Vision Transformers have attracted a lot of attention recently since the successful implementation of Vision Transformer (ViT) on vision tasks. With vision Transformers, specifically the multi-head self-attention modules, networks can capture long-term dependencies inherently. However, these attention modules normally need to be trained on large datasets, and vision Transformers show inferior performance on small datasets when training from scratch compared with widely dominant backbones like ResNets. Note that the Transformer model was first proposed for natural language processing, which carries denser information than natural images. To boost the performance of vision Transformers on small datasets, this paper proposes to explicitly increase the input information density in the frequency domain. Specifically, we introduce selecting channels by calculating the channel-wise heatmaps in the frequency domain using Discrete Cosine Transform (DCT), reducing the size of input while keeping most information and hence increasing the information density. As a result, 25% fewer channels are kept while better performance is achieved compared with previous work. Extensive experiments demonstrate the effectiveness of the proposed approach on five small-scale datasets, including CIFAR-10/100, SVHN, Flowers-102, and Tiny ImageNet. The accuracy has been boosted up to 17.05% with Swin and Focal Transformers.