| Project Title: | THE WASHU TARGET ENVIRONMENTAL EPIGENOMICS DATA COORDINATION CENTER |
|---|---|
| PI: | Wang, Ting |
| Institution: | Washington University |
| Grant Number: | U24ES026699 |
These search results have not been confirmed by NIEHS and are therefore, not official. They are to be used only for general information and to inform the public and grantees on the breadth of research funded by NIEHS.
Viewing 60 publications
Export to Excel
(http://www.niehs.nih.gov//portfolio/index.cfm?do=portfolio.grantpubdetail&&grant_number=U24ES026699&format=excel)
| Publication Title | Authors | Grant Number(s) | Journal (Pub date) | PubMed Link | Pub Year |
|---|---|---|---|---|---|
| Capture Methylation-Sensitive Restriction Enzyme Sequencing (Capture MRE-Seq) for Methylation Analys ... | Xing, Xiaoyun; Karlow, Jennifer A; Li, Daofeng; Jang, Hyo Sik; Lee, Hyung Joo; Wang, Ting | U24ES026699 | Methods Mol Biol (2023) |
37041441
|
2023 |
| Pan-cancer analysis identifies tumor-specific antigens derived from transposable elements. | Shah, Nakul M; Jang, H Josh; Liang, Yonghao; Maeng, Ju Heon; Tzeng, Shin-Cheng; Wu, Angela; Ba ... | U24ES026699 | Nat Genet (2023 Apr) |
36973455
|
2023 |
| Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes. | Choudhary, Mayank N K; Quaid, Kara; Xing, Xiaoyun; Schmidt, Heather; Wang, Ting | U24ES026699 | Nat Commun (2023 Feb 06) |
36746940
|
2023 |
| Developmental Pathways Are Epigenetically Reprogrammed during Lung Cancer Brain Metastasis. | Karlow, Jennifer A; Devarakonda, Siddhartha; Xing, Xiaoyun; Jang, Hyo Sik; Govindan, Ramaswamy; ... | U24ES026699 | Cancer Res (2022 Aug 03) |
35706127
|
2022 |
| Epigenomic analysis reveals prevalent contribution of transposable elements to cis-regulatory elemen ... | Lee, Hyung Joo; Hou, Yiran; Maeng, Ju Heon; Shah, Nakul M; Chen, Yujie; Lawson, Heather A; Yan ... | U24ES026699 | Genome Res (2022 Jul) |
35649578
|
2022 |
| Exploring genomic data coupled with 3D chromatin structures using the WashU Epigenome Browser. | Li, Daofeng; Harrison, Jessica K; Purushotham, Deepak; Wang, Ting | U24ES026699 | Nat Methods (2022 Aug) |
35864166
|
2022 |
| Genetic, epigenetic, and environmental mechanisms govern allele-specific gene expression. | St Pierre, Celine L; Macias-Velasco, Juan F; Wayhart, Jessica P; Yin, Li; Semenkovich, Clay F; ... | U24ES026699 | Genome Res (2022 Jun) |
35501130
|
2022 |
| Mammalian genome innovation through transposon domestication. | Modzelewski, Andrew J; Gan Chong, Johnny; Wang, Ting; He, Lin | U24ES026699 | Nat Cell Biol (2022 Sep) |
36008480
|
2022 |
| WashU Epigenome Browser update 2022. | Li, Daofeng; Purushotham, Deepak; Harrison, Jessica K; Hsu, Silas; Zhuo, Xiaoyu; Fan, Changxu; ... | U24ES026699 | Nucleic Acids Res (2022 Jul 05) |
35412637
|
2022 |
| Whole-genome profiling of DNA methylation and hydroxymethylation identifies distinct regulatory prog ... | Peng, Vincent; Xing, Xiaoyun; Bando, Jennifer K; Trsan, Tihana; Di Luccia, Blanda; Collins, Pa ... | U24ES026699 | Nat Immunol (2022 Apr) |
35332328
|
2022 |
| A mouse-specific retrotransposon drives a conserved Cdk2ap1 isoform essential for development. | Modzelewski, Andrew J; Shao, Wanqing; Chen, Jingqi; Lee, Angus; Qi, Xin; Noon, Mackenzie; Tjok ... | U24ES026699 | Cell (2021 10 28) |
34644528
|
2021 |
| AIAP: A Quality Control and Integrative Analysis Package to Improve ATAC-seq Data Analysis. | Liu, Shaopeng; Li, Daofeng; Lyu, Cheng; Gontarz, Paul M; Miao, Benpeng; Madden, Pamela A F; Wa ... | U24ES026699 | Genomics Proteomics Bioinformatics (2021 08) |
34273560
|
2021 |
| Common DNA methylation dynamics in endometriod adenocarcinoma and glioblastoma suggest universal epi ... | Karlow, Jennifer A; Miao, Benpeng; Xing, Xiaoyun; Wang, Ting; Zhang, Bo | U24ES026699 | Commun Biol (2021 May 21) |
34021236
|
2021 |
| Epigenetic dynamics shaping melanophore and iridophore cell fate in zebrafish. | Jang, Hyo Sik; Chen, Yujie; Ge, Jiaxin; Wilkening, Alicia N; Hou, Yiran; Lee, Hyung Joo; Choi, ... | U24ES026699 | Genome Biol (2021 10 04) |
34607603
|
2021 |
| Human placental cytotrophoblast epigenome dynamics over gestation and alterations in placental disea ... | Zhang, Bo; Kim, M Yvonne; Elliot, GiNell; Zhou, Yan; Zhao, Guangfeng; Li, Daofeng; Lowdon, Re ... | U24ES026699 | Dev Cell (2021 05 03) |
33891899
|
2021 |
| The Need for a Human Pangenome Reference Sequence. | Miga, Karen H; Wang, Ting | U24ES026699 | Annu Rev Genomics Hum Genet (2021 08 31) |
33929893
|
2021 |
| The qBED track: a novel genome browser visualization for point processes. | Moudgil, Arnav; Li, Daofeng; Hsu, Silas; Purushotham, Deepak; Wang, Ting; Mitra, Robi D | U24ES026699 | Bioinformatics (2021 May 23) |
32941613
|
2021 |
| Transcript assembly improves expression quantification of transposable elements in single-cell RNA-s ... | Shao, Wanqing; Wang, Ting | U24ES026699 | Genome Res (2021 01) |
33355230
|
2021 |
| A map of cis-regulatory elements and 3D genome structures in zebrafish. | Yang, Hongbo; Luan, Yu; Liu, Tingting; Lee, Hyung Joo; Fang, Li; Wang, Yanli; Wang, Xiaotao; ... | U24ES026699 | Nature (2020 12) |
33239788
|
2020 |
| An Evolutionary Insertion in the Mxra8 Receptor-Binding Site Confers Resistance to Alphavirus Infect ... | Kim, Arthur S; Zimmerman, Ofer; Fox, Julie M; Nelson, Christopher A; Basore, Katherine; Zhang, ... | U24ES026699 | Cell Host Microbe (2020 03 11) |
32075743
|
2020 |
| Cell-type-specific 3D epigenomes in the developing human cortex. | Song, Michael; Pebworth, Mark-Phillip; Yang, Xiaoyu; Abnousi, Armen; Fan, Changxu; Wen, Jia; R ... | U24ES026699 | Nature (2020 11) |
33057195
|
2020 |
| Cellular diversity of the regenerating caudal fin. | Hou, Yiran; Lee, Hyung Joo; Chen, Yujie; Ge, Jiaxin; Osman, Fujr Osman Ibrahim; McAdow, Anthon ... | U24ES026699 | Sci Adv (2020 08) |
32851162
|
2020 |
| Co-opted transposons help perpetuate conserved higher-order chromosomal structures. | Choudhary, Mayank Nk; Friedman, Ryan Z; Wang, Julia T; Jang, Hyo Sik; Zhuo, Xiaoyu; Wang, Ting | U24ES026699 | Genome Biol (2020 01 24) |
31973766
|
2020 |
| Comparison of differential accessibility analysis strategies for ATAC-seq data. | Gontarz, Paul; Fu, Shuhua; Xing, Xiaoyun; Liu, Shaopeng; Miao, Benpeng; Bazylianska, Viktoriia ... | U24ES026699 | Sci Rep (2020 06 23) |
32576878
|
2020 |
| DeepH&M: Estimating single-CpG hydroxymethylation and methylation levels from enrichment and restric ... | He, Yu; Jang, Hyo Sik; Xing, Xiaoyun; Li, Daofeng; Vasek, Michael J; Dougherty, Joseph D; Wang ... | U24ES026699 | Sci Adv (2020 07) |
32937429
|
2020 |
| Derivation of trophoblast stem cells from naïve human pluripotent stem cells. | Dong, Chen; Beltcheva, Mariana; Gontarz, Paul; Zhang, Bo; Popli, Pooja; Fischer, Laura A; Khan ... | U24ES026699 | Elife (2020 02 12) |
32048992
|
2020 |
| Epigenomic differences in the human and chimpanzee genomes are associated with structural variation. | Zhuo, Xiaoyu; Du, Alan Y; Pehrsson, Erica C; Li, Daofeng; Wang, Ting | U24ES026699 | Genome Res (2020 Dec 10) |
33303495
|
2020 |
| Epigenomics and genotype-phenotype association analyses reveal conserved genetic architecture of com ... | Liu, Shuli; Yu, Ying; Zhang, Shengli; Cole, John B; Tenesa, Albert; Wang, Ting; McDaneld, Tar ... | U24ES026699 | BMC Biol (2020 07 03) |
32620158
|
2020 |
| Exploring the coronavirus pandemic with the WashU Virus Genome Browser. | Flynn, Jennifer A; Purushotham, Deepak; Choudhary, Mayank N K; Zhuo, Xiaoyu; Fan, Changxu; Matt ... | U24ES026699 | Nat Genet (2020 Oct) |
32908257
|
2020 |
| Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and ... | Lee, Hyung Joo; Hou, Yiran; Chen, Yujie; Dailey, Zea Z; Riddihough, Aiyana; Jang, Hyo Sik; Wan ... | U24ES026699 | Genome Biol (2020 02 27) |
32106888
|
2020 |
| Requisite Chromatin Remodeling for Myeloid and Erythroid Lineage Differentiation from Erythromyeloid ... | Wu, Jun; Krchma, Karen; Lee, Hyung Joo; Prabhakar, Sairam; Wang, Xiaoli; Zhao, Haiyong; Xing, ... | U24ES026699 | Cell Rep (2020 11 17) |
33207205
|
2020 |
| Robust principal component analysis for accurate outlier sample detection in RNA-Seq data. | Chen, Xiaoying; Zhang, Bo; Wang, Ting; Bonni, Azad; Zhao, Guoyan | U24ES026699 | BMC Bioinformatics (2020 Jun 29) |
32600248
|
2020 |
| Tissue-specific usage of transposable element-derived promoters in mouse development. | Miao, Benpeng; Fu, Shuhua; Lyu, Cheng; Gontarz, Paul; Wang, Ting; Zhang, Bo | U24ES026699 | Genome Biol (2020 09 28) |
32988383
|
2020 |
| A non-randomized procedure for large-scale heterogeneous multiple discrete testing based on randomiz ... | Dai, Xiaoyu; Lin, Nan; Li, Daofeng; Wang, Ting | U24ES026699 | Biometrics (2019 06) |
30387496
|
2019 |
| Epigenetic dysregulation of enhancers in neurons is associated with Alzheimer's disease pathology an ... | Li, Peipei; Marshall, Lee; Oh, Gabriel; Jakubowski, Jennifer L; Groot, Daniel; He, Yu; Wang, ... | U24ES026699 | Nat Commun (2019 May 21) |
31113950
|
2019 |
| FeatSNP: An Interactive Database for Brain-Specific Epigenetic Annotation of Human SNPs. | Ma, Chun-Yu; Madden, Pamela; Gontarz, Paul; Wang, Ting; Zhang, Bo | U24ES026699 | Front Genet (2019) |
31001319
|
2019 |
| The epigenomic landscape of transposable elements across normal human development and anatomy. | Pehrsson, Erica C; Choudhary, Mayank N K; Sundaram, Vasavi; Wang, Ting | U24ES026699 | Nat Commun (2019 12 10) |
31822674
|
2019 |
| Transposable elements drive widespread expression of oncogenes in human cancers. | Jang, Hyo Sik; Shah, Nakul M; Du, Alan Y; Dailey, Zea Z; Pehrsson, Erica C; Godoy, Paula M; Zh ... | U24ES026699 | Nat Genet (2019 04) |
30926969
|
2019 |
| WashU Epigenome Browser update 2019. | Li, Daofeng; Hsu, Silas; Purushotham, Deepak; Sears, Renee L; Wang, Ting | U24ES026699 | Nucleic Acids Res (2019 07 02) |
31165883
|
2019 |
| A high-fat diet alters genome-wide DNA methylation and gene expression in SM/J mice. | Keleher, Madeline Rose; Zaidi, Rabab; Hicks, Lauren; Shah, Shyam; Xing, Xiaoyun; Li, Daofeng; ... | U24ES026699 | BMC Genomics (2018 Dec 07) |
30526554
|
2018 |
| Characterization of a Mouse Model of Börjeson-Forssman-Lehmann Syndrome. | Cheng, Cheng; Deng, Pan-Yue; Ikeuchi, Yoshiho; Yuede, Carla; Li, Daofeng; Rensing, Nicholas; H ... | U24ES026699 | Cell Rep (2018 11 06) |
30403997
|
2018 |
| Comprehensive Whole DNA Methylome Analysis by Integrating MeDIP-seq and MRE-seq. | Xing, Xiaoyun; Zhang, Bo; Li, Daofeng; Wang, Ting | U24ES026699 | Methods Mol Biol (2018) |
29224147
|
2018 |
| Genome-wide association study identifies a novel locus for cannabis dependence. | Agrawal, A; Chou, Y-L; Carey, C E; Baranger, D A A; Zhang, B; Sherva, R; Wetherill, L; Kapoor ... | U24ES026699 | Mol Psychiatry (2018 May) |
29112194
|
2018 |
| Genome-wide DNA methylation profiling of primary colorectal laterally spreading tumors identifies di ... | Zhu, Liangliang; Yan, Feihu; Wang, Zhen; Dong, Haiyan; Bian, Chengling; Wang, Ting; Yu, Enda; ... | U24ES026699 | Int J Cancer (2018 11 15) |
30183087
|
2018 |
| Long-Term In Vitro Expansion of Epithelial Stem Cells Enabled by Pharmacological Inhibition of PAK1- ... | Zhang, Chengkang; Lee, Hyung Joo; Shrivastava, Anura; Wang, Ruipeng; McQuiston, Travis J; Chall ... | U24ES026699 | Cell Rep (2018 10 16) |
30332641
|
2018 |
| Soluble inflammatory mediators induce transcriptional re-organization that is independent of dna met ... | Jiang, Kaiyu; Wong, Laiping; Chen, Yanmin; Xing, Xiaoyun; Li, Daofeng; Wang, Ting; Jarvis, Ja ... | U24ES026699 | J Reprod Immunol (2018 08) |
29800761
|
2018 |
| The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chr ... | Wang, Yanli; Song, Fan; Zhang, Bo; Zhang, Lijun; Xu, Jie; Kuang, Da; Li, Daofeng; Choudhary, ... | U24ES026699 | Genome Biol (2018 10 04) |
30286773
|
2018 |
| The NIEHS TaRGET II Consortium and environmental epigenomics. | Wang, Ting; Pehrsson, Erica C; Purushotham, Deepak; Li, Daofeng; Zhuo, Xiaoyu; Zhang, Bo; Laws ... | P30ES013508, P30ES017885, P30ES025128, R01ES028802, R01ES028802, U24ES026699 | Nat Biotechnol (2018 Mar 06) |
29509741
|
2018 |
| Transposable Element Mediated Innovation in Gene Regulatory Landscapes of Cells: Re-Visiting the "Ge ... | Sundaram, Vasavi; Wang, Ting | U24ES026699 | Bioessays (2018 Jan) |
29206283
|
2018 |
| DNA methyltransferase 3b regulates articular cartilage homeostasis by altering metabolism. | Shen, Jie; Wang, Cuicui; Li, Daofeng; Xu, Taotao; Myers, Jason; Ashton, John M; Wang, Ting; Z ... | U24ES026699 | JCI Insight (2017 Jun 15) |
28614801
|
2017 |
| DNMT and HDAC inhibitors induce cryptic transcription start sites encoded in long terminal repeats. | Brocks, David; Schmidt, Christopher R; Daskalakis, Michael; Jang, Hyo Sik; Shah, Nakul M; Li, ... | U24ES026699 | Nat Genet (2017 Jul) |
28604729
|
2017 |
| EpiCompare: an online tool to define and explore genomic regions with tissue or cell type-specific e ... | He, Yu; Wang, Ting | U24ES026699 | Bioinformatics (2017 Oct 15) |
28605501
|
2017 |
| Epigenomic annotation of noncoding mutations identifies mutated pathways in primary liver cancer. | Lowdon, Rebecca F; Wang, Ting | U24ES026699 | PLoS One (2017) |
28333948
|
2017 |
| ETV2/ER71 regulates hematopoietic regeneration by promoting hematopoietic stem cell proliferation. | Xu, Can-Xin; Lee, Tae-Jin; Sakurai, Nagisa; Krchma, Karen; Liu, Fang; Li, Daofeng; Wang, Ting ... | U24ES026699 | J Exp Med (2017 Jun 05) |
28461595
|
2017 |
| Functional cis-regulatory modules encoded by mouse-specific endogenous retrovirus. | Sundaram, Vasavi; Choudhary, Mayank N K; Pehrsson, Erica; Xing, Xiaoyun; Fiore, Christopher; Pa ... | U24ES026699 | Nat Commun (2017 Mar 28) |
28348391
|
2017 |
| MicroRNAs Induce a Permissive Chromatin Environment that Enables Neuronal Subtype-Specific Reprogram ... | Abernathy, Daniel G; Kim, Woo Kyung; McCoy, Matthew J; Lake, Allison M; Ouwenga, Rebecca; Lee, ... | U24ES026699 | Cell Stem Cell (2017 09 07) |
28886366
|
2017 |
| Tissue-specific DNA methylation is conserved across human, mouse, and rat, and driven by primary seq ... | Zhou, Jia; Sears, Renee L; Xing, Xiaoyun; Zhang, Bo; Li, Daofeng; Rockweiler, Nicole B; Jang, ... | U24ES026699 | BMC Genomics (2017 Sep 12) |
28899353
|
2017 |
| Uncovering the transcriptomic and epigenomic landscape of nicotinic receptor genes in non-neuronal t ... | Zhang, Bo; Madden, Pamela; Gu, Junchen; Xing, Xiaoyun; Sankar, Savita; Flynn, Jennifer; Kroll, ... | U24ES026699 | BMC Genomics (2017 Jun 05) |
28583088
|
2017 |
| Whole-Genome DNA Methylation Profiling Identifies Epigenetic Signatures of Uterine Carcinosarcoma. | Li, Jing; Xing, Xiaoyun; Li, Daofeng; Zhang, Bo; Mutch, David G; Hagemann, Ian S; Wang, Ting | U24ES026699 | Neoplasia (2017 Feb) |
28088687
|
2017 |
| Inhibition of DNA Methyltransferases Blocks Mutant Huntingtin-Induced Neurotoxicity. | Pan, Yanchun; Daito, Takuji; Sasaki, Yo; Chung, Yong Hee; Xing, Xiaoyun; Pondugula, Santhi; Sw ... | U24ES026699 | Sci Rep (2016 08 12) |
27516062
|
2016 |