2022

Integrating de novo and inherited variants in over 42,607 autism cases identifies mutations in new moderate risk genes
Xueya Zhou*, Pamela Feliciano*, Chang Shu*, Tianyun Wang*, Irina Astrovskaya*, ... , Brian J O’Roak, Daniel H Geschwind, Jacob J Michaelson, Natalia Volfovsky, Evan E Eichler, Yufeng Shen, Wendy K Chung (*contribute equally)
Nature Genetics, 1-15. https://doi.org/10.1038/s41588-022-01148-2

Imputing cognitive impairment in SPARK, a large autism cohort
Chang Shu, LeeAnne Green Snyder, Yufeng Shen, Wendy K Chung & The SPARK Consortium
Autism research, 15(1), 156-170. https://doi.org/10.1002/aur.2622

Epigenome-wide association analyses of active injection drug use
Chang Shu, Andrew E Jaffe, Sarven Sabunciyan, Hongkai Ji, Jacquie Astemborski, Jing Sun, Kelly M Bakulski, David W Sosnowski, Shruti H Mehta, Gregory D Kirk, Brion S Maher
Drug and alcohol dependence, 235, 109431. https://doi.org/10.1016/j.drugalcdep.2022.109431

Differential expression of NPAS4 in the dorsolateral prefrontal cortex following opioid overdose
David W Sosnowski, Andrew E Jaffe, Ran Tao, Amy Deep-Soboslay, Chang Shu, Sarven Sabunciyan, Joel E Kleinman, Thomas M Hyde, Brion S Maher
Drug and Alcohol Dependence Reports, 3, 100040. https://doi.org/10.1016/j.dadr.2022.100040

Sex Difference and Interaction of SIRT1 and FOXO3 Candidate Longevity Genes on Life Expectancy: A 10-year Prospective Longitudinal Cohort Study
John S Ji, Linxin Liu, Chang Shu, Lijing L Yan, Yi Zeng
The Journals of Gerontology: Series A, 77(8), 1557-1563. https://doi.org/10.1093/gerona/glab378

2021

DNA methylation biomarker selected by an ensemble machine learning approach predicts mortality risk in an HIV-positive veteran population
Chang Shu, Amy C Justice, Xinyu Zhang, Vincent C Marconi, Dana B Hancock, Eric O Johnson, Ke Xu
Epigenetics, 1-13. https://doi.org/10.1080/15592294.2020.1824097

Epigenome-wide study of brain DNA methylation following acute opioid intoxication
Chang Shu, David W Sosnowski, Ran Tao, Amy Deep-Soboslay, Joel E Kleinman, Thomas M Hyde, Andrew E Jaffe, Sarven Sabunciyan, Brion S Maher
Drug and alcohol dependence, 221, 108658. https://doi.org/10.1016/j.drugalcdep.2021.108658

Interaction of greenness and polygenic risk score of Alzheimer's disease on risk of cognitive impairment
Xurui Jin, Chang Shu, Yi Zeng, Liming Liang, John S Ji
The Science of the total environment, 796, 148767. https://doi.org/10.1016/j.scitotenv.2021.148767

Gene–Environment Interaction of FOXO and Residential Greenness on Mortality Among Older Adults
Linxin Liu, Anna Zhu, Chang Shu, Yi Zeng, John S Ji
Rejuvenation Research, 24(1), 49-61. http://doi.org/10.1089/rej.2019.2301

2020

DNA methylation mediates the effect of cocaine use on HIV severity
Chang Shu, Amy C Justice, Xinyu Zhang, Zuoheng Wang, Dana B Hancock, Eric O Johnson, Ke Xu
Clinical Epigenetics 12, 140. https://doi.org/10.1186/s13148-020-00934-1

Comparison of methylation capture sequencing and Infinium MethylationEPIC array in peripheral blood mononuclear cells
Chang Shu, Xinyu Zhang, Bradley E Aouizerat, Ke Xu
Epigenetics and Chromatin, 13(1), 1-15. https://doi.org/10.1186/s13072-020-00372-6

Epigenome-wide association scan identifies methylation sites associated with HIV infection
Chang Shu, Andrew E Jaffe, Sarven Sabunciyan, Hongkai Ji, Jacquie Astemborski, Jing Sun, Kelly M Bakulski, Shruti H Mehta, Gregory D Kirk, Brion S Maher
Epigeneomics, 12(21), 1917-1927. https://doi.org/10.2217/epi-2020-0123

Single-cell transcriptome mapping identifies common and cell-type specific genes affected by acute delta9-tetrahydrocannabinol in humans
Ying Hu, Mohini Ranganathan, Chang Shu, Xiaoyu Liang, Suhas Ganesh, Awo Osafo-Addo, Chunhua Yan, Xinyu Zhang, Bradley E Aouizerat, John H Krystal, Deepak C D’Souza, Ke Xu
Scientific Reports, 10(1), 1-14. https://doi.org/10.1038/s41598-020-59827-1

 Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data
Jovan Tanevski, Thin Nguyen, Buu Truong, Nikos Karaiskos, Mehmet Eren Ahsen, Xinyu Zhang, Chang Shu, Ke Xu, Xiaoyu Liang, ..., Pablo Meyer, DREAM SCTC Consortium
Life science alliance, 3(11). http://doi.org/10.26508/lsa.202000867

APOE ε4 modifies effect of residential greenness on cognitive function among older adults: a longitudinal analysis in China
Anna Zhu, Lijing Yan, Chang Shu, Yi Zeng, John S Ji
Scientific Reports 10, 82. https://doi.org/10.1038/s41598-019-57082-7

2014-2019

Examining the association between substance use disorder treatment and smoking cessation (2015)
Chang Shu, Benjamin Lê Cook
Addiction, 110(6), 1015-1024. https://doi.org/10.1111/add.12879

Presence of an epigenetic signature of prenatal cigarette smoke exposure in childhood (2016)
Christine Ladd-Acosta, Chang Shu, Brian K Lee, Nicole Gidaya, Alison Singer, Laura A Schieve, Diana E Schendel, Nicole Jones, Julie L Daniels, Gayle C Windham, Craig J Newschaffer, Lisa A Croen, Andrew P Feinberg, M Daniele Fallin
Environmental research
, 144, 139-148. https://doi.org/10.1016/j.envres.2015.11.014

Trends in smoking among adults with mental illness and association between mental health treatment and smoking cessation (2014)
Benjamin Lê Cook, Geoff Ferris Wayne, E Nilay Kafali, Zimin Liu, Chang Shu, Michael Flores
JAMA, 311(2), 172-182. https://doi.org/10.1001/jama.2013.284985

NIDA Genomics Consortium White Paper: Coordinating Efforts Between Human and Animal Addiction Studies (2019)
Hannah M Cates, Chelsie E Benca‐Bachman, Giordano de Guglielmo, Sarah A Schoenrock, Chang Shu, Marsida Kallupi
Genes, Brain and Behavior, e12577. https://doi.org/10.1111/gbb.12577