Yu Yao

University of Sussex

Author Statistics

Papers

Citation

H-Index

i-10 index

Research Trends

Author Order

Document Type

Co-Authors

Mitchell J. Weiss

St. Jude Children's Research Hospital

Kalin Mayberry

St. Jude Children's Research Hospital

Thiyagaraj Mayuranathan

St. Jude Children's Research Hospital

Junwen Wang

University of Hong Kong

Jonathan Yen

St. Jude Children's Research Hospital

Yong Cheng

St. Jude Children's Research Hospital

Fei Gao

Chinese Academy of Agricultural Sciences

Xiuqing Zhang

BGI Group (China)

Hanlin Lu

Shandong University

Ross C. Hardison

Pennsylvania State University

Cooperative Institutions

St. Jude Children's Research Hospital

164

Children's Hospital of Philadelphia

Dana-Farber Cancer Institute

Harvard University

University of Pennsylvania

Nanjing Medical University

University of California, Los Angeles

Children's Hospital of Los Angeles

Chinese Academy of Medical Sciences & Peking Union Medical College

University of Southern California

Author Statistics

Papers

Citation

H-Index

i-10 index

Research Field

Base Editing for Therapeutic Induction of Fetal Hemoglobin in β-Thalassemia

Blood (2022)

Georgios E. Christakopoulos Thiyagaraj Mayuranathan Alfonso G. Fernandez Kalin Mayberry Yu Yao

10.1182/blood-2022-169391

Cite

Citations (1)

A Novel RPS19-Edited Hematopoietic Stem Cell Model of Diamond-Blackfan Anemia for Development of Lentiviral Vector Gene Therapy

Blood (2021)

Senthil Velan Bhoopalan Jonathan Yen Thiyagaraj Mayuranathan Yu Yao Kalin Mayberry

Diamond–Blackfan anemia

10.1182/blood-2021-147557

Cite

Citations (3)

Global analysis of DNA methylation in hepatocellular carcinoma by a liquid hybridization capture-based bisulfite sequencing approach

Clinical Epigenetics (2015)

Fei Gao Huifang Liang Hanlin Lu Junwen Wang Meng Xia

Epigenetic alterations, such as aberrant DNA methylation of promoter and enhancer regions, which lead to atypical gene expression, have been associated with carcinogenesis. In hepatocellular carcinoma (HCC), genome-wide analysis of methylation has only recently been used. For a better understanding of hepatocarcinogenesis, we applied an even higher resolution analysis of the promoter methylome to identify previously unknown regions and genes differentially methylated in HCC. Optimized liquid hybridization capture-based bisulfite sequencing (LHC-BS) was developed to quantitatively analyze 1.86 million CpG sites in individual samples from eight pairs of HCC and adjacent tissues. By linking the differentially methylated regions (DMRs) in promoters to the differentially expressed genes (DEGs), we identified 12 DMR-associated genes. We further utilized Illumina MiSeq combining the bisulfite sequencing PCR approach to validate the 12 candidate genes. Analysis of an additional 78 HCC pairs on the Illumina MiSeq platform confirmed that 7 genes showed either promoter hyper-methylation (SMAD6, IFITM1, LRRC4, CHST4, and TBX15) or hypo-methylation (CCL20 and NQO1) in HCC. Novel methylome profiling provides a cost-efficient approach to identifying candidate genes in human HCC that may contribute to hepatocarcinogenesis. Our work provides further information critical for understanding the epigenetic processes underlying tumorigenesis and development of HCC.

Bisulfite

Bisulfite sequencing

Human genetics

10.1186/s13148-015-0121-1

Cite

Citations (50)

Flow: A Modular Approach to Automated Agentic Workflow Generation

arXiv (Cornell University) (2025)

Ben Niu Yuxin Song Kai Lian Yifan Shen Yu Yao

Multi-agent frameworks powered by large language models (LLMs) have demonstrated great success in automated planning and task execution. However, the effective adjustment of Agentic workflows during execution has not been well-studied. A effective workflow adjustment is crucial, as in many real-world scenarios, the initial plan must adjust to unforeseen challenges and changing conditions in real-time to ensure the efficient execution of complex tasks. In this paper, we define workflows as an activity-on-vertex (AOV) graphs. We continuously refine the workflow by dynamically adjusting task allocations based on historical performance and previous AOV with LLM agents. To further enhance system performance, we emphasize modularity in workflow design based on measuring parallelism and dependence complexity. Our proposed multi-agent framework achieved efficient sub-task concurrent execution, goal achievement, and error tolerance. Empirical results across different practical tasks demonstrate dramatic improvements in the efficiency of multi-agent frameworks through dynamic workflow updating and modularization.

10.48550/arxiv.2501.07834

Cite

Citations (0)

Species-Specific Functions For Long Noncoding RNAs During Erythropoeisis

Blood (2013)

Vikram R. Paralkar Tejaswini Mishra Jing Luan Yu Yao Andrew V. Kossenkov

GATA1

Chromatin immunoprecipitation

10.1182/blood.v122.21.2441.2441

Cite

Citations (1)

Genome editing of HBG1 and HBG2 to induce fetal hemoglobin

Blood Advances (2019)

Jean‐Yves Métais Phillip A. Doerfler Thiyagaraj Mayuranathan Daniel E. Bauer Stephanie Fowler

Key Points Cas9 editing of the γ-globin gene promoters in hematopoietic stem cells (HSCs) increases red cell HbF by ≤40%. No deleterious effects on hematopoiesis or off-target mutations were detected 16 weeks after xenotransplantation of edited HSCs.

Xenotransplantation

Hematopoietic stem cell

10.1182/bloodadvances.2019000820

Cite

Citations (145)

FAM83A and FAM83A‑AS1 both play oncogenic roles in lung adenocarcinoma

Oncology Letters (2021)

Gaoming Wang Xiaokun Li Yu Yao Zhisheng Jiang Hai Zhou

Lung adenocarcinoma (LUAD) is the most common subtype of lung cancer. Nevertheless, the detailed molecular mechanisms of the progression of LUAD remain largely unknown. The present bioinformatics analysis reported that FAM83A and FAM83A‑AS1 were upregulated in LUAD tissues and associated with prognosis in patients with LUAD. The purpose of the current study was to investigate the role of FAM83A and its antisense long non‑coding (lnc)RNA FAM83A‑AS1 in LUAD. Gene Expression Profiling Interactive Analysis was used to screen for potential oncogenes in LUAD and to analyze the clinical significance of FAM83A and FAM83A‑AS1. Small interfering RNAs were constructed and transfected into LUAD cells to knock down the expression of FAM83A and FAM83A‑AS1. EdU, Cell Counting Kit‑8, Transwell and Matrigel assays were performed to detect the proliferation, migration and invasion of LUAD cells. The interaction between FAM83A‑AS1, microRNA (miR)‑495‑3p and FAM83A was explored using a luciferase reporter assay. FAM83A and FAM83A‑AS1 were both overexpressed in LUAD tissues compared with adjacent normal tissues. High expression of FAM83A and FAM83A‑AS1 predicted worse survival and more advanced clinical stage. Knockdown of FAM83A or FAM83A‑AS1 could inhibit the proliferation, migration and invasion of LUAD cells. Moreover, lncRNA FAM83A‑AS1 regulated the expression of FAM83A by functioning as competing endogenous RNA for miR‑495‑3p. These results implicated that FAM83A and FAM83A‑AS1 both played oncogenic roles in LUAD and FAM83A‑AS1 could regulate the expression of FAM83A by sponging miR‑495‑3p. The study revealed a novel regulatory mechanism of tumor development in LUAD and FAM83A and FAM83A‑AS1 may be novel biomarkers and therapeutic targets for LUAD.

10.3892/ol.2021.12558

Cite

Citations (13)

Additional file 1: Table S1. of Global analysis of DNA methylation in hepatocellular carcinoma by a liquid hybridization capture-based bisulfite sequencing approach

Figshare (2015)

Fei Gao Huifang Liang Hanlin Lu Junwen Wang Meng Xia

Clinicopathology features of patients with HCC studied for genome-wide promoter methylation analysis.

Bisulfite

Bisulfite sequencing

Table (database)

10.6084/m9.figshare.c.3638753_d9

Cite

Citations (0)

MOESM2 of PITX2 enhances progression of lung adenocarcinoma by transcriptionally regulating WNT3A and activating Wnt/Î˛-catenin signaling pathway

Figshare (2019)

Jing Luo Yu Yao Saiguang Ji Qi Sun Yang Xu

Additional file 2: Table S2. Sequences of qRT-PCR primers.

WNT3A

PITX2

Beta-catenin

10.6084/m9.figshare.7985915

Cite

Citations (0)

Causes and risk factors for peritoneal dialysis withdrawal

Therapeutic Apheresis and Dialysis (2022)

Yanni Wu Yu Yao Li Liu Xiaoying Shen H.-Y. Yang

This study intends to investigate the causes and risk factors for withdrawal from peritoneal dialysis (PD) in patients with end stage renal disease (ESRD).Two hundred ninety-three patients admitted to the peritoneal dialysis center in nephrology department for PD treatment were divided into 175 cases in group A (continuous treatment group) and 118 cases in group B (withdrawal group).The proportion of patients in group B whose primary disease was glomerulonephritis was significantly lower than that in group A (p <0.05), whereas the proportion of patients with diabetic nephropathy was significantly higher in group B than in group A (p <0.05). Group A received better emotional support and care services from family members than group B. Family care was mostly severely impaired in patients who died and were lost to follow-up.Diabetes mellitus, level of knowledge regarding PD, depression, and family care are risk factors for withdrawal from PD.

Group B

Nephrology

Depression

Group A

10.1111/1744-9987.13809

Cite

Citations (0)