In this regard, Asus, MSI, and Asrock all outperform Gigabyte. If Abula chimes in, he can wax poetic about it.
Sorry been on the road for the since last sunday on roads that not even celphone signal nor internet, this is the first time on 5 days that im sitting on my laptop.
Honestly idk how Gigabyte is in their latest iterations, from my past expereince (mostly 1155 and 1366), their bios was not that great on bios fan control, they seem to be doing some work on their software to be similar to fanXpert, but again haven't really tried to know how it compares. But i do have experience with Asus and MSI, both imo are very good, its more about how you want to do it, asrock also seems solid into PWM (but i dont have direct experience on them).
Their FanXpert2 (now 3 which i haven't tested), is superb to manage fans, it can bypass bios restrictions once windows loads, its very good into determining the range of operation of a fan using their tuning, that its simply a stress of fans, where it ramps them up to establish the max, then drops them down to establish the min, then starts them slowly to establish the starting rpms, etc, then you end up with a graph that the software suggests, this can be changed by the user to their own preference. Overall its pretty good, hey even SPCR uses it to test fans, i even kept my asus motherboard for this purpose alone, the downside imo is the software is a little heavy (not much), and i didn't like the way Asus measure CPU temperature, which doesn't match core temps or packet temp, its more their own algorithm of using multiple sensors to predict a more accurate temp.... so they say.
My brand of choice atm, their PWM 4pin control is superb, allowing dropping fans to 12.5% (if the fan can reach there, not all can), and you can set them in increments of 12.5%. You can set also the maximum, lets say you have one of those noctua 3k rpms, you can set easily to lower the max to 50% and the fan will be crippled from the bios to never pass this mark. You can also set min and max temperature of the cpu, this defines how fast or slow will the fan ramp up entering the interval of temperatures you preset. Some of the mid to high end boards have 2 PWM fan headers (CPU_FAN1,2,) this allows me to have one for my case fans and another for my cpu that i control independently, i do use PWM fan splitter to be able to control multiple fans on each headers (my cpu has 3 fans and my case has 4 fans). Now thats only for 4pin PWM fans, on 3pin fan if you use them on CPU_FAN headers they will always run at 12V no way of controlling on bios, but on SYS_FAN headers, you get similar control to the above, only these are voltage controlled, just with higher restrictions, now the minimum is 50% with 10% increments, they are also binded to the CPU temp. Other manufactures have very limited bios control, even some only allow presets, no manual setting for you to enter.
With either choice the most important decision is to chose properly the type of fans you will run on each header, once you understand this, both work pretty well, its more a personal preference into what you like. Now if you like gigabyte go for it, Antec True Quiet 140s are pretty quiet fans, they like undervolting and you still have the fan controller on the case, so i don't think it will matter much.