The retrieval of cloud fraction in satellite hyperspectral sounder field of view (FOV) is crucial for numerical weather prediction. This study proposes an innovative cloud fraction retrieval model for the hyperspectral infrared sounder - Cross-track Infrared Sounder (CrIS). The model is trained with a deep neural network (DNN), using the CrIS radiation spectra as the predictors and Visible Infrared Imaging Radiometer Suite (VIIRS) cloud mask as the learning target. An ensemble of randomly selected CrIS and VIIRS data are collocated and used as the training dataset. An optimized 5-layer neural network is built to establish the relationship between the CrIS spectra and the cloud fraction calculated from the VIIRS cloud mask within the CrIS FOV. In order to reduce the number of input predictors to enhance the efficiency of the model, a principal component transformation is performed on the original CrIS spectra and only the top 77 principal component scores are adopted as the final predictors. In general, the cloud fraction retrieved from the proposed DNN model are consistent with truth values calculated from the VIIRS cloud mask product. Further analysis on use cases demonstrates a slightly better cloud retrieval result during the daytime than that of the nighttime, and ocean retrievals are more accurate than land retrievals. However, since the relationship between CrIS spectrum and the cloud fraction is nonlinear, the model tends to slightly overestimate the cloud fractions over low cloud coverage regions and underestimate the values over high cloud fraction areas. Even so, the proposed model can still be a useful tool for obtaining cloud fraction information from hyperspectral infrared sounders and has the potential to be used for the numerical weather prediction and climate models, as well as other cloud studies.