【目的/意义】从学科视角研究粤港澳大湾区城市创新合作网络的结构和演化，对理解城市群在基础研究层面合作现状及其薄弱环节至关重要。【方法/过程】本文选取2011年至2020年粤港澳大湾区11个城市的论文合作数据，构建城市合作网络、学科合作网络、“城市—学科”二模网络，利用数理统计、网络指标、假设检验等来分析粤港澳大湾区在不同时间阶段的跨城市、跨学科合作。【结果/结论】大湾区内城市间知识创新合作逐年增加，广州、香港和深圳三座城市形成稳定的创新协作三角关系，深圳的核心地位不断上升。材料科学与纳米技术、化学及应用物理学之间的学科交叉是目前大湾区内部城市合作的主要学科领域，对计算器科学和材料科学的研究表现出明显上升趋势。核心城市与其他城市之间以工学为主要合作领域，边缘城市之间合作主要聚焦于医学领域。【创新/局限】本研究确定了大湾区城市间知识创新合作中可以加强合作的潜在对象和学科类别，但分析仅包含合作论文数据，未包括专利、项目等其他合作数据。

【Purpose/significance】 Understanding the structure and evolution dynamics of the Guangdong-Hong Kong-Macao Greater Bay Area’s collaborative innovation networks form the perspective of discipline is critical for building and integrating the regional collaborative innovation system. 【Method/process】 In this paper, three types of collaborative networks are constructed, including intercity cooperation networks, inter-disciplinary cooperation networks and city-discipline two mode network. Drawing on a bibliometric analysis of co-authorship of Guangdong-Hong Kong-Macao Greater Bay Area research publications from 2011 to 2020, mathematical statistics, network indicators, and hypothesis testing are used to analyze inter-city and inter-disciplinary cooperation in the Guangdong-Hong Kong-Macao Greater Bay Area at different time stages. 【Result/conclusion】 We find that cooperation among cities in the Greater Bay Area has increased over time, with Guangzhou, Hong Kong and Shenzhen forming a stable innovation collaboration triangle. Shenzhen's core position in the urban innovation cooperation network has been steadily rising over time. We also observe that the intersections between material science and nanotechnology or chemistry or applied physics are the main discipline fields of cooperation among cities in the Greater Bay Area, and the number of publications in computer science and material science shows an obvious upward trend. Engineering is the main discipline of cooperation between core cities and other cities, while the cooperation between peripheral cities mainly focus on medicine. 【Innovation/limitation】 This study identifies potential cities and WoS categories that can strengthen knowledge innovation cooperation in the Greater Bay Area, but the analysis only includes the data of cooperative papers, excluding patents, fund projects and other cooperation data.