The invention discloses a water-phase preparation method of silicon quantum dots, comprising the following steps: (1) taking a reducing agent and a silane coupling agent and dissolving them in water under the protection of an inert gas, and the molar ratio of the silane coupling agent to the reducing agent is: 1:0.2~10; (2) Transfer the mixed solution obtained in step (1) into a high-pressure reactor and heat it to 140-220°C, and the silicon quantum dot solution can be obtained after the reaction; or the mixed solution obtained in step (1) The solution is transferred to a microwave reactor and heated to 140-220°C, and the silicon quantum dot solution can be obtained after the reaction; (3) the silicon quantum dot solution obtained in step (2) is mixed with an organic solvent, centrifuged, and the supernatant is removed. dry to obtain solid silicon quantum dots; wherein the reducing agent is citric acid, sodium sulfite, sodium borohydride, sodium citrate, ascorbic acid, urea, thiourea, hydrazine hydrate, L-cysteine, bovine serum albumin or Mixture of two or more in denatured bovine serum albumin.