Ryan A. Flynn

This study maps the human cell surface proteome at nanoscale resolution, identifying functional modules and spatial organization patterns in T-lymphocytes and B-lymphoblasts.

The paper presents an unbiased surfaceome atlas of leukemic cell lines, identifying novel surface proteins and discordant gene expression patterns, with CD70 highlighted as a potential therapeutic target in AML.

This paper demonstrates that 4D force patterning using a magnetically actuated vessel-on-a-chip platform enables precise spatiotemporal control over angiogenesis by modulating mechanical strain magnitude, frequency, and direction.

This paper introduces HS-nano-seq, a method to analyze heparan sulfate using nanopore sequencing, enabling single-molecule detection of sulfation patterns and structural features.

The paper identifies that Aβ aggregates bind the U1 snRNP in Alzheimer's disease brain, linking Aβ aggregation to spliceosome dysfunction and connecting it to other fibril-forming proteins in neurodegenerative diseases.

Z-TAC converts IgG antibodies into cell-surface protein degraders, enabling efficient and sustained degradation of multiple receptors and receptor combinations.

This study shows DNASE1L3 clears surface DNA on B and T cells, and variants in DNASE1L3 are linked to higher surface DNA levels in autoimmune disease.

The paper introduces rPAL-seq, a method for profiling sialoglycoRNAs with low RNA input, revealing lineage-associated patterns and secreted glycoRNA profiles.

The paper develops GlycanDIA, a DIA-based workflow for glycan identification and quantification, showing improved sensitivity and the ability to detect low-abundant modified glycans.

The paper introduces irCLIP-RNP and Re-CLIP methods to identify dynamic RNA-protein assemblies, revealing new patterns of RBP-RNA associations and EGF-induced remodeling.

This study demonstrates that O-glycosylation contributes to sialoglycoRNA biogenesis and shows increased sialylation in ulcerative colitis-derived organoids.

The paper identifies acp3U as the site where N-glycans attach to RNA in glycoRNA using rPAL and SWATH-MS.

The paper identifies heparan sulfate proteoglycans as key organizers of cell surface glycoRNA and RNA binding proteins, showing their role in regulating growth factor signaling.

This paper introduces rPAL, a method for detecting native sialoglycoRNAs with significantly improved sensitivity compared to existing methods, demonstrating its application in human clinical samples.

This study identifies hnRNPM as a suppressor of cryptic splicing and shows its role in preventing dsRNA-mediated interferon responses and tumor immunity.

The paper investigates the phenotypic consequences of RPS25 and RACK1 loss in human cells, finding that RPS25 knockout leads to irreversible resistance traits and gene expression rewiring.

The paper identifies N-glycan modifications on mammalian Y RNAs, showing RNA can be a scaffold for glycosylation in the secretory pathway.

The paper identifies lnc-NR2F1 as a pro-neurogenic lncRNA mutated in neurodevelopmental disorders through genetic and functional studies.

This paper uses HiChIP to map enhancer-promoter interactions in primary human cells, linking disease-associated DNA variants to their target genes.

HiChIP improves the yield and reduces input requirements of chromatin conformation analysis, revealing multi-scale genome architecture with better signal-to-background.