Jian Xu
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View article: AI-powered high-throughput digital colony picker platform for sorting microbial strains by multi-modal phenotypes
AI-powered high-throughput digital colony picker platform for sorting microbial strains by multi-modal phenotypes Open
Phenotype-based screening remains a major bottleneck in the development of microbial cell factories. Here, we present a Digital Colony Picker (DCP), an AI-powered platform for automated, high-throughput screening and export of microbial cl…
View article: Time to strengthen the governance of new contaminants in the environment
Time to strengthen the governance of new contaminants in the environment Open
View article: QuarkMed Medical Foundation Model Technical Report
QuarkMed Medical Foundation Model Technical Report Open
Recent advancements in large language models have significantly accelerated their adoption in healthcare applications, including AI-powered medical consultations, diagnostic report assistance, and medical search tools. However, medical tas…
View article: High-throughput Raman-activated cell sorting of microalgal genome-wide edited library revealed a new regulatory pathway for carotenoid synthesis
High-throughput Raman-activated cell sorting of microalgal genome-wide edited library revealed a new regulatory pathway for carotenoid synthesis Open
Functional genomics has been hampered by the paucity of efficient methods that connect genotype and metabolic phenotype at single-cell resolution. Using the industrial microalga Nannochloropsis oceanica as a model, we introduced a platform…
View article: Label-free isolation of lipid-rich Saccharomyces cerevisiae mutant by high-throughput flow-mode Raman-activated cell sorting and multi-omics analysis for uncovering the mechanism of enhanced lipid accumulation
Label-free isolation of lipid-rich Saccharomyces cerevisiae mutant by high-throughput flow-mode Raman-activated cell sorting and multi-omics analysis for uncovering the mechanism of enhanced lipid accumulation Open
In this study, a mutant strain of Saccharomyces cerevisiae MU2R48 with 40.26% lipid content was successfully generated through zeocin-ARTP mutagenesis combined with Raman-activated cell sorting. Multi-omics analysis revealed that the enhan…
View article: Label-free high-throughput live-cell sorting of genome-wide random mutagenesis libraries for metabolic traits by Raman flow cytometry
Label-free high-throughput live-cell sorting of genome-wide random mutagenesis libraries for metabolic traits by Raman flow cytometry Open
A full spontaneous single-cell Raman spectrum captures the metabolic phenome in a label-free and noninvasive manner. However, Raman-activated cell sorting (RACS) of rare target cells from highly heterogeneous systems has remained largely c…
View article: Raman flow cytometry based single‐cell species classification, viable‐cell counting and vitality test for probiotic products
Raman flow cytometry based single‐cell species classification, viable‐cell counting and vitality test for probiotic products Open
The rapidly expanding probiotic industry demands efficient methods for quality assessment of probiotic products. We previously established a microscopic imaging and Raman spectroscopy (miRS) based approach for rapid identification and test…
View article: Clinical potential and experimental validation of prognostic genes in hepatocellular carcinoma revealed by risk modeling utilizing single cell and transcriptome constructs
Clinical potential and experimental validation of prognostic genes in hepatocellular carcinoma revealed by risk modeling utilizing single cell and transcriptome constructs Open
Background Hepatocellular carcinoma (HCC) is the leading cause of tumor-related mortality worldwide. There is an urgent need for predictive biomarkers to guide treatment decisions. This study aimed to identify robust prognostic genes for H…
View article: Detecting and classifying metabolic activity of Staphylococcus aureus by D2O-probed single-cell Raman spectroscopy and machine learning
Detecting and classifying metabolic activity of Staphylococcus aureus by D2O-probed single-cell Raman spectroscopy and machine learning Open
The metabolic activity of pathogens poses a substantial risk across diverse domains, including food safety, vaccine development, clinical treatment, and national biosecurity. Conventional subculturing methods typically require several days…
View article: Phylogeny of Camphora and Cinnamomum (Lauraceae) Based on Plastome and Nuclear Ribosomal DNA Data
Phylogeny of Camphora and Cinnamomum (Lauraceae) Based on Plastome and Nuclear Ribosomal DNA Data Open
Camphora Fabr. is a genus in the family Lauraceae, comprising over 20 tropical and subtropical tree species. Since the genera Camphora and Cinnamomum Schaeff. were described, there has been a long-lasting controversy regarding the phylogen…
View article: Phylogeny-metabolism dual-directed single-cell genomics for dissecting and mining ecosystem function by FISH-scRACS-seq
Phylogeny-metabolism dual-directed single-cell genomics for dissecting and mining ecosystem function by FISH-scRACS-seq Open
View article: Super-Wetting and Self-Cleaning Nanofibrous Membrane for High-Efficiency Gravity-Driven Oil-Water Emulsion Separation
Super-Wetting and Self-Cleaning Nanofibrous Membrane for High-Efficiency Gravity-Driven Oil-Water Emulsion Separation Open
View article: α/β hydrolase domain-containing protein 1 acts as a lysolipid lipase and is involved in lipid droplet formation
α/β hydrolase domain-containing protein 1 acts as a lysolipid lipase and is involved in lipid droplet formation Open
Lipid droplets (LDs) are the major sites of lipid and energy homeostasis. However, few LD biogenesis proteins have been identified. Using model microalga Chlamydomonas, we show that ABHD1, an α/β-hydrolase domain-containing protein, is loc…
View article: Mining robust in situ phosphorus-accumulating organisms via single-cell RACS-Culture for rational ecosystem engineering
Mining robust in situ phosphorus-accumulating organisms via single-cell RACS-Culture for rational ecosystem engineering Open
Rational engineering of ecosystems is often hindered by the inability to rapidly identify, profile, culture and apply the microbes that underlie target metabolic activity in situ. Here, we developed an In-situ Metabolism driven Sorting, Cu…
View article: Assessing the physiological properties of baker's yeast based on single-cell Raman spectrum technology
Assessing the physiological properties of baker's yeast based on single-cell Raman spectrum technology Open
With rapid progress in the yeast fermentation industry, a comprehensive commercial yeast quality assessment approach integrating efficiency, accuracy, sensitivity, and cost-effectiveness is required. In this study, a new yeast quality asse…
View article: 3094 – ESTABLISHING GATA2-DEPENDENT HEMATOPOIETIC SIGNALING NETWORKS AND PATHOGENIC MECHANISMS
3094 – ESTABLISHING GATA2-DEPENDENT HEMATOPOIETIC SIGNALING NETWORKS AND PATHOGENIC MECHANISMS Open
View article: Genome-wide identification and expression analysis of the SPL transcription factor family and its response to abiotic stress in Pisum sativum L
Genome-wide identification and expression analysis of the SPL transcription factor family and its response to abiotic stress in Pisum sativum L Open
View article: Microbial community diversity during algal inhibition using slow-release microcapsules of tea polyphenols
Microbial community diversity during algal inhibition using slow-release microcapsules of tea polyphenols Open
Harmful algal blooms (HABs) resulting from eutrophication pose a major threat to ecosystems and human health, necessitating effective control measures. Allelochemicals have shown their importance in slowing down algal proliferation due to …
View article: Tandem gene duplication selected by activation of horizontally transferred gene in bacteria
Tandem gene duplication selected by activation of horizontally transferred gene in bacteria Open
Horizontal gene transfer occurs frequently in bacteria, but the mechanism driving activation and optimization of the expression of horizontally transferred genes (HTGs) in new recipient strains is not clear. Our previous study found that s…
View article: eLife Assessment: Near-perfect precise on-target editing of human hematopoietic stem and progenitor cells
eLife Assessment: Near-perfect precise on-target editing of human hematopoietic stem and progenitor cells Open
Precision gene editing in primary hematopoietic stem and progenitor cells (HSPCs) would facilitate both curative treatments for monogenic disorders as well as disease modelling. Precise efficiencies even with the CRISPR/Cas system, however…
View article: Knocking Out Chloroplastic Aldolases/Rubisco Lysine Methyltransferase Enhances Biomass Accumulation in Nannochloropsis oceanica under High-Light Stress
Knocking Out Chloroplastic Aldolases/Rubisco Lysine Methyltransferase Enhances Biomass Accumulation in Nannochloropsis oceanica under High-Light Stress Open
Rubisco large-subunit methyltransferase (LSMT), a SET-domain protein lysine methyltransferase, catalyzes the formation of trimethyl-lysine in the large subunit of Rubisco or in fructose-1,6-bisphosphate aldolases (FBAs). Rubisco and FBAs a…
View article: Construction of a prognostic prediction model in liver cancer based on genes involved in integrin cell surface interactions pathway by multi-omics screening
Construction of a prognostic prediction model in liver cancer based on genes involved in integrin cell surface interactions pathway by multi-omics screening Open
Background: Liver cancer is a common malignant tumor with an increasing incidence in recent years. We aimed to develop a model by integrating clinical information and multi-omics profiles of genes to predict survival of patients with liver…
View article: The prominent and heterogeneous gender disparities in scientific novelty: evidence from biomedical doctoral theses
The prominent and heterogeneous gender disparities in scientific novelty: evidence from biomedical doctoral theses Open
Scientific novelty is the essential driving force for research breakthroughs and innovation. However, little is known about how early-career scientists pursue novel research paths, and the gender disparities in this process. To address thi…
View article: Assessing the Physiological Properties of Baker's Yeast Based on Single-Cell Raman Spectrum Technology
Assessing the Physiological Properties of Baker's Yeast Based on Single-Cell Raman Spectrum Technology Open
View article: Circular mRNA-based TCR-T offers a safe and effective therapeutic strategy for treatment of cytomegalovirus infection
Circular mRNA-based TCR-T offers a safe and effective therapeutic strategy for treatment of cytomegalovirus infection Open
View article: Culture-free identification of fast-growing cyanobacteria cells by Raman-activated gravity-driven encapsulation and sequencing
Culture-free identification of fast-growing cyanobacteria cells by Raman-activated gravity-driven encapsulation and sequencing Open
View article: Rapid Mycobacterium abscessus antimicrobial susceptibility testing based on antibiotic treatment response mapping via Raman Microspectroscopy
Rapid Mycobacterium abscessus antimicrobial susceptibility testing based on antibiotic treatment response mapping via Raman Microspectroscopy Open
Objectives Antimicrobial susceptibility tests (ASTs) are pivotal tools for detecting and combating infections caused by multidrug-resistant rapidly growing mycobacteria (RGM) but are time-consuming and labor-intensive. Design We used a Myc…
View article: Genome-wide RNAi-based knockdown mutant library of microalgae reveals a distinct high-light adaptation mechanism in Nannochloropsis
Genome-wide RNAi-based knockdown mutant library of microalgae reveals a distinct high-light adaptation mechanism in Nannochloropsis Open
In microalgae,RNA interference (RNAi)-based genome-wide screening has not been established, due to the difficulty in obtaining a library of long hairpin RNAs (lhRNA) that trigger gene down-regulation. Here for the model industrial microalg…
View article: eLife Assessment: Near-perfect precise on-target editing of human hematopoietic stem and progenitor cells
eLife Assessment: Near-perfect precise on-target editing of human hematopoietic stem and progenitor cells Open
Precision gene editing in primary hematopoietic stem and progenitor cells (HSPCs) would facilitate both curative treatments for monogenic disorders as well as disease modelling. Precise efficiencies even with the CRISPR/Cas system, however…
View article: Raman Spectroscopy Combined with Malaria Protein for Early Capture and Recognition of Broad-Spectrum Circulating Tumor Cells
Raman Spectroscopy Combined with Malaria Protein for Early Capture and Recognition of Broad-Spectrum Circulating Tumor Cells Open
Early identification of tumors can significantly reduce the mortality rate. Circulating tumor cells (CTCs) are a type of tumor cell that detaches from the primary tumor and circulates through the bloodstream. Monitoring CTCs may allow the …