Mingyang Lu
YOU?
Author Swipe
View article: Functional characterization of EuSIP1 reveals its central role in trans-polyisoprene biosynthesis in Eucommia ulmoides
Functional characterization of EuSIP1 reveals its central role in trans-polyisoprene biosynthesis in Eucommia ulmoides Open
View article: A computational approach for perturbation-induced EMT transitions
A computational approach for perturbation-induced EMT transitions Open
The Epithelial-mesenchymal transition (EMT) is a cellular state transition fundamental to development, wound healing, and cancer metastasis. The gene regulatory mechanisms underlying EMT have been extensively documented, revealing gene reg…
View article: Cell‐free transcriptomic profiles and mechanism insights in female androgenetic alopecia
Cell‐free transcriptomic profiles and mechanism insights in female androgenetic alopecia Open
View article: NGRPO: Negative-enhanced Group Relative Policy Optimization
NGRPO: Negative-enhanced Group Relative Policy Optimization Open
RLVR has enhanced the reasoning capabilities of Large Language Models (LLMs) across various tasks. However, GRPO, a representative RLVR algorithm, suffers from a critical limitation: when all responses within a group are either entirely co…
View article: Effects of individual and group factors on the social relationships of Budgerigars
Effects of individual and group factors on the social relationships of Budgerigars Open
Social animals often form dynamic relationships with group members, which have been associated with increased social learning, survival and reproductive success. Social relationships can be shaped by both group and individual factors; howe…
View article: Neglected vertical linkage: A study on the form of the canal network in the Huainan Salt Area during the Ming and Qing dynasties using space syntax measurements
Neglected vertical linkage: A study on the form of the canal network in the Huainan Salt Area during the Ming and Qing dynasties using space syntax measurements Open
The Huainan Salt Area was the most essential salt production and trade base in ancient China. The government had strict control over the essential tax source region and left behind numerous official documents. However, when comparing with …
View article: Comparative Assessment of Two Numerical Methods for Eddy Current Nondestructive Evaluation: Insights from Benchmark Studies
Comparative Assessment of Two Numerical Methods for Eddy Current Nondestructive Evaluation: Insights from Benchmark Studies Open
View article: Curcumin suppresses colorectal tumorigenesis through restoring the gut microbiota and metabolites
Curcumin suppresses colorectal tumorigenesis through restoring the gut microbiota and metabolites Open
The gut microecological balance was disrupted in AOM/DSS-induced CRC mice, accompanied by metabolite dysbiosis. Curcumin restored the equilibrium of the microbiota and regulated metabolites, highly indicating that curcumin may alleviate th…
View article: Dissecting reversible and irreversible single cell state transitions from gene regulatory networks
Dissecting reversible and irreversible single cell state transitions from gene regulatory networks Open
Understanding cell state transitions and their governing regulatory mechanisms remains one of the fundamental questions in biology. We develop a computational method, state transition inference using cross-cell correlations (STICCC), for p…
View article: Data-driven modeling of core gene regulatory network underlying leukemogenesis in IDH mutant AML
Data-driven modeling of core gene regulatory network underlying leukemogenesis in IDH mutant AML Open
View article: Water Extract of Rice False Smut Balls Activates Nrf2/HO-1 and Apoptosis Pathways, Causing Liver Injury
Water Extract of Rice False Smut Balls Activates Nrf2/HO-1 and Apoptosis Pathways, Causing Liver Injury Open
Ustiloxins are vital cyclopeptide mycotoxins originally isolated from rice false smut balls that form in rice spikelets infected by the fungal pathogen Ustilaginoidea virens. The toxicity of the water extract of rice false smut balls (RBWE…
View article: Data-driven modeling of core gene regulatory network underlying leukemogenesis in IDH mutant AML
Data-driven modeling of core gene regulatory network underlying leukemogenesis in IDH mutant AML Open
Acute myeloid leukemia (AML) is characterized by uncontrolled proliferation of poorly differentiated myeloid cells, with a heterogenous mutational landscape. Mutations in IDH1 and IDH2 are found in 20% of the AML cases. Although much effor…
View article: Data from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation
Data from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation Open
Abnormal metabolism is a hallmark of cancer, yet its regulation remains poorly understood. Cancer cells were considered to utilize primarily glycolysis for ATP production, referred to as the Warburg effect. However, recent evidence suggest…
View article: Data from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation
Data from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation Open
Abnormal metabolism is a hallmark of cancer, yet its regulation remains poorly understood. Cancer cells were considered to utilize primarily glycolysis for ATP production, referred to as the Warburg effect. However, recent evidence suggest…
View article: Supplemental Information on model formulation, data analysis and experimental evidence from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation
Supplemental Information on model formulation, data analysis and experimental evidence from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation Open
The supplemental information includes detailed descriptions about the mathematical models for the core AMPK:HIF-1:ROS circuit, the regulation of metabolism by MYC, c-SRC and RAS and the evaluation of different metabolic therapeutic strateg…
View article: Supplemental Information on model formulation, data analysis and experimental evidence from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation
Supplemental Information on model formulation, data analysis and experimental evidence from Modeling the Genetic Regulation of Cancer Metabolism: Interplay between Glycolysis and Oxidative Phosphorylation Open
The supplemental information includes detailed descriptions about the mathematical models for the core AMPK:HIF-1:ROS circuit, the regulation of metabolism by MYC, c-SRC and RAS and the evaluation of different metabolic therapeutic strateg…
View article: A quantitative evaluation of topological motifs and their coupling in gene circuit state distributions
A quantitative evaluation of topological motifs and their coupling in gene circuit state distributions Open
View article: A data-driven optimization method for coarse-graining gene regulatory networks
A data-driven optimization method for coarse-graining gene regulatory networks Open
View article: Microstructure and Properties of Al-Cr-Fe-Ni-Cu High Entropy Alloy on Zl205a by High-Speed Laser Cladding
Microstructure and Properties of Al-Cr-Fe-Ni-Cu High Entropy Alloy on Zl205a by High-Speed Laser Cladding Open
View article: Additional file 3 of NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity
Additional file 3 of NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity Open
Additional file 3: Supplementary tables: Table S1. Summary of the transcription factor (TF)-target databases for both human and mouse genomes. Table S2. Summary of the publicly available gene expression data sets for benchmarking TF-target…
View article: NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity
NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity Open
A major question in systems biology is how to identify the core gene regulatory circuit that governs the decision-making of a biological process. Here, we develop a computational platform, named NetAct, for constructing core transcription …
View article: What Makes a Functional Gene Regulatory Network? A Circuit Motif Analysis
What Makes a Functional Gene Regulatory Network? A Circuit Motif Analysis Open
One of the key questions in systems biology is to understand the roles of gene regulatory circuits in determining cellular states and their functions. In previous studies, some researchers have inferred large gene networks from genome wide…
View article: A Data-Driven Optimization Method for Coarse-Graining Gene Regulatory Networks
A Data-Driven Optimization Method for Coarse-Graining Gene Regulatory Networks Open
One major challenge in systems biology is to understand how various genes in a gene regulatory network (GRN) collectively perform their functions and control network dynamics. This task becomes extremely hard to tackle in the case of large…
View article: A Quantitative Evaluation of Topological Motifs and Their Coupling in Gene Circuit State Distributions
A Quantitative Evaluation of Topological Motifs and Their Coupling in Gene Circuit State Distributions Open
One of the major challenges in biology is to understand how gene interactions collaborate to determine overall functions of biological systems. Here, we present a new computational framework that enables systematic, high-throughput, and qu…
View article: NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity
NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity Open
A major question in systems biology is how to identify the core gene regulatory circuit that governs the decision-making of a biological process. Here, we develop a computational platform, named NetAct, for constructing core transcription-…
View article: Bronchial epithelium epithelial-mesenchymal plasticity forms aberrant basaloid-like cells in vitro
Bronchial epithelium epithelial-mesenchymal plasticity forms aberrant basaloid-like cells in vitro Open
Although epithelial-mesenchymal transition (EMT) is a common feature of fibrotic lung disease, its role in fibrogenesis is controversial. Recently, aberrant basaloid cells were identified in fibrotic lung tissue as a novel epithelial cell …
View article: Preparation of Nereid oligopeptide and investigation of the mechanism underlying the induction of apoptosis in human lung cancer H1299 cells
Preparation of Nereid oligopeptide and investigation of the mechanism underlying the induction of apoptosis in human lung cancer H1299 cells Open
In the present study, oligopeptides from Nereid (Perinereis aibuhitensis) were prepared via enzymatic hydrolysis, and the mechanism underlying the induction of apoptosis in H1299 cells was investigated. According to the analysis of …
View article: Enabling Type Checking on Columns in Data Frame Libraries by Abstract Interpretation
Enabling Type Checking on Columns in Data Frame Libraries by Abstract Interpretation Open
Data frames are a tabular data structure widely used in transforming data to an appropriate form in data analysis, especially in data wrangling. However, when data frames are implemented with libraries rather than supported at the language…
View article: The Impact of Internet Economics, Computer, and Family Educational and Financial Background on Students’ Academic Performances: Evidence from Mexican Seven Graders
The Impact of Internet Economics, Computer, and Family Educational and Financial Background on Students’ Academic Performances: Evidence from Mexican Seven Graders Open
With the development of technology and specific advanced devices, the use of computers and the Internet started to play a crucial and irreplaceable role in daily life.Such strong technological tools are having an important impact on many a…
View article: Measurement of Radius of a Metallic Ball Using Eddy Current Testing Based on Peak Frequency Difference Feature
Measurement of Radius of a Metallic Ball Using Eddy Current Testing Based on Peak Frequency Difference Feature Open
This paper proposes a linear eddy-current feature to determine the radius of a metallic ball in a non-contact manner. An electromagnetic eddy-current sensor with two coils is placed co-axially to the metal ball during measurement. It is we…