Cancer progression as a sequence of atavistic reversions
It has long been recognized that cancer onset and progression represent a type of reversion
to an ancestral quasi‐unicellular phenotype. This general concept has been refined into the …
to an ancestral quasi‐unicellular phenotype. This general concept has been refined into the …
Advances and applications in the quest for orthologs
Gene families evolve by the processes of speciation (creating orthologs), gene duplication
(paralogs), and horizontal gene transfer (xenologs), in addition to sequence divergence and …
(paralogs), and horizontal gene transfer (xenologs), in addition to sequence divergence and …
[HTML][HTML] Dual proteome-scale networks reveal cell-specific remodeling of the human interactome
Thousands of interactions assemble proteins into modules that impart spatial and functional
organization to the cellular proteome. Through affinity-purification mass spectrometry, we …
organization to the cellular proteome. Through affinity-purification mass spectrometry, we …
Proteome-wide mapping of short-lived proteins in human cells
Rapid protein degradation enables cells to quickly modulate protein abundance.
Dysregulation of short-lived proteins plays essential roles in disease pathogenesis. A …
Dysregulation of short-lived proteins plays essential roles in disease pathogenesis. A …
hu. MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies
A general principle of biology is the self‐assembly of proteins into functional complexes.
Characterizing their composition is, therefore, required for our understanding of cellular …
Characterizing their composition is, therefore, required for our understanding of cellular …
[HTML][HTML] Gene architecture directs splicing outcome in separate nuclear spatial regions
How the splicing machinery defines exons or introns as the spliced unit has remained a
puzzle for 30 years. Here, we demonstrate that peripheral and central regions of the nucleus …
puzzle for 30 years. Here, we demonstrate that peripheral and central regions of the nucleus …
A compendium of conserved cleavage and polyadenylation events in mammalian genes
Cleavage and polyadenylation is essential for 3′ end processing of almost all eukaryotic
mRNAs. Recent studies have shown widespread alternative cleavage and polyadenylation …
mRNAs. Recent studies have shown widespread alternative cleavage and polyadenylation …
Coexpression reveals conserved gene programs that co-vary with cell type across kingdoms
What makes a mouse a mouse, and not a hamster? Differences in gene regulation between
the two organisms play a critical role. Comparative analysis of gene coexpression networks …
the two organisms play a critical role. Comparative analysis of gene coexpression networks …
Proteotype coevolution and quantitative diversity across 11 mammalian species
Evolutionary profiling has been largely limited to the nucleotide level. Using consistent
proteomic methods, we quantified proteomic and phosphoproteomic layers in fibroblasts …
proteomic methods, we quantified proteomic and phosphoproteomic layers in fibroblasts …
Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra
Abstract We present GenEra (https://github. com/josuebarrera/GenEra), a DIAMOND-fueled
gene-family founder inference framework that addresses previously raised limitations and …
gene-family founder inference framework that addresses previously raised limitations and …