Using DISKPART will format your drive which means everything will be lost (including registry changes), however this might not fix your problem with partial run of CHKDSK.
Here is how to proceed to resolve problem:
1. Boot from Windows installation media
2. Select language and keyboard layout and click "next"
3. Click on "Repair my computer" link
4. Click on "Troubleshoot"
5. Click on "Command prompt"
6. Run following commands
Code:
DISKPART
lis vol
When you do so note the volume letter exit diskpart and run CHKDSK to fix it (in this case C:\)
Code:
exit
CHKDSK c: /rx
If it doesn't boot you can follow steps 1-4 again but this time choose "Startup repair"
Otherwise if you want to continue by wiping out data on disk, you can recreate partition table, format disk clean and perform clean Windows installation.