  Cancers evolve from mutation of a single cell with sequential clonal and
subclonal expansion of somatic mutation acquisition. Inferring clonal and
subclonal structures from bulk or single cell tumor genomic sequencing data has
a huge impact on cancer evolution studies. Clonal state and mutational order
can provide detailed insight into tumor origin and its future development. In
the past decade, a variety of methods have been developed for subclonal
reconstruction using bulk tumor sequencing data. As these methods have been
developed in different programming languages and using different input data
formats, their use and comparison can be problematic. Therefore, we established
a web server for clonal and subclonal structure inference and evolution of
cancer genomic data (COSINE), which included 12 popular subclonal
reconstruction methods. We decomposed each method via a detailed workflow of
single processing steps with a user-friendly interface. To the best of our
knowledge, this is the first web server providing online subclonal inference,
including the most popular subclonal reconstruction methods. COSINE is freely
accessible at www.clab-cosine.net or http://bio.rj.run:48996/cun-web.
