The 20-year-old was a comfortable winner over Repsol Honda team-mate Dani Pedrosa last week in Indianapolis with the pair claiming their third one-two of the season.
Victory completed a clean sweep of all the American races for Marquez after his triumphs at Laguna Seca and Texas and he stands 21 points clear of Pedrosa at the top of the standings with 188 points.
Marquez won in Brno en route to his Moto2 title last year but he acknowledged the challenge posed by rivals Yamaha Factory Racing pair Jorge Lorenzo and Valentino Rossi.
He told the Repsol Honda website: "Brno isn't one of my favourite tracks but I won there last year so I still have a good feeling there.
"We will see when we get there.
"Historically Yamaha have been very strong so I'm sure they will be very fast again this year, also considering they tested there a few weeks ago.
"We will wait to see our level and take the weekend at our own pace, work hard and try to take some more championship points."
Pedrosa has been suffering from a shoulder injury he suffered ahead of the German Grand Prix and he said: "Indianapolis was physically a very tough race for me, so it's important I can recover in time for Brno.
"Let's hope the weather stays nice as it can be very unpredictable in that area. Brno is a fast track, with high speed corners and in the past the Honda has done performed well there.
"Last year we had a strong race there and I hope we can repeat the same this year!"
Pedrosa is 14 points ahead of Lorenzo, the defending champion, whose race in Indianapolis was only the second following an operation on his injured collarbone.
Lorenzo still managed to come third last week, making it an all-Spanish podium, and he told the Yamaha website: "I think on the Brno circuit we can improve a bit and also we expect a better performance because of the track and the asphalt. I believe my physical condition will also be even better.
"Probably there we will have more options to fight for the victory, but anyway this season you never know because the pace can change a lot from one track to another.
"It will be very important to see if we can win there to start to take some points from the Honda riders. I'm looking forward to the race and we are going to the Czech Republic with plenty of optimism."
Rossi was fourth last week and is 23 points adrift of his team-mate.
He said: "Brno is a track that I like a lot, where I made good races and won a lot.
"We also tested on this track a few weeks ago; this will help us to have a good base set-up. Marquez and Honda in general are going very strong, but we are defending well."