Hi! First of all, the Form 16 has to be issued to you by your employer (the organisation). Your employer will deduct tax, if any payable by you, and issue the Form 16. Based on the Form 16 issued, you or your CA will file your income-tax return. So don't fret over the complicated Form 16! You will have to fill ITR-1.
In case your employer has not issued a Form 16 to you, based on your salary income, your income tax return can filed.
Secondly, it is true that salaried persons cannot claim the above expenses. You can save tax by way of those investments for tax deduction purpose. However, you do have certain tax benefits like conveyance (Rs. 1600 per month or Rs. 19,200 per annum), house rent allowance (HRA - based on your salary and rental expense), medical expenses (upto 15,000 per annum), etc.
In case your employer is not issuing a Form 16 to you, you may declare your income as "Income from Consultancy Services" and claim all the above expenses as earlier. However, in this case, your employer will have to necessarily show you as a professional instead of an employee.
Happy to help you, any further!