José Luis Gómez-Skármeta

The paper studies regulatory genome evolution in echinoderms, revealing deep conservation of cis-regulatory elements and chromatin organization, suggesting an ancestral regulatory pattern in animal genomes.

The paper integrates multi-omics data to refine the gene regulatory network of the sea urchin posterior gut at the single-cell level.

The paper compares 3D genome structures between neural retina and RPE to identify tissue-specific cis-regulatory interactions at retinal disease loci.

This study investigates the effects of retinoic acid signaling on the epigenome and chromatin architecture during zebrafish embryonic development using multi-omics approaches.

The paper identifies FoxG as an upstream regulator of wnt1 involved in posterior identity specification during planarian regeneration through genomic analyses.

The paper investigates 5hmC and TET enzyme function in non-vertebrate deuterostomes, showing conserved 5mC removal from regulatory regions across species.

This study shows pluripotency factors like OCT4 and NANOG initially repress and later enable activation of lineage specifiers, including the HoxB cluster, during early embryonic development.

The paper creates a central repository for zebrafish developmental genomics data, identifies new cis-regulatory elements, and compares regulatory elements between zebrafish and mouse.

The paper identifies regulatory elements and chromatin structures in the RCA gene cluster, revealing long-range interactions and a TAD boundary within CR1 that influence gene expression and autoimmune disease susceptibility.

This study identifies cis-regulatory elements and non-coding variants associated with North Carolina macular dystrophy using multi-omics and enhancer assays.

This study shows that CTCF knockout in zebrafish disrupts chromatin structure and gene regulation during development, affecting thousands of genes and developmental programs.

The paper decodes the compact genome of Dimorphilus gyrociliatus, revealing a conservative route to genome compaction with features similar to vertebrates.

The paper identifies boundary sequences at the mouse tyrosinase locus that act as enhancers and insulators, preventing cross-talk with adjacent genes.

The paper identifies a regulatory region near the IL33 gene that influences asthma risk through allele-specific expression and OCT-1 binding.

The paper identifies cis-regulatory elements in the zebrafish and human pancreas, revealing disease-related enhancers that affect gene expression and contribute to pancreatic disorders.

The paper maps histone modifications across thirteen human tissues during organogenesis to understand gene regulation and link noncoding mutations to developmental disorders.

This study investigates the evolution of cis-regulatory elements in Phallusia and Ciona ascidians, finding conserved regulatory logic and enhancer structures despite genomic divergence.