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1
Spatially resolved epigenomic profiling of single cells in complex tissues
Spatially resolved epigenomic profiling of single cells in complex tissues
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Spatially resolved epigenomic profiling of single cells in complex tissues

Cell, 2022-11, Vol.185 (23), p.4448-4464.e17 [Peer Reviewed Journal]

2022 The Authors ;Copyright © 2022 The Authors. Published by Elsevier Inc. All rights reserved. ;ISSN: 0092-8674 ;EISSN: 1097-4172 ;DOI: 10.1016/j.cell.2022.09.035 ;PMID: 36272405

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2
Hallmarks of Cancer: New Dimensions
Hallmarks of Cancer: New Dimensions
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Hallmarks of Cancer: New Dimensions

Cancer discovery, 2022-01, Vol.12 (1), p.31-46

2021 American Association for Cancer Research. ;ISSN: 2159-8274 ;EISSN: 2159-8290 ;DOI: 10.1158/2159-8290.cd-21-1059 ;PMID: 35022204

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3
Epigenomic profiling of primate lymphoblastoid cell lines reveals the evolutionary patterns of epigenetic activities in gene regulatory architectures
Epigenomic profiling of primate lymphoblastoid cell lines reveals the evolutionary patterns of epigenetic activities in gene regulatory architectures
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Epigenomic profiling of primate lymphoblastoid cell lines reveals the evolutionary patterns of epigenetic activities in gene regulatory architectures

The Author(s) 2021. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess ;ISSN: 2041-1723 ;EISSN: 2041-1723 ;DOI: 10.1038/s41467-021-23397-1

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4
Perspectives on ENCODE
Perspectives on ENCODE
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Perspectives on ENCODE

The Author(s) 2020. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess ;ISSN: 0028-0836 ;EISSN: 1476-4687 ;DOI: 10.1038/s41586-020-2449-8

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5
Epigenomics: Technologies and Applications
Epigenomics: Technologies and Applications
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Epigenomics: Technologies and Applications

Circulation research, 2018-04, Vol.122 (9), p.1191-1199 [Peer Reviewed Journal]

2018 American Heart Association, Inc. ;ISSN: 0009-7330 ;EISSN: 1524-4571 ;DOI: 10.1161/CIRCRESAHA.118.310998 ;PMID: 29700067

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6
Recent advances in the detection of base modifications using the Nanopore sequencer
Recent advances in the detection of base modifications using the Nanopore sequencer
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Recent advances in the detection of base modifications using the Nanopore sequencer

Journal of human genetics, 2020-01, Vol.65 (1), p.25-33 [Peer Reviewed Journal]

2019. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2019 ;ISSN: 1434-5161 ;EISSN: 1435-232X ;DOI: 10.1038/s10038-019-0679-0 ;PMID: 31602005

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7
Chromatin-state discovery and genome annotation with ChromHMM
Chromatin-state discovery and genome annotation with ChromHMM
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Chromatin-state discovery and genome annotation with ChromHMM

Nature protocols, 2017-12, Vol.12 (12), p.2478-2492 [Peer Reviewed Journal]

COPYRIGHT 2017 Nature Publishing Group ;COPYRIGHT 2017 Nature Publishing Group ;Copyright Nature Publishing Group Dec 2017 ;ISSN: 1754-2189 ;EISSN: 1750-2799 ;DOI: 10.1038/nprot.2017.124 ;PMID: 29120462

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8
Emerging epigenomic landscapes of pancreatic cancer in the era of precision medicine
Emerging epigenomic landscapes of pancreatic cancer in the era of precision medicine
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Emerging epigenomic landscapes of pancreatic cancer in the era of precision medicine

Nature communications, 2019-08, Vol.10 (1), p.3875-10, Article 3875 [Peer Reviewed Journal]

2019. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;Distributed under a Creative Commons Attribution 4.0 International License ;The Author(s) 2019 ;ISSN: 2041-1723 ;EISSN: 2041-1723 ;DOI: 10.1038/s41467-019-11812-7 ;PMID: 31462645

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9
The cis-Regulatory Atlas of the Mouse Immune System
The cis-Regulatory Atlas of the Mouse Immune System
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The cis-Regulatory Atlas of the Mouse Immune System

Cell, 2019-02, Vol.176 (4), p.897-912.e20 [Peer Reviewed Journal]

2018 Elsevier Inc. ;Copyright © 2018 Elsevier Inc. All rights reserved. ;ISSN: 0092-8674 ;EISSN: 1097-4172 ;DOI: 10.1016/j.cell.2018.12.036 ;PMID: 30686579

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10
Epigenomic Reprogramming as a Driver of Malignant Glioma
Epigenomic Reprogramming as a Driver of Malignant Glioma
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Epigenomic Reprogramming as a Driver of Malignant Glioma

Cancer cell, 2020-11, Vol.38 (5), p.647-660 [Peer Reviewed Journal]

2020 Elsevier Inc. ;Copyright © 2020 Elsevier Inc. All rights reserved. ;ISSN: 1535-6108 ;EISSN: 1878-3686 ;DOI: 10.1016/j.ccell.2020.08.008 ;PMID: 32916125

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11
Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks
Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks
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Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks

Cell, 2019-01, Vol.176 (1-2), p.361-376.e17 [Peer Reviewed Journal]

2018 Elsevier Inc. ;Copyright © 2018 Elsevier Inc. All rights reserved. ;ISSN: 0092-8674 ;EISSN: 1097-4172 ;DOI: 10.1016/j.cell.2018.11.022 ;PMID: 30580963

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12
CoBATCH for High-Throughput Single-Cell Epigenomic Profiling
CoBATCH for High-Throughput Single-Cell Epigenomic Profiling
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CoBATCH for High-Throughput Single-Cell Epigenomic Profiling

Molecular cell, 2019-10, Vol.76 (1), p.206-216.e7 [Peer Reviewed Journal]

2019 Elsevier Inc. ;Copyright © 2019 Elsevier Inc. All rights reserved. ;ISSN: 1097-2765 ;EISSN: 1097-4164 ;DOI: 10.1016/j.molcel.2019.07.015 ;PMID: 31471188

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13
The Need for Multi-Omics Biomarker Signatures in Precision Medicine
The Need for Multi-Omics Biomarker Signatures in Precision Medicine
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The Need for Multi-Omics Biomarker Signatures in Precision Medicine

International journal of molecular sciences, 2019-09, Vol.20 (19), p.4781 [Peer Reviewed Journal]

2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;2019 by the authors. 2019 ;ISSN: 1422-0067 ;ISSN: 1661-6596 ;EISSN: 1422-0067 ;DOI: 10.3390/ijms20194781 ;PMID: 31561483

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14
eDAVE – Extension of GDC data analysis, visualization, and exploration tools
eDAVE – Extension of GDC data analysis, visualization, and exploration tools
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eDAVE – Extension of GDC data analysis, visualization, and exploration tools

Computational and structural biotechnology journal, 2023, Vol.21, p.5446-5450 [Peer Reviewed Journal]

ISSN: 2001-0370 ;EISSN: 2001-0370 ;DOI: 10.1016/j.csbj.2023.10.057

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15
Chromatin alternates between A and B compartments at kilobase scale for subgenic organization
Chromatin alternates between A and B compartments at kilobase scale for subgenic organization
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Chromatin alternates between A and B compartments at kilobase scale for subgenic organization

The Author(s) 2023. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess ;ISSN: 2041-1723 ;EISSN: 2041-1723 ;DOI: 10.1038/s41467-023-38429-1

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16
Controlling bias and inflation in epigenome- and transcriptome-wide association studies using the empirical null distribution
Controlling bias and inflation in epigenome- and transcriptome-wide association studies using the empirical null distribution
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Controlling bias and inflation in epigenome- and transcriptome-wide association studies using the empirical null distribution

Genome Biology, 2017-01, Vol.18 (1), p.19-19, Article 19 [Peer Reviewed Journal]

2017. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2017 ;ISSN: 1474-760X ;ISSN: 1474-7596 ;EISSN: 1474-760X ;DOI: 10.1186/s13059-016-1131-9 ;PMID: 28129774

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17
Expanded encyclopaedias of DNA elements in the human and mouse genomes
Expanded encyclopaedias of DNA elements in the human and mouse genomes
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Expanded encyclopaedias of DNA elements in the human and mouse genomes

The Author(s) 2020. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess ;ISSN: 0028-0836 ;EISSN: 1476-4687 ;DOI: 10.1038/s41586-020-2493-4

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18
Diagnostic Utility of Genome-wide DNA Methylation Testing in Genetically Unsolved Individuals with Suspected Hereditary Conditions
Diagnostic Utility of Genome-wide DNA Methylation Testing in Genetically Unsolved Individuals with Suspected Hereditary Conditions
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Diagnostic Utility of Genome-wide DNA Methylation Testing in Genetically Unsolved Individuals with Suspected Hereditary Conditions

American journal of human genetics, 2019-04, Vol.104 (4), p.685-700 [Peer Reviewed Journal]

2019 American Society of Human Genetics ;Copyright © 2019 American Society of Human Genetics. Published by Elsevier Inc. All rights reserved. ;2019 American Society of Human Genetics. 2019 American Society of Human Genetics ;ISSN: 0002-9297 ;EISSN: 1537-6605 ;DOI: 10.1016/j.ajhg.2019.03.008 ;PMID: 30929737

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19
ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases
ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases
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ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases

BMC genomics, 2014-04, Vol.15 (1), p.284-284 [Peer Reviewed Journal]

COPYRIGHT 2014 BioMed Central Ltd. ;COPYRIGHT 2014 BioMed Central Ltd. ;2014 Shen et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. ;Copyright © 2014 Shen et al.; licensee BioMed Central Ltd. 2014 Shen et al.; licensee BioMed Central Ltd. ;ISSN: 1471-2164 ;EISSN: 1471-2164 ;DOI: 10.1186/1471-2164-15-284 ;PMID: 24735413

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20
Profiling plant histone modification at single‐cell resolution using snCUT&Tag
Profiling plant histone modification at single‐cell resolution using snCUT&Tag
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Profiling plant histone modification at single‐cell resolution using snCUT&Tag

Plant biotechnology journal, 2022-03, Vol.20 (3), p.420-422 [Peer Reviewed Journal]

2021 The Authors. published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. ;2022. This work is published under http://creativecommons.org/licenses/by-nc/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;ISSN: 1467-7644 ;EISSN: 1467-7652 ;DOI: 10.1111/pbi.13768 ;PMID: 34932876

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