The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data.
The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data.
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DOI：
10.1038/s41467-022-29697-4
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发表时间：
2022-05-02
影响因子：
16.6
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中科院分区：
文献类型：
--
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4D Nucleome（4DN）网络旨在阐明细胞核中染色体的复杂结构和组织，以及它们在疾病生物学中的破坏影响。我们提出了4DN数据门户（https：//data.4dnucleome.org/），这是一个在4DN网络中生成的数据集和相关外部数据集的存储库。数据集是通过广泛的实验生成的，包括染色体构象捕获分析，如Hi-C和其他创新的测序和基于显微镜的分析，探测染色体结构。4DN数据门户总共托管了1800多个实验集和36000个文件。来自不同实验室的基于测序的测定结果被统一处理和质量控制。门户界面允许轻松浏览，过滤和批量下载，集成的HiGlass基因组浏览器允许交互式可视化和多个数据集的比较。4DN数据门户代表了科学界染色体接触和其他核结构数据的主要资源。本文描述了“4DN数据门户”，它托管4D Nucleome网络生成的数据，包括Hi-C和其他染色质构象捕获分析，以及各种基于测序和基于成像的分析。原始数据经过统一处理以提高可比性，门户通过可视化工具实现，无需下载即可浏览数据。
The 4D Nucleome (4DN) Network aims to elucidate the complex structure and organization of chromosomes in the nucleus and the impact of their disruption in disease biology. We present the 4DN Data Portal (https://data.4dnucleome.org/), a repository for datasets generated in the 4DN network and relevant external datasets. Datasets were generated with a wide range of experiments, including chromosome conformation capture assays such as Hi-C and other innovative sequencing and microscopy-based assays probing chromosome architecture. All together, the 4DN data portal hosts more than 1800 experiment sets and 36000 files. Results of sequencing-based assays from different laboratories are uniformly processed and quality-controlled. The portal interface allows easy browsing, filtering, and bulk downloads, and the integrated HiGlass genome browser allows interactive visualization and comparison of multiple datasets. The 4DN data portal represents a primary resource for chromosome contact and other nuclear architecture data for the scientific community. This paper describes the ‘4DN Data Portal’ that hosts data generated by the 4D Nucleome network, including Hi-C and other chromatin conformation capture assays, as well as various sequencing-based and imaging-based assays. Raw data have been uniformly processed to increase comparability and the portal is implemented with visualization tools to browse the data without download.
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影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
3.7
作者：
Hitz, Benjamin C.;Rowe, Laurence D.;Cherry, J. Michael
通讯作者：
Cherry, J. Michael
影响因子：
64.8
作者：
Beagrie RA;Scialdone A;Schueler M;Kraemer DC;Chotalia M;Xie SQ;Barbieri M;de Santiago I;Lavitas LM;Branco MR;Fraser J;Dostie J;Game L;Dillon N;Edwards PA;Nicodemi M;Pombo A
通讯作者：
Pombo A
影响因子：
12.3
作者：
Deng X;Ma W;Ramani V;Hill A;Yang F;Ay F;Berletch JB;Blau CA;Shendure J;Duan Z;Noble WS;Disteche CM
通讯作者：
Disteche CM
影响因子：
64.5
作者：
Akhtar, Waseem;de Jong, Johann;van Steensel, Bas
通讯作者：
van Steensel, Bas