Shuo Han

Journal article Cell · September 5, 2024 In developing brains, axons exhibit remarkable precision in selecting synaptic partners among many non-partner cells. Evolutionarily conserved teneurins are transmembrane proteins that instruct synaptic partner matching. However, how intracellular signalin ... Full text Link to item Cite

Metabolomic Applications in Gut Microbiota-Host Interactions in Human Diseases.

Journal article Gastroenterol Clin North Am · September 2024 The human gut microbiota, consisting of trillions of microorganisms, encodes diverse metabolic pathways that impact numerous aspects of host physiology. One key way in which gut bacteria interact with the host is through the production of small metabolites ... Full text Link to item Cite

High-throughput identification of gut microbiome-dependent metabolites.

Journal article Nat Protoc · July 2024 A significant hurdle that has limited progress in microbiome science has been identifying and studying the diverse set of metabolites produced by gut microbes. Gut microbial metabolism produces thousands of difficult-to-identify metabolites, which present ... Full text Link to item Cite

Outstanding Reviewers for Journal of Materials Chemistry B in 2023

Journal article Journal of Materials Chemistry B · July 1, 2024 Full text Cite

Arachidonic acid reverses cholesterol and zinc inhibition of human voltage-gated proton channels.

Journal article J Biol Chem · July 2023 Unlike other members of the voltage-gated ion channel superfamily, voltage-gated proton (Hv) channels are solely composed of voltage sensor domains without separate ion-conducting pores. Due to their unique dependence on both voltage and transmembrane pH g ... Full text Link to item Cite

Voltage sensor dynamics of a bacterial voltage-gated sodium channel NavAb reveal three conformational states.

Journal article J Biol Chem · March 2023 High-resolution structures of voltage-gated sodium channels (Nav) were first obtained from a prokaryotic ortholog NavAb, which provided important mechanistic insights into Na+ selectivity and voltage gating. Unlike eukaryotic Navs, the NavAb channel is for ... Full text Link to item Cite

In situ cell-type-specific cell-surface proteomic profiling in mice.

Journal article Neuron · December 7, 2022 Cell-surface proteins (CSPs) mediate intercellular communication throughout the lives of multicellular organisms. However, there are no generalizable methods for quantitative CSP profiling in specific cell types in vertebrate tissues. Here, we present in s ... Full text Link to item Cite

Cholesterol inhibits human voltage-gated proton channel hHv1.

Journal article Proc Natl Acad Sci U S A · September 6, 2022 Although human sperm is morphologically mature in the epididymis, it cannot fertilize eggs before capacitation. Cholesterol efflux from the sperm plasma membrane is a key molecular event essential for cytoplasmic alkalinization and hyperactivation, but the ... Full text Link to item Cite

Transcription factor Acj6 controls dendrite targeting via a combinatorial cell-surface code.

Journal article Neuron · July 20, 2022 Transcription factors specify the fate and connectivity of developing neurons. We investigate how a lineage-specific transcription factor, Acj6, controls the precise dendrite targeting of Drosophila olfactory projection neurons (PNs) by regulating the expr ... Full text Link to item Cite

Impact of a 7-day homogeneous diet on interpersonal variation in human gut microbiomes and metabolomes.

Journal article Cell Host Microbe · June 8, 2022 Gut microbiota metabolism of dietary compounds generates a vast array of microbiome-dependent metabolites (MDMs), which are highly variable between individuals. The uremic MDMs (uMDMs) phenylacetylglutamine (PAG), p-cresol sulfate (PCS), and indoxyl sulfat ... Full text Link to item Cite

Structural dynamics determine voltage and pH gating in human voltage-gated proton channel.

Journal article Elife · March 4, 2022 Voltage-gated proton (Hv) channels are standalone voltage sensors without separate ion conductive pores. They are gated by both voltage and transmembrane proton gradient (i.e., ∆pH), serving as acid extruders in most cells. Like the canonical voltage senso ... Full text Link to item Cite

Gut-microbiota-targeted diets modulate human immune status.

Journal article Cell · August 5, 2021 Diet modulates the gut microbiome, which in turn can impact the immune system. Here, we determined how two microbiota-targeted dietary interventions, plant-based fiber and fermented foods, influence the human microbiome and immune system in healthy adults. ... Full text Link to item Cite

A metabolomics pipeline for the mechanistic interrogation of the gut microbiome.

Journal article Nature · July 2021 Gut microorganisms modulate host phenotypes and are associated with numerous health effects in humans, ranging from host responses to cancer immunotherapy to metabolic disease and obesity. However, difficulty in accurate and high-throughput functional anal ... Full text Link to item Cite

Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome.

Journal article Cell · September 17, 2020 The gut microbiome has been implicated in multiple human chronic gastrointestinal (GI) disorders. Determining its mechanistic role in disease has been difficult due to apparent disconnects between animal and human studies and lack of an integrated multi-om ... Full text Link to item Cite

RNA-protein interaction mapping via MS2- or Cas13-based APEX targeting.

Journal article Proc Natl Acad Sci U S A · September 8, 2020 RNA-protein interactions underlie a wide range of cellular processes. Improved methods are needed to systematically map RNA-protein interactions in living cells in an unbiased manner. We used two approaches to target the engineered peroxidase APEX2 to spec ... Full text Link to item Cite

Cell-Surface Proteomic Profiling in the Fly Brain Uncovers Wiring Regulators.

Journal article Cell · January 23, 2020 Molecular interactions at the cellular interface mediate organized assembly of single cells into tissues and, thus, govern the development and physiology of multicellular organisms. Here, we developed a cell-type-specific, spatiotemporally resolved approac ... Full text Link to item Cite

Atlas of Subcellular RNA Localization Revealed by APEX-Seq.

Journal article Cell · July 11, 2019 We introduce APEX-seq, a method for RNA sequencing based on direct proximity labeling of RNA using the peroxidase enzyme APEX2. APEX-seq in nine distinct subcellular locales produced a nanometer-resolution spatial map of the human transcriptome as a resour ... Full text Link to item Cite

Functional divergence of Plexin B structural motifs in distinct steps of Drosophila olfactory circuit assembly.

Journal article Elife · June 21, 2019 Plexins exhibit multitudinous, evolutionarily conserved functions in neural development. How Plexins employ their diverse structural motifs in vivo to perform distinct roles is unclear. We previously reported that Plexin B (PlexB) controls multiple steps d ... Full text Link to item Cite

Proximity labeling: spatially resolved proteomic mapping for neurobiology.

Journal article Curr Opin Neurobiol · June 2018 Understanding signaling pathways in neuroscience requires high-resolution maps of the underlying protein networks. Proximity-dependent biotinylation with engineered enzymes, in combination with mass spectrometry-based quantitative proteomics, has emerged a ... Full text Link to item Cite

RNA targeting with CRISPR-Cas13.

Journal article Nature · October 12, 2017 RNA has important and diverse roles in biology, but molecular tools to manipulate and measure it are limited. For example, RNA interference can efficiently knockdown RNAs, but it is prone to off-target effects, and visualizing RNAs typically relies on the ... Full text Link to item Cite

Beyond Immunoprecipitation: Exploring New Interaction Spaces with Proximity Biotinylation.

Other Biochemistry · July 5, 2017 Full text Link to item Cite

Mono-unsaturated fatty acids link H3K4me3 modifiers to C. elegans lifespan

Journal article Nature · April 2017 Full text Cite

Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells.

Journal article Cell Chem Biol · March 16, 2017 A recurring challenge in cell biology is to define the molecular components of macromolecular complexes of interest. The predominant method, immunoprecipitation, recovers only strong interaction partners that survive cell lysis and repeated detergent washe ... Full text Link to item Cite