Xingqi Chen

Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

Schuster, Jens; Lu, Xi; Dang, Yonglong; Klar, Joakim et al.

Ingår i eLIFE, 2024

• DOI för Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications
• Ladda ner fulltext (pdf) av Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

BRD2 compartmentalizes the accessible genome

Xie, Liangqi; Dong, Peng; Qi, Yifeng; Hsieh, Tsung-Han S. et al.

Ingår i Nature Genetics, s. 481-491, 2022

• DOI för BRD2 compartmentalizes the accessible genome

Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples

Zhang, Hua; Polavarapu, Vamsi Krishna; Xing, Pengwei; Zhao, Miao et al.

Ingår i Genome Research, s. 150-161, 2022

• DOI för Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples
• Ladda ner fulltext (pdf) av Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples

Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival

Lu, Xi; Maturi, Naga Prathyusha; Jarvius, Malin; Yildirim, Irem et al.

Ingår i Nature Communications, 2022

• DOI för Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival
• Ladda ner fulltext (pdf) av Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival

FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers

Zhao, Linxuan; Xing, Pengwei; Polavarapu, Vamsi Krishna; Zhao, Miao et al.

Ingår i Nucleic Acids Research, 2021

• DOI för FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers
• Ladda ner fulltext (pdf) av FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers

Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma

Zhao, Xue-Ke; Xing, Pengwei; Song, Xin; Zhao, Miao et al.

Ingår i Nature Communications, 2021

• DOI för Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma
• Ladda ner fulltext (pdf) av Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma

3D ATAC-PALM: super-resolution imaging of the accessible genome

Xie, Liangqi; Dong, Peng; Chen, Xingqi; Hsieh, Tsung-Han S. et al.

Ingår i Nature Methods, s. 430-436, 2020

• DOI för 3D ATAC-PALM: super-resolution imaging of the accessible genome

Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Wenson, Leonie; Heldin, Johan; Martin, Marcel; Erbilgin, Yuecel et al.

Ingår i Nature Communications, 2025

• DOI för Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling
• Ladda ner fulltext (pdf) av Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma

Lindell, Emma; Guo, Jing; Zhao, Miao; Rameika, Natallia et al.

Ingår i Cell Death and Disease, 2025

• DOI för Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma
• Ladda ner fulltext (pdf) av Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma

Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features

Kuenstner, Axel; Schwarting, Julian; Witte, Hanno M.; Xing, Pengwei et al.

Ingår i Leukemia, s. 1086-1098, 2024

• DOI för Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features
• Ladda ner fulltext (pdf) av Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features

Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

Schuster, Jens; Lu, Xi; Dang, Yonglong; Klar, Joakim et al.

Ingår i eLIFE, 2024

• DOI för Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications
• Ladda ner fulltext (pdf) av Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma

Nagarajan, Divya; Parracho, Rebeca T.; Corujo, David; Xie, Minglu et al.

Ingår i Journal of Clinical Investigation, 2024

• DOI för Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma
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Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Wenson, Leonie; Heldin, Johan; Martin, Marcel; Erbilgin, Yuecel et al.

Ingår i Nature Communications, 2025

• DOI för Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling
• Ladda ner fulltext (pdf) av Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma

Lindell, Emma; Guo, Jing; Zhao, Miao; Rameika, Natallia et al.

Ingår i Cell Death and Disease, 2025

• DOI för Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma
• Ladda ner fulltext (pdf) av Identification of a small molecule targeting EPLIN as a novel strategy for the treatment of pediatric neuroblastoma and medulloblastoma

Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features

Kuenstner, Axel; Schwarting, Julian; Witte, Hanno M.; Xing, Pengwei et al.

Ingår i Leukemia, s. 1086-1098, 2024

• DOI för Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features
• Ladda ner fulltext (pdf) av Genome-wide DNA methylation-analysis of blastic plasmacytoid dendritic cell neoplasm identifies distinct molecular features

Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

Schuster, Jens; Lu, Xi; Dang, Yonglong; Klar, Joakim et al.

Ingår i eLIFE, 2024

• DOI för Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications
• Ladda ner fulltext (pdf) av Epigenetic insights into GABAergic development in Dravet Syndrome iPSC and therapeutic implications

Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma

Nagarajan, Divya; Parracho, Rebeca T.; Corujo, David; Xie, Minglu et al.

Ingår i Journal of Clinical Investigation, 2024

• DOI för Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma
• Ladda ner fulltext (pdf) av Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma

Porcine circovirus type 2 infection promotes the SUMOylation of nucleophosmin-1 to facilitate the viral circular single-stranded DNA replication

Du, Qian; Zhu, Lei; Zhong, Jianhui; Wei, Xueqi et al.

Ingår i PLoS Pathogens, 2024

• DOI för Porcine circovirus type 2 infection promotes the SUMOylation of nucleophosmin-1 to facilitate the viral circular single-stranded DNA replication
• Ladda ner fulltext (pdf) av Porcine circovirus type 2 infection promotes the SUMOylation of nucleophosmin-1 to facilitate the viral circular single-stranded DNA replication

Identification of ATF3 as a novel protective signature of quiescent colorectal tumor cells

Lu, Xi; Zhong, Lei; Lindell, Emma; Veanes, Margus et al.

Ingår i Cell Death and Disease, 2023

• DOI för Identification of ATF3 as a novel protective signature of quiescent colorectal tumor cells
• Ladda ner fulltext (pdf) av Identification of ATF3 as a novel protective signature of quiescent colorectal tumor cells

Heparanase Modulates Chromatin Accessibility

Li, Honglian; Zhang, Hua; Wenz, Amelie S.; Kang, Ziqi et al.

Ingår i Cells, 2023

• DOI för Heparanase Modulates Chromatin Accessibility
• Ladda ner fulltext (pdf) av Heparanase Modulates Chromatin Accessibility

Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma

Borgenvik, Anna; Holmberg, Karl O.; Bolin, Sara; Zhao, Miao et al.

Ingår i Cancer Research, s. 4586-4603, 2022

• DOI för Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma
• Ladda ner fulltext (pdf) av Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma

BRD2 compartmentalizes the accessible genome

Xie, Liangqi; Dong, Peng; Qi, Yifeng; Hsieh, Tsung-Han S. et al.

Ingår i Nature Genetics, s. 481-491, 2022

• DOI för BRD2 compartmentalizes the accessible genome

Super-enhancers conserved within placental mammals maintain stem cell pluripotency

Zhang, Juqing; Zhou, Yaqi; Yue, Wei; Zhu, Zhenshuo et al.

Ingår i Proceedings of the National Academy of Sciences of the United States of America, 2022

• DOI för Super-enhancers conserved within placental mammals maintain stem cell pluripotency
• Ladda ner fulltext (pdf) av Super-enhancers conserved within placental mammals maintain stem cell pluripotency

Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility

Meijer, Mandy; Agirre, Eneritz; Kabbe, Mukund; van Tuijn, Cassandra A. et al.

Ingår i Neuron, s. 1193-1210, 2022

• DOI för Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility
• Ladda ner fulltext (pdf) av Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility

Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples

Zhang, Hua; Polavarapu, Vamsi Krishna; Xing, Pengwei; Zhao, Miao et al.

Ingår i Genome Research, s. 150-161, 2022

• DOI för Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples
• Ladda ner fulltext (pdf) av Profiling chromatin accessibility in formalin-fixed paraffin-embedded samples

Single-Cell Analysis Reveals Major Histocompatibility Complex II-Expressing Keratinocytes in Pressure Ulcers with Worse Healing Outcomes

Li, Dongqing; Cheng, Shangli; Pei, Yu; Sommar, Pehr et al.

Ingår i Journal of Investigative Dermatology, s. 705-716, 2022

• DOI för Single-Cell Analysis Reveals Major Histocompatibility Complex II-Expressing Keratinocytes in Pressure Ulcers with Worse Healing Outcomes
• Ladda ner fulltext (pdf) av Single-Cell Analysis Reveals Major Histocompatibility Complex II-Expressing Keratinocytes in Pressure Ulcers with Worse Healing Outcomes

Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival

Lu, Xi; Maturi, Naga Prathyusha; Jarvius, Malin; Yildirim, Irem et al.

Ingår i Nature Communications, 2022

• DOI för Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival
• Ladda ner fulltext (pdf) av Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival

A Highly Sensitive Method to Efficiently Profile the Histone Modifications of FFPE Samples

Zhao, Linxuan; Polavarapu, Vamsi Krishna; Yadav, Ram Prakash; Xing, Pengwei et al.

Ingår i Bio-protocol, 2022

• DOI för A Highly Sensitive Method to Efficiently Profile the Histone Modifications of FFPE Samples

The Thioesterase ACOT1 as a Regulator of Lipid Metabolism in Type 2 Diabetes Detected in a Multi-Omics Study of Human Liver

Cavalli, Marco; Diamanti, Klev; Dang, Yonglong; Xing, Pengwei et al.

Ingår i Omics, s. 652-659, 2021

• DOI för The Thioesterase ACOT1 as a Regulator of Lipid Metabolism in Type 2 Diabetes Detected in a Multi-Omics Study of Human Liver
• Ladda ner fulltext (pdf) av The Thioesterase ACOT1 as a Regulator of Lipid Metabolism in Type 2 Diabetes Detected in a Multi-Omics Study of Human Liver

FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers

Zhao, Linxuan; Xing, Pengwei; Polavarapu, Vamsi Krishna; Zhao, Miao et al.

Ingår i Nucleic Acids Research, 2021

• DOI för FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers
• Ladda ner fulltext (pdf) av FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers

FFPE-ATAC: A Highly Sensitive Method for Profiling Chromatin Accessibility in Formalin-Fixed Paraffin-Embedded Samples

Yadav, Ram Prakash; Polavarapu, Vamsi Krishna; Xing, Pengwei; Chen, Xingqi

Ingår i CURRENT PROTOCOLS, 2021

• DOI för FFPE-ATAC: A Highly Sensitive Method for Profiling Chromatin Accessibility in Formalin-Fixed Paraffin-Embedded Samples
• Ladda ner fulltext (pdf) av FFPE-ATAC: A Highly Sensitive Method for Profiling Chromatin Accessibility in Formalin-Fixed Paraffin-Embedded Samples

Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma

Zhao, Xue-Ke; Xing, Pengwei; Song, Xin; Zhao, Miao et al.

Ingår i Nature Communications, 2021

• DOI för Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma
• Ladda ner fulltext (pdf) av Focal amplifications are associated with chromothripsis events and diverse prognoses in gastric cardia adenocarcinoma

Histone demethylase complexes KDM3A and KDM3B cooperate with OCT4/SOX2 to define a pluripotency gene regulatory network

Zhu, Zhenshuo; Wu, Xiaolong; Li, Qun; Zhang, Juqing et al.

Ingår i The FASEB Journal, 2021

• DOI för Histone demethylase complexes KDM3A and KDM3B cooperate with OCT4/SOX2 to define a pluripotency gene regulatory network

3D ATAC-PALM: super-resolution imaging of the accessible genome

Xie, Liangqi; Dong, Peng; Chen, Xingqi; Hsieh, Tsung-Han S. et al.

Ingår i Nature Methods, s. 430-436, 2020

• DOI för 3D ATAC-PALM: super-resolution imaging of the accessible genome

Circular ecDNA promotes accessible chromatin and high oncogene expression

Wu, Sihan; Turner, Kristen M.; Nguyen, Nam; Raviram, Ramya et al.

Ingår i Nature, s. 699-703, 2019

• DOI för Circular ecDNA promotes accessible chromatin and high oncogene expression

Super enhancers-Functional cores under the 3D genome

Zhang, Juqing; Yue, Wei; Zhou, Yaqi; Liao, Mingzhi et al.

Ingår i Cell Proliferation, 2021

• DOI för Super enhancers-Functional cores under the 3D genome
• Ladda ner fulltext (pdf) av Super enhancers-Functional cores under the 3D genome

ATAC-See: A Tn5 Transposase-Mediated Assay for Detection of Chromatin Accessibility with Imaging

Dang, Yonglong; Yadav, Ram Prakash; Chen, Xingqi

Ingår i Chromatin Accessibility, s. 285-291, Humana Press, 2023

• DOI för ATAC-See: A Tn5 Transposase-Mediated Assay for Detection of Chromatin Accessibility with Imaging

Paired glioblastoma cell cultures of the fluorescent bulk tumor and non-fluorescent tumor margin display differential phenotypes and cell states across patients

Neves, Inês; Lu, Xi; Maturi, Nagaprathyusha; Dang, Yonglong et al.

HER2 Prognostic Significance and Therapeutic Implications in Gastric Cardia Adenocarcinoma: Insights from Multi-Omics Profiling

Wang, Lidong; Xing, Pengwei; Zhao, Xueke; Song, Xin et al.

Enhancer signatures define glioblastoma stem cell subtypes 1 with divergent patient survival

Xing, Pengwei; Neves, Ines; Salehi, Maede; Yadav, Ram Prakash et al.