing India, was cited as saying.
Boeing last year signed a 10-year manufacturing deal with India's state-run Hindustan Aeronautics Ltd worth more than $1 billion.
Boeing has said it sees business worth $80 billion in India's commercial sector and $15 billion in the defence segment over 10-15 years.