Author
S. Zhang
Broad Institute
Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.
Biology Disciplines
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2017-2026 · peak 82/yrCo-Author Collaboration Network
10 top collaborators · 41 mutual co-author links328 papers
Recent·Most cited
- ImmunologybioRxiv
Single-cell profiling of healthy human kidney reveals features of sex-based transcriptional programs and tissue-specific immunity
C. M. McEvoy, J. M. Murphy, L. Zhang…·S. Q. Crome
This study profiles healthy human kidney cells from 19 donors to reveal sex-based transcriptional differences and tissue-specific immune features.
- BiophysicsbioRxiv
WESTPA 2.0: High-performance upgrades for weighted ensemble simulations and analysis of longer-timescale applications
J. Russo, S. Zhang, J. Leung…·L. Chong
The paper introduces WESTPA 2.0, an upgraded software package for weighted ensemble simulations, enhancing efficiency and analysis of longer-timescale applications.
DOI 10.1021/acs.jctc.1c01154 - Plant BiologybioRxivPreprint
Two Liberibacter Effectors Combine to Suppress Critical Innate Immune Defenses and Facilitate Huanglongbing Pathogenesis in Citrus
S. Basu, L. Huynh, S. Zhang…·G. Gupta
The paper investigates two CLas effectors, P235 and Effector 3, showing they suppress citrus innate immune responses and contribute to HLB pathogenesis by inhibiting immune proteins and inducing cell death.
DOI 10.1101/2021.11.26.470170 - Pharmacology & ToxicologybioRxiv
Remodeling of dermal adipose tissue alleviates cutaneous toxicity induced by anti-EGFR therapy
L. Chen, Q. You, M. Liu…·S. Zhang
This study shows that reducing dermal white adipose tissue (dWAT) worsens EGFR inhibitor-induced skin rash in mice, and activating PPARγ with rosiglitazone improves skin function without affecting antitumor effects.
DOI 10.7554/elife.72443 - ImmunologybioRxiv
Molecular dynamics simulations reveal the selectivity mechanism of structurally similar agonists to TLR7 and TLR8
X. Wang, Y. Chen, S. Zhang, J. N. Deng
The paper uses molecular dynamics simulations to analyze how three imidazoquinoline agonists selectively bind to TLR7 and TLR8, revealing van der Waals interactions as key to their selectivity.
DOI 10.1371/journal.pone.0260565 - BioengineeringbioRxivPreprint
High Resolution Nanostructure with Two-stages of Exponential Energy Dissipation at the Ultrathin Osteochondral Interface Tissue of Human Knee Joint
X. Wang, J. Lin, Z. Li…·O. Hongwei
The paper identifies an ultrathin calcified region in human knee osteochondral interface tissue with two-layered micro-nano structures and exponential modulus increase, enhancing energy dissipation and fatigue resistance.
DOI 10.1101/2021.10.18.464899 - BiophysicsbioRxiv
Palmitoylation of PD-L1 Regulates Its Membrane Orientation and Immune Evasion
S. Zhang, H.-Y. Wang, Z. Chen…·X. Lin
This study shows that PD-L1 palmitoylation affects its membrane orientation and immune evasion by altering its localization and interaction with PD-1 on T cells.
DOI 10.1021/acs.langmuir.4c04441 - BioengineeringbioRxivPreprint
Multiplexed ultrasound imaging using clustered gas vesicles and spectral imaging
This paper develops a method using clustered gas vesicles and spectral imaging to enable multiplexed ultrasound imaging for visualizing different species of gas vesicles at the single-cell level.
- BioengineeringbioRxivPreprint
Engineered human brown adipocyte microtissues improved glucose and insulin homeostasis in high fat diet-induced obese and diabetic mice
O. Wang, L. Han, H. Lin…·Y. Lei
This study develops 3D human brown adipose microtissues that improve glucose and insulin homeostasis in obese and diabetic mice.
DOI 10.1101/2021.10.11.463939 - Plant BiologybioRxiv
Application of synthetic peptide CEP1 increases nutrient uptake rates along plant roots
S. Roy, M. Griffiths, I. Torres-Jerez…·M. Udvardi
The paper screens synthetic peptides for enhancing nutrient uptake in plants, finding that CEP1 increases nitrate, phosphate, and sulfate uptake in Medicago and Arabidopsis.
DOI 10.3389/fpls.2021.793145 - Plant BiologybioRxivPreprint
Regulation of drought tolerance in Arabidopsis involves PLATZ4-mediated transcriptional suppression of PIP2;8
This study identifies PLATZ4's role in enhancing drought tolerance and ABA sensitivity in Arabidopsis by suppressing PIP2;8 and upregulating stress-related genes through interaction with AITR6.
DOI 10.1101/2021.10.06.463369 - Cancer BiologybioRxiv
An mRNA processing pathway suppresses metastasis by governing translational control from the nucleus
A. Navickas, H. Asgharian, J. Winkler…·H. Goodarzi
The paper identifies HNRNPC and PABPC4 as regulators of alternative polyadenylation that suppress breast cancer metastasis by controlling mRNA translation.
- Cancer BiologybioRxiv
Sex Differences in Brain Tumor Glutamine Metabolism Reveal Sex-Specific Vulnerabilities to Treatment
J. Sponagel, J. K. Jones, C. Frankfater…·J. E. Ippolito
The paper identifies sex differences in glutamine metabolism in glioblastomas, showing male tumors have higher glutamine uptake and are more sensitive to GLS1 inhibition than female tumors.
- MicrobiologybioRxiv
Biomechanical interactions of Schistosoma mansoni eggs with vascular endothelial cells facilitate egg extravasation
Y.-T. Yeh, D. E. Skinner, E. Criado-Hidalgo…·C. R. Caffrey
This study investigates how Schistosoma mansoni eggs interact biomechanically with vascular endothelial cells to facilitate their extravasation from blood vessels.
- BiochemistrybioRxivPreprint
Mechanistic insights into dynamic mutual regulation of USP14 and proteasome
S. Zhang, S. Zou, D. Yin…·Y. Mao
This study reveals the dynamic regulation of USP14 and proteasome through cryo-EM structures and time-resolved analysis, identifying three regulatory checkpoints in proteasome function.
- Plant BiologybioRxivPreprint
Genome-wide characterization of the R2R3-MYB transcription factors in pepper (Capsicum spp.) unveils the role of CaMYB101 as repressor in anthocyanin biosynthesis
Y. Liu, Y. Wu, Z. Wang…·A. Bovy
This study identifies CaMYB101 as an anthocyanin biosynthesis repressor in pepper through genome-wide R2R3-MYB analysis and virus-induced gene silencing.
DOI 10.1101/2021.08.24.457473 - MicrobiologybioRxiv
Scaffolding protein GspB/OutB facilitates assembly of the Dickeya dadantii type 2 secretion system by anchoring the outer membrane secretin pore to the inner membrane and to the peptidoglycan cell wall.
S. Zhang, S. Gu, P. Rycroft…·V. E. Shevchik
This paper shows that GspB scaffolds the T2SS secretin pore in Dickeya dadantii by anchoring it to the inner membrane and peptidoglycan, and identifies its conserved periplasmic domain and interactions with GspD.
DOI 10.1128/mbio.00253-22 - MicrobiologybioRxiv
Structural Basis and Mode of Action for Two Broadly Neutralizing Antibodies Against SARS-CoV-2 Emerging Variants of Concern
W. Mothes, W. Li, Y. Chen…·A. Finzi
This study characterizes two SARS-CoV-2 antibodies effective against variants, showing their structural basis and mechanisms of neutralization.
DOI 10.1016/j.celrep.2021.110210 - Cell BiologybioRxiv
Increasing cell size remodels the proteome and promotes senescence
M. C. Lanz, E. Zatulovskiy, M. P. Swaffer…·J. M. Skotheim
The paper shows that increasing cell size remodels the proteome and promotes senescence, but polyploidization can prevent this by altering the DNA-to-ploidy ratio.
DOI 10.1016/j.molcel.2022.07.017 - MicrobiologybioRxiv
Specific phenotypic, genomic, and fitness evolutionary trajectories toward antibiotic resistance induced by pesticide co-stressors in Escherichia coli
Y. Xing, X. Kang, S. Zhang, Y. Men
This study shows that co-exposure to pesticides and streptomycin in E. coli leads to stronger antibiotic resistance with lower fitness costs and persistence after selective pressure removal.
DOI 10.1038/s43705-021-00041-z - Cell BiologybioRxiv
Unconventional tonicity-regulated nuclear trafficking of NFAT5 mediated by KPNB1, XPOT and RUVBL2
C. Y. Cheung, T.-T. Huang, N. Chow…·B. C. B. Ko
This study identifies KPNB1 and RUVBL2 as key regulators of NFAT5's unconventional tonicity-dependent nuclear trafficking.
DOI 10.1242/jcs.259280 - Plant BiologybioRxiv
A novel non-antibiotic selectable marker GASA6 for plant transformation
Y. Luo, J. Gu, X. Wang, S. Zhang
This paper identifies GASA6 as a non-antibiotic selectable marker for plant transformation, demonstrating its effectiveness in tobacco through growth and regeneration on sugar-free media.
DOI 10.1007/s11240-021-02204-1 - Plant BiologybioRxiv
Timing of meristem initiation and maintenance determines the morphology of fern gametophytes
X. Wu, A. Yan, S. McAdam…·Y. Zhou
The paper uses live imaging to show that timing of meristem transitions in fern gametophytes affects their morphology.
DOI 10.1093/jxb/erab307 - MicrobiologybioRxiv
A secondary metabolite drives intraspecies antagonism in a gut symbiont that is inhibited by cell wall acetylation
M. Özcam, J.-H. Oh, R. Tocmo…·J. P. van Pijkeren
The study identifies a secondary metabolite produced by L. reuteri that mediates intraspecies antagonism, with resistance linked to cell wall acetylation.
- MicrobiologybioRxivPreprint
Single Cell Raman-Deuterium Isotope Probing for Drug Resistance of Elizabethkingia spp.
S. Yuan, Y. Chen, Y. Song…·G. Sun
This study uses single cell Raman-DIP to rapidly determine antimicrobial susceptibility of Elizabethkingia spp. and confirms minocycline and levofloxacin as first-line treatments.
DOI 10.1101/2021.06.08.447646 - BiophysicsbioRxiv
Differential regulation of alternative promoters emerges from unified kinetics of enhancer-promoter interaction
J. Wang, S. Zhang, H. Lu, H. Xu
The paper quantifies how two alternative promoters of the Bicoid target gene hunchback are differentially regulated by Bcd through enhancer-promoter interactions in Drosophila embryos.
DOI 10.1038/s41467-022-30315-6 - ImmunologybioRxivPreprint
Structurally and functionally distinct early antibody responses predict COVID-19 disease trajectory and mRNA vaccine response
S. Chakraborty, J. C. Gonzalez, B. L. Sievers…·T. T. Wang
The paper identifies early antibody responses that predict COVID-19 severity and vaccine response, showing functional differences in inflammation regulation.
DOI 10.1101/2021.05.25.445649 - BiochemistrybioRxiv
MLC Seq: De novo sequencing of full-length tRNA isoforms by mass ladder complementation
X. Yuan, Y. Su, X. Zhang…·S. Zhang
This paper introduces MLC-Seq, a method to sequence full-length tRNA isoforms and quantify RNA modifications, demonstrating its application on yeast and mouse tRNAs.