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1,424 results on '"Yang, Wenjian"'

1. A noncoding regulatory variant in IKZF1 increases acute lymphoblastic leukemia risk in Hispanic/Latino children

Author

de Smith, Adam J, Wahlster, Lara, Jeon, Soyoung, Kachuri, Linda, Black, Susan, Langie, Jalen, Cato, Liam D, Nakatsuka, Nathan, Chan, Tsz-Fung, Xia, Guangze, Mazumder, Soumyaa, Yang, Wenjian, Gazal, Steven, Eng, Celeste, Hu, Donglei, Burchard, Esteban González, Ziv, Elad, Metayer, Catherine, Mancuso, Nicholas, Yang, Jun J, Ma, Xiaomei, Wiemels, Joseph L, Yu, Fulong, Chiang, Charleston WK, and Sankaran, Vijay G

Subjects
Biological Sciences, Genetics, Clinical Research, Hematology, Pediatric Cancer, Cancer, Childhood Leukemia, Pediatric, Rare Diseases, Pediatric Research Initiative, Aetiology, 2.1 Biological and endogenous factors, Humans, Child, Genetic Predisposition to Disease, Polymorphism, Single Nucleotide, Transcription Factors, Precursor Cell Lymphoblastic Leukemia-Lymphoma, Hispanic or Latino, Ikaros Transcription Factor, B-ALL, GWAS, IKZF1, Indigenous American, acute lymphoblastic leukemia, cancer disparity, cancer predisposition, childhood leukemia, fine-mapping, hematopoiesis
Abstract

Hispanic/Latino children have the highest risk of acute lymphoblastic leukemia (ALL) in the US compared to other racial/ethnic groups, yet the basis of this remains incompletely understood. Through genetic fine-mapping analyses, we identified a new independent childhood ALL risk signal near IKZF1 in self-reported Hispanic/Latino individuals, but not in non-Hispanic White individuals, with an effect size of ∼1.44 (95% confidence interval = 1.33-1.55) and a risk allele frequency of ∼18% in Hispanic/Latino populations and

Published
2024

2. Bayesian modelling of response to therapy and drug-sensitivity in acute lymphoblastic leukemia

Author

Cremaschi, Andrea, Yang, Wenjian, De Iorio, Maria, Evans, William E., Yang, Jun J., and Rosner, Gary L.

Subjects
Statistics - Applications
Abstract

Acute lymphoblastic leukemia (ALL) is a heterogeneous hematologic malignancy involving the abnormal proliferation of immature lymphocytes, accounting for most pediatric cancer cases. ALL management in children has seen great improvement in the last decades thanks to better understanding of the disease leading to improved treatment strategies evidenced through clinical trials. Commonly a first course of chemotherapy (induction phase) is administered, followed by treatment with a combination of anti-leukemia drugs. A measure of the efficacy early in the course of therapy is minimal residual disease (MRD). MRD quantifies residual tumor cells and indicates the effectiveness of the treatment over the course of therapy. MRD positivity is defined for values of MRD greater than 0.01%, yielding left-censored observations. We propose a Bayesian model to study the relationship between patient features and MRD observed at two time points during the induction phase. Specifically, we model the observed MRD values via an auto-regressive model, accounting for left-censoring of the data and for the fact that some patients are already in remission after the induction phase. Patient characteristics are included in the model via linear regression terms. In particular, patient-specific drug sensitivity based on ex-vivo assays of patient samples is exploited to identify groups of subjects with similar profiles. We include this information as a covariate in the model for MRD. We adopt horseshoe priors for the regression coefficients to perform variable selection to identify important covariates. We fit the proposed approach to data from three prospective pediatric ALL clinical trials carried out at the St. Jude Children's Research Hospital. Our results highlight that drug sensitivity profiles and leukemic subtypes play an important role in the response to induction therapy as measured by serial MRD measures.

Published
2023

3. A new genomic framework to categorize pediatric acute myeloid leukemia.

Author

Umeda, Masayuki, Ma, Jing, Westover, Tamara, Ni, Yonghui, Song, Guangchun, Maciaszek, Jamie, Rusch, Michael, Rahbarinia, Delaram, Foy, Scott, Walsh, Michael, Kumar, Priyadarshini, Liu, Yanling, Yang, Wenjian, Fan, Yiping, Wu, Gang, Baker, Sharyn, Ma, Xiaotu, Wang, Lu, Alonzo, Todd, Rubnitz, Jeffrey, Pounds, Stanley, Klco, Jeffery, and Huang, Benjamin

Subjects
Humans, Child, Leukemia, Myeloid, Acute, Mutation, Prognosis, Genomics, Transcription Factors, Repressor Proteins, Tumor Suppressor Proteins
Abstract

Recent studies on pediatric acute myeloid leukemia (pAML) have revealed pediatric-specific driver alterations, many of which are underrepresented in the current classification schemas. To comprehensively define the genomic landscape of pAML, we systematically categorized 887 pAML into 23 mutually distinct molecular categories, including new major entities such as UBTF or BCL11B, covering 91.4% of the cohort. These molecular categories were associated with unique expression profiles and mutational patterns. For instance, molecular categories characterized by specific HOXA or HOXB expression signatures showed distinct mutation patterns of RAS pathway genes, FLT3 or WT1, suggesting shared biological mechanisms. We show that molecular categories were strongly associated with clinical outcomes using two independent cohorts, leading to the establishment of a new prognostic framework for pAML based on these updated molecular categories and minimal residual disease. Together, this comprehensive diagnostic and prognostic framework forms the basis for future classification of pAML and treatment strategies.

Published
2024

4. Research Progress on the Regulation of Gastrointestinal Function by Polysaccharides from Edible and Medicinal Mushroom

Author

LIU Jianhui, DAI Yi, YUE Yuling, LIU Tuoyu, YANG Wenjian, LU Huan

Subjects
edible and medicinal mushroom, polysaccharide, gastrointestinal function, gastrointestinal mucosal barrier, Food processing and manufacture, TP368-456
Abstract

The gastrointestinal tract is the largest organ in the human body that communicates with the outside world. It has the functions of digesting food and transporting and absorbing nutrients. The gastrointestinal mucosal barrier secures gastrointestinal function through physical, chemical, biological, and immunologic barriers, and its damage can lead to chronic inflammation or acute and chronic diseases. Polysaccharides are one of the major bioactive substances in edible and medicinal mushroom and can be used as an auxiliary treatment for a variety of gastrointestinal diseases. This article reviews the roles of polysaccharides from edible and medicinal mushroom in regulating gastric health such as eliminating gastric Helicobacter pylori, protecting against gastric mucosal damage and gastric ulcer, and fighting against gastric cancer, summarizes the roles of polysaccharides from edible and medicinal mushroom in maintaining intestinal homeostasis and regulating the intestinal microbiota, alleviating inflammatory bowel disease and inhibiting colon cancer, and analyzes the regulatory mechanisms of polysaccharides from edible and medicinal mushroom on gastrointestinal function. We expect that this review will provide a reference for in-depth research on the promoting effect and mechanism of polysaccharides from edible and medicinal mushroom on gastrointestinal health.

Published
2024
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6. Investigation of inherited noncoding genetic variation impacting the pharmacogenomics of childhood acute lymphoblastic leukemia treatment

Author

Bhattarai, Kashi Raj, Mobley, Robert J., Barnett, Kelly R., Ferguson, Daniel C., Hansen, Baranda S., Diedrich, Jonathan D., Bergeron, Brennan P., Yoshimura, Satoshi, Yang, Wenjian, Crews, Kristine R., Manring, Christopher S., Jabbour, Elias, Paietta, Elisabeth, Litzow, Mark R., Kornblau, Steven M., Stock, Wendy, Inaba, Hiroto, Jeha, Sima, Pui, Ching-Hon, Cheng, Cheng, Pruett-Miller, Shondra M., Relling, Mary V., Yang, Jun J., Evans, William E., and Savic, Daniel

Published
2024
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9. Correction: Profiling chromatin accessibility in pediatric acute lymphoblastic leukemia identifies subtype-specific chromatin landscapes and gene regulatory networks

Author

Diedrich, Jonathan D., Dong, Qian, Ferguson, Daniel C., Bergeron, Brennan P., Autry, Robert J., Qian, Maoxiang, Yang, Wenjian, Smith, Colton, Papizan, James B., Connelly, Jon P., Hagiwara, Kohei, Crews, Kristine R., Pruett-Miller, Shondra M., Pui, Ching-Hon, Yang, Jun J., Relling, Mary V., Evans, William E., and Savic, Daniel

Published
2024
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21. Determination of Triazine Residues in Fruits and Vegetables by Dual-Template Molecularly Imprinted Solid Phase Extraction Combined with High Performance Liquid Chromatography

Author

LIU Jianhui, GONG Bichuan, HU Qiuhui, SU Anxiang, XU Hui, XIE Minhao, YANG Wenjian

Subjects
dual-template molecular imprinting, solid phase extraction, high performance liquid chromatography, triazine pesticides, Food processing and manufacture, TP368-456
Abstract

A new dual-template molecularly imprinted polymer (MIPs) for efficient adsorption of triazines was prepared with cyromazine and melamine as template molecules, and its adsorption performance was evaluated for triazine residues in fruits and vegetables. Under the optimized condition of molar ratio of cyromazine to melamine = 3:2, the highest adsorption capacity of MIPs was achieved. The maximum adsorption capacity of MIPs at two specific binding sites 2.85 and 5.46 mg/g, and the binding constants were 26.688 and 80.775 mg/L, respectively. The adsorption process attained equilibrium in 100 minutes and showed a higher adsorption capacity than did non-imprinted polymers (NIPs). Molecular imprinting-based solid-phase extraction (MI-SPE) combined with high performance liquid chromatography (HPLC) was used for the measurement of four triazine residues including atrazine, prometryn, ametryn, and simetryn in cucumber, apple, and corn. The limit of detection of this method was 0.01–0.03 ng/mL, and the average recoveries of spiked samples at concentrations ranging from 0.1 to 0.5 μg/mL were 83.2%–102.3% (n = 3), with relative standard deviation (RSD) between 2.3% and 6.8%. The proposed method, therefore, is suitable for the trace detection of triazine residues in fruit and vegetable samples.

Published
2023
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24. Single-cell systems pharmacology identifies development-driven drug response and combination therapy in B cell acute lymphoblastic leukemia

Author

Huang, Xin, Li, Yizhen, Zhang, Jingliao, Yan, Lei, Zhao, Huanbin, Ding, Liang, Bhatara, Sheetal, Yang, Xu, Yoshimura, Satoshi, Yang, Wenjian, Karol, Seth E., Inaba, Hiroto, Mullighan, Charles, Litzow, Mark, Zhu, Xiaofan, Zhang, Yingchi, Stock, Wendy, Jain, Nitin, Jabbour, Elias, Kornblau, Steven M., Konopleva, Marina, Pui, Ching-Hon, Paietta, Elisabeth, Evans, William, Yu, Jiyang, and Yang, Jun J.

Published
2024
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27. Epigenomic mapping reveals distinct B cell acute lymphoblastic leukemia chromatin architectures and regulators

Author

Barnett, Kelly R., Mobley, Robert J., Diedrich, Jonathan D., Bergeron, Brennan P., Bhattarai, Kashi Raj, Monovich, Alexander C., Narina, Shilpa, Yang, Wenjian, Crews, Kristine R., Manring, Christopher S., Jabbour, Elias, Paietta, Elisabeth, Litzow, Mark R., Kornblau, Steven M., Stock, Wendy, Inaba, Hiroto, Jeha, Sima, Pui, Ching-Hon, Mullighan, Charles G., Relling, Mary V., Pruett-Miller, Shondra M., Ryan, Russell J.H., Yang, Jun J., Evans, William E., and Savic, Daniel

Published
2023
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29. Conceptual Creative Design of Mechanisms

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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30. Automatic Computation of Connectivity in Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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31. Automatic Sketching of Planar Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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32. Automatic Synthesis of Planar Multiple Joint Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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33. Structural Synthesis of Contracted Graphs of Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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34. Structural Synthesis of Fractionated Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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35. Structural Synthesis of Simple Joint Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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36. Automatic Synthesis of Planetary Gear Trains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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37. Automatic Synthesis of Kinematic Chains with Prismatic Pairs

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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38. Automatic Synthesis of Inversions of Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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39. Unified Isomorphism Detection for Planar Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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40. Unified Rigid Sub-chain Detection for Planar Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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41. Loop Algebra of Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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42. Introduction

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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43. Unified Graph Model of Planar Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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44. Basic Concepts of Graphs of Kinematic Chains

Author

Ding, Huafeng, Yang, Wenjian, Kecskeméthy, Andrés, Choi, Seung-Bok, Series Editor, Duan, Haibin, Series Editor, Fu, Yili, Series Editor, Guardiola, Carlos, Series Editor, Sun, Jian-Qiao, Series Editor, Kwon, Young W., Series Editor, Cavas-Martínez, Francisco, Series Editor, Chaari, Fakher, Series Editor, di Mare, Francesca, Series Editor, Karimi, Hamid Reza, Series Editor, Ding, Huafeng, Yang, Wenjian, and Kecskeméthy, Andrés

Published
2022
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48. Pharmacotypes across the genomic landscape of pediatric acute lymphoblastic leukemia and impact on treatment response

Author

Lee, Shawn H. R., Yang, Wenjian, Gocho, Yoshihiro, John, August, Rowland, Lauren, Smart, Brandon, Williams, Hannah, Maxwell, Dylan, Hunt, Jeremy, Yang, Wentao, Crews, Kristine R., Roberts, Kathryn G., Jeha, Sima, Cheng, Cheng, Karol, Seth E., Relling, Mary V., Rosner, Gary L., Inaba, Hiroto, Mullighan, Charles G., Pui, Ching-Hon, Evans, William E., and Yang, Jun J.

Published
2023
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49. Finite element modelling of cell mechanics and cell-material interactions

Author

Yang, Wenjian

Abstract

Understanding cell mechanics subjected to external stimuli is important to design microniche to direct cell migration, differentiation and proliferation. However, previous models have not elucidated the mechanisms during the mechanotransduction process. Therefore, the main objective of this thesis is to develop different types of cell models including structure-based and continuum-based models to study the cell response during interactions with external stimuli. The structure-based cell model consisting of discrete cellular components was adopted to study the cellular responses during atomic force microscope (AFM) indentation tests, which revealed the significant contribution of stress fibres (SFs) to apparent modulus. A continuum-based model has been developed to examine the effect of substrate thickness, lateral boundary and neighbouring cell on cell responses. In this model, the active behaviour of the cell was described by a SF formation model. Focal adhesion (FA) model driven by the SF contractility was implemented to account for the interactions with substrate. It has revealed that the thin layer of substrate enhanced the SF and FA formation. The SF concentration and integrin density decrease exponentially with increasing substrate thickness. Higher substrate stiffness attenuates the cell responses to thickness variation. Larger cell sizes promote the formation of SFs and enable deeper thickness sensing. Fixed lateral boundary of the substrate influences the SF and FA formation as well as the SF orientation. Soft substrate enables cells to sense the lateral displacement field created by another cell while stiff substrate hinders the cell-cell communication. Cell orients its SFs towards the neighbouring cell and could be influenced to polarize in this direction. These predictions are consistent with experimental findings. Furthermore, the physics underpinned by the modelling has improved our understanding of the substrate boundary sensing and mechanics regulated cell-cell communications. This modelling framework could be potentially adopted for rational design of biomaterials in tissue engineering.

Published
2020

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