Visualizing genomes: techniques and challenges

doi:10.1038/NMETH.1422

2010-02-25

132

PRE

DOI：10.1038/NMETH.1422

原文链接

原文求助

摘要

En 中文

As our ability to generate sequencing data continues to increase, data analysis is replacing data generation as the rate-limiting step in genomics studies. Here we provide a guide to genomic data visualization tools that facilitate analysis tasks by enabling researchers to explore, interpret and manipulate their data, and in some cases perform on-the-fly computations. We will discuss graphical methods designed for the analysis of de novo sequencing assemblies and read alignments, genome browsing, and comparative genomics, highlighting the strengths and limitations of these approaches and the challenges ahead.

Keyword:

DNA-SEQUENCE ALIGNMENTS

DESK-TOP COMPUTER

COMPUTATIONAL TOOLS

MOUSE GENOME

BROWSER

SOFTWARE

VISTA

UCSC

VERTEBRATE

ELEMENTS

AI总结

对已上传原文的论文进行重点信息的提取，主要内容包括：简要概述、研究摘要、背景介绍、关键亮点、图文解析、展望与总结。

期刊

Nature Methods

IF:

32.1

论文数:

7.2K

被引数:

12.7W

机构

british columbia cancer agency

学者数:

5.1K

论文数: 3.4K

被引数: 10

united states department of energy (doe)

学者数:

11.3W

论文数: 9.6W

被引数: 246

University of California System

学者数:

37.5W

论文数: 33.7W

被引数: 6.6K

joint genome institute - jgi

学者数:

429

论文数: 289

被引数: 0

查看更多机构

引用论文

An efficient 3-dimensional hydrodynamic focusing microfluidic device by means of locally increased aspect ratio

Microelectronic Engineering

IF0

2009-04-01

PREAI

Dong Sung Kim; Dong Sung (Danny) Kim; Kyungsup Han; Wonseok Yang

The Impact of p53 Dysfunction in ATR Inhibitor Cytotoxicity and Chemo- and Radiosensitisation

Cancers

IF0

2018-08-20

OAAI

Fiona Middleton; John Pollard; Nicola Curtin

Database resources of the National Center for Biotechnology 国家生物技术中心数据库资源

NUCLEIC ACIDS RESEARCH

IF13.1

2003-01-01

843

OAAI

Wheeler, DL; Church, DM; Federhen, S; Lash, AE; Madden, TL; Pontius, JU; Schuler, GD; Schriml, LM; Sequeira, E; Tatusova, TA; Wagner, L

The UCSC Cancer Genomics Browser

NATURE METHODS

IF32.1

2009-04-01

163

OAAI

Zhu, Jingchun; Sanborn, J. Zachary; Benz, Stephen; Szeto, Christopher; Hsu, Fan; Kuhn, Robert M.; Karolchik, Donna; Archie, John; Lenburg, Marc E.; Esserman, Laura J.; Kent, W. James; Haussler, David; Wang, Ting

Sparse-TPU

Proceedings of the 34th ACM International Conference on Supercomputing

IF0

2020-06-29

PREAI

Xin He; Subhankar Pal; Aporva Amarnath; Siying Feng; Dong-Hyeon Park; Austin Rovinski; Haojie Ye; Yuhan Chen; Ronald Dreslinski; Trevor Mudge

Sticker: A 0.41-62.1 TOPS/W 8Bit Neural Network Processor with Multi-Sparsity Compatible Convolution Arrays and Online Tuning Acceleration for Fully Connected Layers

2018 IEEE Symposium on VLSI Circuits

IF0

2018-06-01

PREAI

Zhe Yuan; Jinshan Yue; Huanrui Yang; Zhibo Wang; Jinyang Li; Yixiong Yang; Qingwei Guo; Xueqing Li; Meng-Fan Chang; Huazhong Yang; Yongpan Liu

GenAx: A Genome Sequencing Accelerator GenAx: 基因组测序加速器

2018 ACM/IEEE 45th Annual International Symposium on Computer Architecture (ISCA)

IF0

2018-06-01

PREAI

Daichi Fujiki; Arun Subramaniyan; Tianjun Zhang; Yu Zeng; Reetuparna Das; David Blaauw; Satish Narayanasamy

Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids

PLANT PHYSIOLOGY

IF6.9

2008-10-24

344

OAAI

Lyons, Eric; Pedersen, Brent; Kane, Josh; Alam, Maqsudul; Ming, Ray; Tang, Haibao; Wang, Xiyin; Bowers, John; Paterson, Andrew; Lisch, Damon; Freeling, Michael

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes 脊椎动物，昆虫，蠕虫和酵母基因组中的进化保守元素

GENOME RESEARCH

IF5.5

2005-07-15

3.4K

OAAI

Siepel, A; Bejerano, G; Pedersen, JS; Hinrichs, AS; Hou, MM; Rosenbloom, K; Clawson, H; Spieth, J; Hillier, LW; Richards, S; Weinstock, GM; Wilson, RK; Gibbs, RA; Kent, WJ; Miller, W; Haussler, D

Mauve: Multiple alignment of conserved genomic sequence with rearrangements Mauve: 具有重排的保守基因组序列的多重比对

GENOME RESEARCH

IF5.5

2004-07-01

4.0K

OAAI

Darling, ACE; Mau, B; Blattner, FR; Perna, NT

查看更多内容