Author
Y. Song
Primary ORCID profile (0009-0002-6987-8332 · 1 paper)Unclaimed ORCID profile · follow to get notified of new preprints
Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.
Same name, identified by ORCID
Biology Disciplines
Click to filter author papersSignature Assays, Organisms & Methods
Click to filter · or open tagActivity by Year
2017-2025 · peak 24/yrCo-Author Collaboration Network
10 top collaborators · 20 mutual co-author links98 papers
Recent·Most cited
- MicrobiologybioRxiv
Phenotypic characterization and analysis of complete genomes of two distinct strains of the proposed species "L. swaminathanii"
L. K. Hudson, H. K. Chaggar, C. N. Schamp…·T. G. Denes
The paper characterizes two new strains of Listeria swaminathanii, comparing their genomes and phenotypes to the type strain, finding high genomic similarity but some phenotypic differences.
DOI 10.1038/s41598-022-13119-y - Plant BiologybioRxivPreprint
Identification of YAB11-NGAL1 controlling leaf serrations through enhanced genome-wide association studies of Populus
P. Liu, C. Bu, P. Chen…·Y. Song
The paper identifies YAB11-NGAL1 as a regulator of leaf serration in poplar through GWAS and eQTN mapping, showing its role in environmental adaptation and morphological plasticity.
DOI 10.1101/2022.04.07.487505 - BioengineeringbioRxivPreprint
MRSCloud: a Cloud-based MR Spectroscopy Tool for Basis Set Simulation
S. C. N. Hui, M. Saleh, H. J. Zoellner…·R. Edden
MRSCloud is a cloud-based tool for simulating MR spectroscopy basis sets, achieving high accuracy and reduced runtime compared to existing methods.
DOI 10.1101/2022.03.22.485310 - MicrobiologybioRxivPreprint
Strain-specific alterations in gut microbiome and host immune responses elicited by Bifidobacterium pseudolongum
B. Ma, S. J. Gavzy, V. Saxena…·J. S. Bromberg
This study compares two Bifidobacterium pseudolongum strains to determine strain-specific effects on gut microbiota and host immune responses.
DOI 10.1101/2022.03.16.484607 - ImmunologybioRxiv
Rapid GPR183-mediated recruitment of eosinophils to the lung after Mycobacterium tuberculosis infection
A. C. Bohrer, E. Castro, C. E. Tocheny…·K. D. Mayer-Barber
This study shows that eosinophils migrate to the lungs early after Mycobacterium tuberculosis infection in mice and macaques, mediated by GPR183 and Ch25h, independent of CCR3.
DOI 10.1016/j.celrep.2022.111144 - Cell BiologybioRxiv
Endometriotic Organoids: A Novel In Vitro Model of Endometriotic Lesion Development.
Y. Song, G. W. Burns, N. R. Joshi…·A. T. Fazleabas
This study develops endometriotic organoids to model epithelial-stromal interactions and cell invasion in endometriotic lesion development, finding increased invasion with estrogen or proinflammatory macrophages.
DOI 10.1172/jci.insight.160815 - BiophysicsbioRxivPreprint
Importance of linear combination modeling for quantification of Glutathione and GABA levels using Hadamard-edited MRS
Y. Song, H. J. Zollner, S. C. N. Hui…·R. A. E. Edden
This study compares simple peak fitting and linear combination modeling for quantifying glutathione levels in MRS data, finding improved reproducibility with LCM for HERMES data.
- Cancer BiologybioRxivPreprint
New insights into colorectal cancer liver metastasis carcinogenesis and its effect with moxibustion
Y. Song, L. Pei, J. Guo…·J. Sun
This study investigates the effect of moxibustion on colorectal cancer liver metastasis using animal models, finding reduced metastasis rates and identifying potential molecular targets.
DOI 10.1101/2021.12.08.471188 - MicrobiologybioRxiv
Evolution and Genetic Diversity of the Retroviral Envelope in Anamniotes
Y. Chen, X. Wang, M.-E. Liao…·J. Cui
This study identifies and classifies 25,498 gamma-type Env-containing ERVs in anamniotes, revealing genetic diversity and evolutionary patterns through phylogenomic analysis.
- Cell BiologybioRxivPreprint
Golgi structural defect impairs glycosaminoglycan synthesis, sulfation, and secretion
E. Ahat, Y. Song, K. Xia…·Y. Wang
This study shows that disrupting Golgi structure by knocking out GRASP55 and GRASP65 alters glycosaminoglycan synthesis, sulfation, and secretion.
DOI 10.1101/2021.10.14.464461 - MicrobiologybioRxivPreprint
SARS-CoV-2 hijacks neutralizing dimeric IgA for enhanced nasal infection and injury
B. Zhou, R. Zhou, J. F.-W. Chan…·Z. Chen
This study shows that dimeric IgA antibodies can enhance SARS-CoV-2 nasal infection and injury in Syrian hamsters by engaging CD209 as an alternative receptor.
DOI 10.1101/2021.10.05.463282 - Plant BiologybioRxivPreprint
A screen for mutants deficient in coronatine-mediated suppression of root immunity identifies Arabidopsis SDA1 as a novel integrator of immunity and phytohormone signaling
Y. Song, X.-C. Zhang, Y. Qiu…·C. H. Haney
This study identifies Arabidopsis SDA1 as a novel negative regulator of root and leaf immunity through a genetic screen for mutants impaired in coronatine-mediated suppression of root immunity.
DOI 10.1101/2021.09.12.459990 - Plant BiologybioRxivPreprint
Natural variation in Arabidopsis ISR1 affects iron localization and induced systemic resistance
A. Socha, Y. Song, B. Ross…·C. H. Haney
The paper identifies ISR1 as a gene affecting iron localization and induced systemic resistance in Arabidopsis, showing its role in immunity and ROS production.
DOI 10.1101/2021.09.01.458588 - MicrobiologybioRxiv
A bacterium-like particle vaccine displaying Zika virus prM-E induces systemic immune responses in mice
DOI 10.1111/tbed.14594 - MicrobiologybioRxivPreprint
ADAR mediated A-to-I RNA editing affects SARS-CoV-2 characteristics and fuels its evolution
Y. Song, X. He, W. Yang…·R. Zhang
The paper identifies A-to-I RNA editing in SARS-CoV-2 by analyzing RNA-seq data and shows it affects viral characteristics and evolution.
DOI 10.1101/2021.07.22.453345 - Evolutionary BiologybioRxivPreprint
One viral sequence for each host? - The neglected within-host diversity as the main stage of SARS-CoV-2 evolution
Y. Ruan, M. Hou, J. Li…·C.-I. Wu
The paper shows that SARS-CoV-2 exhibits substantial within-host genetic diversity, challenging the assumption of low diversity per infected individual and highlighting the importance of studying evolution within hosts.
DOI 10.1101/2021.06.21.449205 - 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 - ImmunologybioRxiv
Eosinophils are an integral component of the pulmonary granulocyte response in Tuberculosis and promote host resistance in mice
A. C. Bohrer, E. Castro, Z. Hu…·K. D. Mayer-Barber
This study shows eosinophils are recruited to tuberculosis-infected lung tissue in mice and contribute to host resistance against Mtb infection.
- BiophysicsbioRxiv
Transient nuclear deformation primes epigenetic state and promotes cell reprogramming
Y. Song, J. Soto, B. Chen…·S. Li
This study shows that transient nuclear deformation enhances cell reprogramming by altering epigenetic states, specifically reducing DNA methylation and H3K9 methylation.
- Scientific Communication & EducationbioRxivPreprint
Naming Human Diseases: Ethical Principles of Curating Exclusive Substitute for Inopportune Nosology
Z. Hu, Y. Chen, Y. Song…·H. Huang
The paper examines ethical issues in disease naming and proposes a method using deep learning to find suitable substitutes for outdated disease names.
DOI 10.1101/2021.05.01.442270 - Cancer BiologybioRxiv
Multi-omics profiling of U2AF1 mutants dissects pathogenic mechanisms affecting RNA granules in myeloid malignancies
G. Biancon, P. Joshi, J. T. Zimmer…·S. Halene
This study uses multi-omics profiling to analyze U2AF1 mutations in myeloid malignancies, revealing altered RNA binding, splicing, and stress granule formation.
DOI 10.1016/j.molcel.2022.02.025 - BiophysicsbioRxiv
Cost-precision trade-off relation determines the optimal morphogen gradient for accurate biological pattern formation
The paper shows that the optimal morphogen gradient length minimizes thermodynamic cost while ensuring precise boundary formation in development.
DOI 10.7554/elife.70034 - PathologybioRxivPreprint
Vibrio cholerae may be transmitted to humans from bullfrog through food or water
y. yang, x. zhu, y. chen…·x. ai
This study identifies Vibrio cholerae in diseased bullfrogs and suggests it can transmit to humans via bullfrog food and aquaculture water, posing a health risk.
DOI 10.1101/2021.04.09.439145 - Cell BiologybioRxivPreprint
Autophagy Induced by Palmitic Acid: a Brake in NAFLD Neutrophils
Z. Peng, H. Wang, A. Y. Hsu…·G. Liu
This paper shows that palmitic acid induces autophagy in NAFLD neutrophils, leading to granule degradation and reduced adhesion, impairing neutrophil function.
DOI 10.1101/2021.04.02.438261 - BiochemistrybioRxivPreprint
Site-specific steric control of SARS-CoV-2 spike glycosylation
J. D. Allen, H. Chawla, F. Samsudin…·M. Crispin
The paper compares glycosylation patterns of recombinant SARS-CoV-2 spike proteins across labs with infectious virus S protein, finding conserved site-specific glycan maturation stalling linked to protein structure.
DOI 10.1101/2021.03.08.433764 - Plant BiologybioRxivPreprint
Rice NIN-LIKE PROTEIN 3 plays a significant role in nitrogen use efficiency and grain yield under nitrate-sufficient conditions
C. Xiang, Z.-S. Zhang, J.-Q. Xia…·J. Wu
This study identifies OsNLP3 as a key regulator of nitrogen use efficiency and grain yield in rice under nitrate-sufficient conditions.
DOI 10.1101/2021.02.19.432039 - Cancer BiologyCancer ResearchPeer-reviewed
"3G" Trial: An RNA Editing Signature for Guiding Gastric Cancer Chemotherapy
O. An, Y. Song, X. Ke…·Singapore Gastric Cancer Consortium (SGCC)
The paper develops an RNA editing signature (GCRE) to predict chemotherapy response in gastric cancer, achieving 84% accuracy and showing better outcomes in patients with higher editing levels.
DOI 10.1158/0008-5472.can-20-2872