PMID- 28001340
OWN - NLM
STAT- MEDLINE
DCOM- 20171113
LR  - 20181113
IS  - 1939-005X (Electronic)
IS  - 1939-5094 (Print)
IS  - 1939-005X (Linking)
VI  - 9
IP  - 2
DP  - 2017 Mar
TI  - Quantitative approaches for investigating the spatial context of gene expression.
LID - 10.1002/wsbm.1369 [doi]
LID - e1369
AB  - The spatial information associated with gene expression is important for 
      elucidating the context-dependent transcriptional regulation during development. 
      Recently, high-resolution sampling approaches, such as RNA tomography or 
      single-cell RNA-seq combined with fluorescence in situ hybridization (FISH), have 
      provided indirect ways to view global gene expression patterns in three 
      dimensions. Now in situ sequencing technologies, such as fluorescent in situ 
      sequencing (FISSEQ), are attempting to visualize the genetic signature directly 
      in microscope images. This article will examine the basic principle of modern in 
      situ and single-cell genetic methods, hurdles in quantifying intrinsic and 
      extrinsic forces that influence cell decision-making, and technological 
      requirements for making a visual map of gene regulation, form, and function. 
      Successfully addressing these challenges will be essential for investigating the 
      functional evolution of regulatory sequences during growth, development, and 
      cancer progression. WIREs Syst Biol Med 2017, 9:e1369. doi: 10.1002/wsbm.1369 For 
      further resources related to this article, please visit the WIREs website.
CI  - (c) 2016 The Authors. WIREs Systems Biology and Medicine published by Wiley 
      Periodicals, Inc.
FAU - Lee, Je H
AU  - Lee JH
AUID- ORCID: 0000-0001-6947-7446
AD  - Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, USA.
LA  - eng
GR  - P30 CA045508/CA/NCI NIH HHS/United States
GR  - R35 GM119772/GM/NIGMS NIH HHS/United States
PT  - Journal Article
PT  - Review
DEP - 20161221
PL  - United States
TA  - Wiley Interdiscip Rev Syst Biol Med
JT  - Wiley interdisciplinary reviews. Systems biology and medicine
JID - 101516550
SB  - IM
MH  - Animals
MH  - Cellular Microenvironment
MH  - *Gene Expression
MH  - High-Throughput Nucleotide Sequencing/*methods
MH  - Humans
MH  - Imaging, Three-Dimensional
MH  - In Situ Hybridization, Fluorescence/*methods
MH  - Neoplasms/genetics/metabolism/pathology
MH  - Nucleic Acid Amplification Techniques
MH  - Sequence Analysis, RNA
MH  - Single-Cell Analysis
PMC - PMC5315614
MID - NIHMS827511
EDAT- 2016/12/22 06:00
MHDA- 2017/11/14 06:00
PMCR- 2017/03/02
CRDT- 2016/12/22 06:00
PHST- 2016/08/09 00:00 [received]
PHST- 2016/10/19 00:00 [revised]
PHST- 2016/10/25 00:00 [accepted]
PHST- 2016/12/22 06:00 [pubmed]
PHST- 2017/11/14 06:00 [medline]
PHST- 2016/12/22 06:00 [entrez]
PHST- 2017/03/02 00:00 [pmc-release]
AID - WSBM1369 [pii]
AID - 10.1002/wsbm.1369 [doi]
PST - ppublish
SO  - Wiley Interdiscip Rev Syst Biol Med. 2017 Mar;9(2):e1369. doi: 10.1002/wsbm.1369. 
      Epub 2016 Dec 21.