Srinivas Ramachandran

This study identifies AHCY as a key driver of epigenetic and metabolic reprogramming in ZFTA-RELA ependymomas, revealing its role in promoting tumor growth through pyrimidine synthesis and asparagine dependency.

The paper uses AI to discover sequence rules for RNA polymerase II pausing, challenging the pause-release model of gene activation by showing pausing is not required for certain activation responses.

This study shows that cfDNA can map telomere chromatin structure, revealing age-related and disease-specific changes in telomeric footprints and gene signatures.

The paper identifies direct transcriptional targets of Prdm3 and Prdm16 in zebrafish neural crest cells using CUT&RUN and shows altered gene expression in mutants.

The paper shows DNA sequence guides nucleosome rotation and positioning across species, with chromatin regulators navigating rather than overriding these settings.

This study shows that HSF1 forms stress-induced condensates with divergent transcriptional outcomes, impacting transcriptional responses during different stress conditions.

This study shows that p53 activity, regulated epigenetically, maintains intestinal Treg identity and prevents inflammation by preventing Foxp3 loss in Th17 environments.

This study shows that HCMV uses macroH2A1 to reorganize host cell structures and induce neuronal gene expression, which is critical for viral maturation.

This study investigates the role of Spn1 in maintaining chromatin structure, showing its importance in preserving nucleosome positioning and promoter architecture in yeast.

This study investigates how metabolic changes in endocrine-resistant ER+ breast cancer cells affect ER DNA-binding patterns and shows that DMF can restore sensitivity to endocrine therapies by targeting metabolic vulnerabilities.

This study shows that increased EZH2 activity in regulatory T cells enhances their effector differentiation and autoimmunity suppression capacity.

The paper shows that polycomb domains are rejuvenated through nucleation and spreading after replication, using the same sites as de novo formation, and that PRC2 can target these sites without pre-existing H3K27me3.

The paper shows sparse CBX2 nucleates Polycomb proteins to form condensates that regulate facultative heterochromatin and cellular differentiation in mESCs.

The paper shows that G1 phase length regulates H3K27me3 levels in stem and tumor cells, with longer G1 increasing and shorter G1 decreasing H3K27me3.

The paper shows that estradiol concentration changes the chromatin binding sites of the estrogen receptor, affecting its localization and interaction with DNA motifs.

This paper maps transcription factor-nucleosome dynamics from plasma cfDNA to identify cancer states and tissue-of-origin.

The paper characterizes TF cooperativity at active enhancers in Drosophila using nuclease footprinting and chromatin profiling, finding that cooperativity is common and facilitates enhancer function.