Table s7. Prominet sub-lattice analysis: the five largest atom and coatom sub-lattices with their objects and attributes are listed for the YCDC dataset with 100 clusters annotated by the GO biological process category (p < 0.005).

1	The largest prominent sub-lattice has 24 nodes having 3 clusters, 25, 51, and 69, with 108 genes and 48 GO terms.
	DNA dependent DNA replication DNA metabolism DNA repair DNA replication DNA replication and chromosome cycle DNA replication initiation DNA replication synthesis of RNA primer DNA strand elongation DNA synthesis during DNA repair M phase M phase of mitotic cell cycle M phase specific microtubule process cell cycle cell death cell growth and/or maintenance cell proliferation cellular physiological process cellular process chromosome condensation development double strand break repair double strand break repair via single strand annealing double strand break repair via synthesis dependent strand annealing gene conversion at MAT locus heteroduplex formation lagging strand elongation leading strand elongation maintenance of fidelity during DNA dependent DNA replication mating type determination mating type switching and recombination microtubule based process mismatch repair mitosis mitotic anaphase mitotic cell cycle mitotic recombination mitotic sister chromatid cohesion non recombinational repair nuclear division nuclear organization and biogenesis nucleobase nucleoside nucleotide and nucleic acid metabolism nucleotide excision repair response to DNA damage stimulus response to endogenous stimulus response to stimulus response to stress sex determination sister chromatid cohesion
2	The second largest sub-lattice has 18 nodes having 3 clusters, 3, 57, and 66, with 105 genes and 23 GO terms.
	35S primary transcript processing RNA metabolism RNA modification RNA processing cell growth and/or maintenance cell organization and biogenesis cellular physiological process cellular process cytoplasm organization and biogenesis nuclear export nucleobase nucleoside nucleotide and nucleic acid metabolism processing of 20S pre rRNA protein nucleus export rRNA metabolism rRNA modification rRNA processing ribosomal large subunit assembly and maintenance ribosomal large subunit biogenesis ribosomal subunit assembly ribosome assembly ribosome biogenesis ribosome biogenesis and assembly ribosome nucleus export
3	The third largest sub-lattice has 15 nodes having 5 clusters, 6, 16, 20, 78, and 89, with 111 genes and 14 GO terms.
	biosynthesis macromolecule biosynthesis macromolecule metabolism metabolism protein biosynthesis protein metabolism regulation of biosynthesis regulation of protein biosynthesis regulation of translation regulation of translational fidelity ribosomal large subunit assembly and maintenance ribosomal subunit assembly ribosome assembly translation
4	The fourth sub-lattice has 14 nodes having 2 clusters, 25, and 99, with 99 genes and 41 GO terms.
	DNA metabolism G1/S transition of mitotic cell cycle G2/M transition of mitotic cell cycle asexual reproduction bud growth budding cell cycle cell cycle checkpoint cell growth and/or maintenance cell proliferation cellular physiological process cellular process mitotic cell cycle regulation of biological process regulation of cell cycle regulation of cyclin dependent protein kinase activity regulation of enzyme activity regulation of protein kinase activity
5	The fifth sub-lattice has 14 nodes having 5 clusters, 6, 16, 37, 78, and 89, with 106 genes and 9 GO terms.
	biosynthesis macromolecule biosynthesis macromolecule metabolism metabolism physiological process protein biosynthesis protein metabolism translation translational elongation