LIVIVO - Search results -

Search results

Result 1 - 10 of total 14

Search options

Article ; Online: Author Correction: Conserved and divergent gene regulatory programs of the mammalian neocortex.

Zemke, Nathan R / Armand, Ethan J / Wang, Wenliang / Lee, Seoyeon / Zhou, Jingtian / Li, Yang Eric / Liu, Hanqing / Tian, Wei / Nery, Joseph R / Castanon, Rosa G / Bartlett, Anna / Osteen, Julia K / Li, Daofeng / Zhuo, Xiaoyu / Xu, Vincent / Chang, Lei / Dong, Keyi / Indralingam, Hannah S / Rink, Jonathan A /

Xie, Yang / Miller, Michael / Krienen, Fenna M / Zhang, Qiangge / Taskin, Naz / Ting, Jonathan / Feng, Guoping / McCarroll, Steven A / Callaway, Edward M / Wang, Ting / Lein, Ed S / Behrens, M Margarita / Ecker, Joseph R / Ren, Bing

Nature

2024 Volume 625, Issue 7996, Page(s) E26

Language	English
Publishing date	2024-01-09
Publishing country	England
Document type	Published Erratum
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-07013-4
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 9: Show issues
Zs.MO 244: Show issues

Order via subito

This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

Details ▾
- See ZB MED holdings
- Order with fees

Article: Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex.

Zemke, Nathan R / Armand, Ethan J / Wang, Wenliang / Lee, Seoyeon / Zhou, Jingtian / Li, Yang Eric / Liu, Hanqing / Tian, Wei / Nery, Joseph R / Castanon, Rosa G / Bartlett, Anna / Osteen, Julia K / Li, Daofeng / Zhuo, Xiaoyu / Xu, Vincent / Miller, Michael / Krienen, Fenna M / Zhang, Qiangge / Taskin, Naz /

Ting, Jonathan / Feng, Guoping / McCarroll, Steven A / Callaway, Edward M / Wang, Ting / Behrens, M Margarita / Lein, Ed S / Ecker, Joseph R / Ren, Bing

bioRxiv : the preprint server for biology

2023

Abstract: Sequence divergence ... ...

Abstract	Sequence divergence of
Language	English
Publishing date	2023-04-08
Publishing country	United States
Document type	Preprint
DOI	10.1101/2023.04.08.536119
Database	MEDical Literature Analysis and Retrieval System OnLINE

Inter-library loan at ZB MED

Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

Details ▾

Article: Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain.

Liu, Hanqing / Zeng, Qiurui / Zhou, Jingtian / Bartlett, Anna / Wang, Bang-An / Berube, Peter / Tian, Wei / Kenworthy, Mia / Altshul, Jordan / Nery, Joseph R / Chen, Huaming / Castanon, Rosa G / Zu, Songpeng / Li, Yang Eric / Lucero, Jacinta / Osteen, Julia K / Pinto-Duarte, Antonio / Lee, Jasper / Rink, Jon /

Cho, Silvia / Emerson, Nora / Nunn, Michael / O'Connor, Carolyn / Yao, Zizhen / Smith, Kimberly A / Tasic, Bosiljka / Zeng, Hongkui / Luo, Chongyuan / Dixon, Jesse R / Ren, Bing / Behrens, M Margarita / Ecker, Joseph R

bioRxiv : the preprint server for biology

2023

Abstract: Cytosine DNA methylation is essential in brain development and has been implicated in various neurological disorders. A comprehensive understanding of DNA methylation diversity across the entire brain in the context of the brain's 3D spatial organization ...

Abstract	Cytosine DNA methylation is essential in brain development and has been implicated in various neurological disorders. A comprehensive understanding of DNA methylation diversity across the entire brain in the context of the brain's 3D spatial organization is essential for building a complete molecular atlas of brain cell types and understanding their gene regulatory landscapes. To this end, we employed optimized single-nucleus methylome (snmC-seq3) and multi-omic (snm3C-seq
Language	English
Publishing date	2023-04-18
Publishing country	United States
Document type	Preprint
DOI	10.1101/2023.04.16.536509
Database	MEDical Literature Analysis and Retrieval System OnLINE

Inter-library loan at ZB MED

Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

Details ▾

Article ; Online: Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain.

Cho, Silvia / Emerson, Nora / Nunn, Michael / O'Connor, Carolyn / Wu, Zhanghao / Stoica, Ion / Yao, Zizhen / Smith, Kimberly A / Tasic, Bosiljka / Luo, Chongyuan / Dixon, Jesse R / Zeng, Hongkui / Ren, Bing / Behrens, M Margarita / Ecker, Joseph R

Nature

2023 Volume 624, Issue 7991, Page(s) 366–377

Abstract: Cytosine DNA methylation is essential in brain development and is implicated in various neurological disorders. Understanding DNA methylation diversity across the entire brain in a spatial context is fundamental for a complete molecular atlas of brain ... ...

Abstract	Cytosine DNA methylation is essential in brain development and is implicated in various neurological disorders. Understanding DNA methylation diversity across the entire brain in a spatial context is fundamental for a complete molecular atlas of brain cell types and their gene regulatory landscapes. Here we used single-nucleus methylome sequencing (snmC-seq3) and multi-omic sequencing (snm3C-seq)
MeSH term(s)	Animals ; Mice ; Brain/cytology ; Brain/metabolism ; Chromatin/chemistry ; Chromatin/genetics ; Chromatin/metabolism ; Cytosine/metabolism ; Datasets as Topic ; DNA Methylation ; Epigenome ; Multiomics ; Single-Cell Analysis ; Transcription Factors/metabolism ; Transcription, Genetic
Chemical Substances	Chromatin ; Cytosine (8J337D1HZY) ; Transcription Factors
Language	English
Publishing date	2023-12-13
Publishing country	England
Document type	Journal Article
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-06805-y
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 9: Show issues
Zs.MO 244: Show issues

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Conserved and divergent gene regulatory programs of the mammalian neocortex.

Nature

2023 Volume 624, Issue 7991, Page(s) 390–402

Abstract: Divergence of cis-regulatory elements drives species-specific ... ...

Abstract	Divergence of cis-regulatory elements drives species-specific traits
MeSH term(s)	Animals ; Humans ; Mice ; Callithrix/genetics ; Chromatin/genetics ; Chromatin/metabolism ; Conserved Sequence/genetics ; DNA Methylation ; DNA Transposable Elements/genetics ; Epigenome ; Evolution, Molecular ; Gene Expression Regulation/genetics ; Gene Regulatory Networks ; Macaca/genetics ; Mammals/genetics ; Motor Cortex/cytology ; Motor Cortex/metabolism ; Multiomics ; Neocortex/cytology ; Neocortex/metabolism ; Regulatory Sequences, Nucleic Acid/genetics ; Single-Cell Analysis ; Transcription Factors/metabolism ; Genetic Variation/genetics
Chemical Substances	Chromatin ; DNA Transposable Elements ; Transcription Factors
Language	English
Publishing date	2023-12-13
Publishing country	England
Document type	Comparative Study ; Journal Article
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-06819-6
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 9: Show issues
Zs.MO 244: Show issues

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells.

Sabbagh, Mark F / Heng, Jacob S / Luo, Chongyuan / Castanon, Rosa G / Nery, Joseph R / Rattner, Amir / Goff, Loyal A / Ecker, Joseph R / Nathans, Jeremy

eLife

2018 Volume 7

Abstract: Vascular endothelial cell (EC) function depends on appropriate organ-specific molecular and cellular specializations. To explore genomic mechanisms that control this specialization, we have analyzed and compared the transcriptome, accessible chromatin, ... ...

Abstract	Vascular endothelial cell (EC) function depends on appropriate organ-specific molecular and cellular specializations. To explore genomic mechanisms that control this specialization, we have analyzed and compared the transcriptome, accessible chromatin, and DNA methylome landscapes from mouse brain, liver, lung, and kidney ECs. Analysis of transcription factor (TF) gene expression and TF motifs at candidate
MeSH term(s)	Amino Acid Motifs ; Animals ; Base Sequence ; Brain/metabolism ; Central Nervous System/cytology ; Chromatin/metabolism ; DNA Methylation/genetics ; Dopa Decarboxylase/metabolism ; Endothelial Cells/cytology ; Endothelial Cells/metabolism ; Epigenesis, Genetic ; Green Fluorescent Proteins/metabolism ; Liver/metabolism ; Lung/metabolism ; Male ; Mice, Transgenic ; Multigene Family ; Organ Specificity ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Sequence Analysis, RNA ; Single-Cell Analysis ; Transcription Factors/metabolism ; Transcription, Genetic ; Wnt Signaling Pathway
Chemical Substances	Chromatin ; RNA, Messenger ; Transcription Factors ; Green Fluorescent Proteins (147336-22-9) ; Dopa Decarboxylase (EC 4.1.1.-)
Language	English
Publishing date	2018-09-06
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2687154-3
ISSN	2050-084X ; 2050-084X
ISSN (online)	2050-084X
ISSN	2050-084X
DOI	10.7554/eLife.36187
Database	MEDical Literature Analysis and Retrieval System OnLINE

Order via subito

Article ; Online: Spatiotemporal DNA methylome dynamics of the developing mouse fetus.

Nature

2020 Volume 583, Issue 7818, Page(s) 752–759

Abstract: Cytosine DNA methylation is essential for mammalian development but understanding of its spatiotemporal distribution in the developing embryo remains ... ...

Abstract	Cytosine DNA methylation is essential for mammalian development but understanding of its spatiotemporal distribution in the developing embryo remains limited
MeSH term(s)	Animals ; Animals, Newborn ; Chromatin/genetics ; Chromatin/metabolism ; DNA Methylation ; Disease/genetics ; Down-Regulation ; Enhancer Elements, Genetic/genetics ; Epigenetic Repression ; Epigenome ; Female ; Fetus/embryology ; Fetus/metabolism ; Gene Silencing ; Humans ; Mice ; Mice, Inbred C57BL ; Models, Animal ; Molecular Sequence Annotation ; Polymorphism, Single Nucleotide ; Spatio-Temporal Analysis
Chemical Substances	Chromatin
Keywords	covid19
Language	English
Publishing date	2020-07-29
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-020-2119-x
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 9: Show issues
Zs.MO 244: Show issues

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Improved regulatory element prediction based on tissue-specific local epigenomic signatures.

He, Yupeng / Gorkin, David U / Dickel, Diane E / Nery, Joseph R / Castanon, Rosa G / Lee, Ah Young / Shen, Yin / Visel, Axel / Pennacchio, Len A / Ren, Bing / Ecker, Joseph R

Proceedings of the National Academy of Sciences of the United States of America

2017 Volume 114, Issue 9, Page(s) E1633–E1640

Abstract: Accurate enhancer identification is critical for understanding the spatiotemporal transcriptional regulation during development as well as the functional impact of disease-related noncoding genetic variants. Computational methods have been developed to ... ...

Abstract	Accurate enhancer identification is critical for understanding the spatiotemporal transcriptional regulation during development as well as the functional impact of disease-related noncoding genetic variants. Computational methods have been developed to predict the genomic locations of active enhancers based on histone modifications, but the accuracy and resolution of these methods remain limited. Here, we present an algorithm, regulatory element prediction based on tissue-specific local epigenetic marks (REPTILE), which integrates histone modification and whole-genome cytosine DNA methylation profiles to identify the precise location of enhancers. We tested the ability of REPTILE to identify enhancers previously validated in reporter assays. Compared with existing methods, REPTILE shows consistently superior performance across diverse cell and tissue types, and the enhancer locations are significantly more refined. We show that, by incorporating base-resolution methylation data, REPTILE greatly improves upon current methods for annotation of enhancers across a variety of cell and tissue types. REPTILE is available at https://github.com/yupenghe/REPTILE/.
MeSH term(s)	Algorithms ; Computational Biology/methods ; DNA Methylation/genetics ; Enhancer Elements, Genetic/genetics ; Epigenesis, Genetic/genetics ; Epigenomics/methods ; Gene Expression Regulation/genetics ; Genomics/methods ; Histone Code/genetics ; Histones/genetics ; Humans ; Transcription, Genetic/genetics
Chemical Substances	Histones
Language	English
Publishing date	2017-02-13
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	209104-5
ISSN	1091-6490 ; 0027-8424
ISSN (online)	1091-6490
ISSN	0027-8424
DOI	10.1073/pnas.1618353114
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 1148: Show issues

Location:
Je nach Verfügbarkeit (siehe Angabe bei Bestand)
bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
Jg. 1995 - 2021: Lesesall (1.OG)
ab Jg. 2022: Lesesaal (EG)

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Single-cell DNA methylation and 3D genome architecture in the human brain.

Tian, Wei / Zhou, Jingtian / Bartlett, Anna / Zeng, Qiurui / Liu, Hanqing / Castanon, Rosa G / Kenworthy, Mia / Altshul, Jordan / Valadon, Cynthia / Aldridge, Andrew / Nery, Joseph R / Chen, Huaming / Xu, Jiaying / Johnson, Nicholas D / Lucero, Jacinta / Osteen, Julia K / Emerson, Nora / Rink, Jon / Lee, Jasper /

Science (New York, N.Y.)

2023 Volume 382, Issue 6667, Page(s) eadf5357

Abstract: Delineating the gene-regulatory programs underlying complex cell types is fundamental for understanding brain function in health and disease. Here, we comprehensively examined human brain cell epigenomes by probing DNA methylation and chromatin ... ...

Abstract	Delineating the gene-regulatory programs underlying complex cell types is fundamental for understanding brain function in health and disease. Here, we comprehensively examined human brain cell epigenomes by probing DNA methylation and chromatin conformation at single-cell resolution in 517 thousand cells (399 thousand neurons and 118 thousand non-neurons) from 46 regions of three adult male brains. We identified 188 cell types and characterized their molecular signatures. Integrative analyses revealed concordant changes in DNA methylation, chromatin accessibility, chromatin organization, and gene expression across cell types, cortical areas, and basal ganglia structures. We further developed single-cell methylation barcodes that reliably predict brain cell types using the methylation status of select genomic sites. This multimodal epigenomic brain cell atlas provides new insights into the complexity of cell-type-specific gene regulation in adult human brains.
MeSH term(s)	Adult ; Humans ; Male ; Brain/cytology ; Brain/metabolism ; Chromatin/metabolism ; DNA Methylation ; Genome, Human ; Single-Cell Analysis ; Imaging, Three-Dimensional ; Epigenesis, Genetic ; Atlases as Topic
Chemical Substances	Chromatin
Language	English
Publishing date	2023-10-13
Publishing country	United States
Document type	Journal Article
ZDB-ID	128410-1
ISSN	1095-9203 ; 0036-8075
ISSN (online)	1095-9203
ISSN	0036-8075
DOI	10.1126/science.adf5357
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 27: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 77: Show issues

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

Article ; Online: Brain-wide correspondence of neuronal epigenomics and distant projections.

Zhou, Jingtian / Zhang, Zhuzhu / Wu, May / Liu, Hanqing / Pang, Yan / Bartlett, Anna / Peng, Zihao / Ding, Wubin / Rivkin, Angeline / Lagos, Will N / Williams, Elora / Lee, Cheng-Ta / Miyazaki, Paula Assakura / Aldridge, Andrew / Zeng, Qiurui / Salinda, J L Angelo / Claffey, Naomi / Liem, Michelle / Fitzpatrick, Conor /

Boggeman, Lara / Yao, Zizhen / Smith, Kimberly A / Tasic, Bosiljka / Altshul, Jordan / Kenworthy, Mia A / Valadon, Cynthia / Nery, Joseph R / Castanon, Rosa G / Patne, Neelakshi S / Vu, Minh / Rashid, Mohammad / Jacobs, Matthew / Ito, Tony / Osteen, Julia / Emerson, Nora / Lee, Jasper / Cho, Silvia / Rink, Jon / Huang, Hsiang-Hsuan / Pinto-Duartec, António / Dominguez, Bertha / Smith, Jared B / O'Connor, Carolyn / Zeng, Hongkui / Chen, Shengbo / Lee, Kuo-Fen / Mukamel, Eran A / Jin, Xin / Margarita Behrens, M / Ecker, Joseph R / Callaway, Edward M

Nature

2023 Volume 624, Issue 7991, Page(s) 355–365

Abstract: Single-cell analyses parse the brain's billions of neurons into thousands of 'cell-type' clusters residing in different brain ... ...

Abstract	Single-cell analyses parse the brain's billions of neurons into thousands of 'cell-type' clusters residing in different brain structures
MeSH term(s)	Animals ; Mice ; Amygdala ; Brain/cytology ; Brain/metabolism ; Consensus Sequence ; Datasets as Topic ; Epigenomics ; Gene Expression Profiling ; Hypothalamus/cytology ; Mesencephalon/cytology ; Neural Pathways/cytology ; Neurons/metabolism ; Neurotransmitter Agents/metabolism ; Regulatory Sequences, Nucleic Acid ; Rhombencephalon/cytology ; Single-Cell Analysis ; Thalamus/cytology ; Transcription Factors/metabolism
Chemical Substances	Neurotransmitter Agents ; Transcription Factors
Language	English
Publishing date	2023-12-13
Publishing country	England
Document type	Journal Article
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-06823-w
Database	MEDical Literature Analysis and Retrieval System OnLINE

In stock of ZB MED Cologne/Königswinter

Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
Zs.MG 9: Show issues
Zs.MO 244: Show issues

Order via subito

Details ▾
- See ZB MED holdings
- Order with fees

To top

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

Inter-library loan at ZB MED

More links

Kategorien

Inter-library loan at ZB MED

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito

More links

Kategorien

In stock of ZB MED Cologne/Königswinter

Order via subito