Publications

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# Co-First authors * Co-corresponding;

2024

• Olsen TK#, Otte J#, Mei S#, Embaie BT, Kameneva P, Cheng H, et al. Joint single-cell genetic and transcriptomic analysis reveal pre-malignant SCP-like subclones in human neuroblastoma. Mol Cancer. 2024.
  doi:10.1186/s12943-024-02091-y

• Mei S#, Alchahin AM#, Embaie BT, Gavriliuc IM, Verhoeven BM, Zhao T, et al. Single-cell analyses of metastatic bone marrow in human neuroblastoma reveals microenvironmental remodeling and metastatic signature. JCI Insight. 2024.
  doi:10.1172/jci.insight.173337

• Mei S#, Alchahin AM#, Tsea I, Kfoury Y, Hirz T, Jeffries NE, et al. Single-cell analysis of immune and stroma cell remodeling in clear cell renal cell carcinoma primary tumors and bone metastatic lesions. Genome Med. 2024.
  doi:10.1186/s13073-023-01272-6

• Wienke J, Visser LL, Kholosy WM, Keller KM, Barisa M, Poon E,…,Mei S, et al. Integrative analysis of neuroblastoma by single-cell RNA sequencing identifies the NECTIN2-TIGIT axis as a target for immunotherapy. Cancer Cell. 2024.
  doi:10.1016/j.ccell.2023.12.008

2023

• Hirz T#, Mei S#*, Sarkar H, Kfoury Y, Wu S, Verhoeven BM, et al. Dissecting the immune suppressive human prostate tumor microenvironment via integrated single-cell and spatial transcriptomic analyses. Nat Commun. 2023.
  doi:10.1038/s41467-023-36325-2

• Bai Y, Min R, Chen P, Mei S, Deng F, Zheng Z, et al. Disulfiram blocks inflammatory TLR4 signaling by targeting MD-2. PNAS. 2023.
  doi:10.1073/pnas.2306399120

• Chaudagar K, Hieromnimon HM, Khurana R, Labadie B, Hirz T, Mei S, et al. Reversal of Lactate and PD-1–mediated Macrophage Immunosuppression Controls Growth of PTEN/p53-deficient Prostate Cancer. Clin Cancer Res. 2023.
  doi:10.1158/1078-0432.CCR-22-3350

2022

• Haase C#, Gustafsson K#, Mei S#, Yeh S-C, Richter D, Milosevic J, et al. Image-seq: spatially resolved single-cell sequencing guided by in situ and in vivo imaging. Nat Methods. 2022. doi:10.1038/s41592-022-01673-2

• Alchahin AM#, Mei S#*, Tsea I, Hirz T, Kfoury Y, Dahl D, et al. A transcriptional metastatic signature predicts survival in clear cell renal cell carcinoma. Nat Commun. 2022. doi:10.1038/s41467-022-33375-w

• Verhoeven BM#, Mei S#, Olsen TK, Gustafsson K, Valind A, Lindström A, et al. The immune cell atlas of human neuroblastoma. Cell Rep Med. 2022;3: 100657. doi:10.1016/j.xcrm.2022.100657

• Buonomo EL#, Mei S#, Guinn SR, Leo IR, Peluso MJ, Nolan M-A, et al. Liver stromal cells restrict macrophage maturation and stromal IL-6 limits the differentiation of cirrhosis-linked macrophages. J Hepatol. 2022. doi:10.1016/j.jhep.2021.12.036

• Xu Y#, Wei Z#, Feng M#, Zhu D#, Mei S#, Wu Z, et al. Tumor-infiltrated activated B cells suppress liver metastasis of colorectal cancers. Cell Rep. 2022. doi:10.1016/j.celrep.2022.111295

• Deng W, Bai Y, Deng F, Pan Y, Mei S, Zheng Z, et al. Streptococcal pyrogenic exotoxin B cleaves GSDMA and triggers pyroptosis. Nature. 2022;602: 496–502. doi:10.1038/s41586-021-04384-4

• Batiuk MY, Tyler T, Dragicevic K, Mei S, Rydbirk R. Upper cortical layer–driven network impairment in schizophrenia. Science Advances. 2022. doi:10.1126/sciadv.abn8367

Before 2022

• Kfoury Y#, Baryawno N#, Severe N#, Mei S#, Gustafsson K#, Hirz T, et al. Human prostate cancer bone metastases have an actionable immunosuppressive microenvironment. Cancer Cell. 2021. doi:10.1016/j.ccell.2021.09.005

• Mei S, Meyer CA, Zheng R, Qin Q, Wu Q, Jiang P, et al. Cistrome cancer: a web resource for integrative gene regulation modeling in cancer. Cancer Res. 2017;77: e19–e22. doi:10.1158/0008-5472.CAN-17-0327

• Mei S#, Qin Q#, Wu Q#, Sun H, Zheng R, Zang C, et al. Cistrome Data Browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse. Nucleic Acids Res. 2017. doi:10.1093/nar/gkw983

• Zhao L#, Huang S#, Mei S#, Yang Z, Xu L, Zhou N, et al. Pharmacological activation of estrogen receptor beta augments innate immunity to suppress cancer metastasis. PNAS. 2018. doi:10.1073/pnas.1803291115

• Qin Q#, Mei S#, Wu Q#, Sun H, Li L, Taing L, et al. ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline. BMC Bioinformatics. 2016. doi:10.1186/s12859-016-1274-4

• Liao Y, Chen C-H, Xiao T, de la Peña Avalos B, Dray EV, Cai C,…,Mei S, et al. Inhibition of EZH2 transactivation function sensitizes solid tumors to genotoxic stress. PNAS. 2022. doi:10.1073/pnas.2105898119

• Zheng Z, Deng W, Bai Y, Miao R, Mei S, Zhang Z, et al. The lysosomal Rag-Ragulator complex licenses RIPK1– and caspase-8–mediated pyroptosis by Yersinia. Science. 2021. doi:10.1126/science.abg0269

• Kameneva P, Artemov AV, Kastriti ME, Faure L, Olsen TK, Otte J,…,Mei S, et al. Single-cell transcriptomics of human embryos identifies multiple sympathoblast lineages with potential implications for neuroblastoma origin. Nat Genet. 2021;53: 694–706. doi:10.1038/s41588-021-00818-x

• Pan Y, Liu L, Tian T, Zhao J, Park CO, Lofftus SY,…,Mei S, et al. Epicutaneous immunization with modified vaccinia Ankara viral vectors generates superior T cell immunity against a respiratory viral challenge. NPJ Vaccines. 2021.
  doi:10.1038/s41541-020-00265-5

• Qin Q, Fan J, Zheng R, Wan C, Mei S, Wu Q, et al. Lisa: inferring transcriptional regulators through integrative modeling of public chromatin accessibility and ChIP-seq data. Genome Biology. 2020. doi:10.1186/s13059-020-1934-6

• Zhang J, Lee D, Dhiman V, Jiang P, Xu J, McGillivray P,…,Mei S, et al. An integrative ENCODE resource for cancer genomics. Nat Commun. 2020. doi:10.1038/s41467-020-14743-w

• Feng M, Jin JQ, Xia L, Xiao T, Mei S, Wang X, et al. Pharmacological inhibition of β-catenin/BCL9 interaction overcomes resistance to immune checkpoint blockades by modulating Treg cells. Sci Advances. 2019. doi:10.1126/sciadv.aau5240

• Wang B, Wang M, Zhang W, Xiao T, Chen C-H, Wu A,…,Mei S, et al. Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute. Nat Protoc. 2019. doi:10.1038/s41596-018-0113-7

• Zheng R, Wan C, Mei S, Qin Q, Wu Q, Sun H, et al. Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis. Nucleic Acids Res. 2019. doi:10.1093/nar/gky1094

• Liang T, Mei S, Shi C, Yang Y, Peng Y, Ma L, et al. UVR8 Interacts with BES1 and BIM1 to Regulate Transcription and Photomorphogenesis in Arabidopsis. Dev Cell. 2018. doi:10.1016/j.devcel.2017.12.028

• Chen D, Fang L, Mei S, Li H, Xu X, Des Marais TL, et al. Regulation of chromatin assembly and cell transformation by formaldehyde exposure in human cells. Environ Health Perspect. 2017. doi:10.1289/EHP1275

• Pan Y, Tian T, Park CO, Lofftus SY, Mei S, Liu X, et al. Survival of tissue-resident memory T cells requires exogenous lipid uptake and metabolism. Nature. 2017. doi:10.1038/nature21379

• Ma J, Köster J, Qin Q, Hu S, Li W, Chen C,…,Mei S, et al. CRISPR-DO for genome-wide CRISPR design and optimization. Bioinformatics. 2016. doi:10.1093/bioinformatics/btw476

• Wang S, Zang C, Xiao T, Fan J, Mei S, Qin Q, et al. Modeling cis-regulation with a compendium of genome-wide histone H3K27ac profiles. Genome Res. 2016. doi:10.1101/gr.201574.115

• Yoshida T, Kim JH, Carver K, Su Y, Weremowicz S, Mulvey L,…,Mei S, et al. CLK2 Is an Oncogenic Kinase and Splicing Regulator in Breast Cancer. Cancer Res. 2015. doi:10.1158/0008-5472.CAN-14-2443

• Wang Q, Huang J, Sun H, Liu J, Wang J, Wang Q,…,Mei S, et al. CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. Nucleic Acids Res. 2014. doi:10.1093/nar/gkt1151