Cargando…
A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain
The approximately 350 ion channels encoded by the mammalian genome are a main pillar of the nervous system. We have determined the expression pattern of 320 channels in the two-week-old (P14) rat brain by means of non-radioactive robotic in situ hybridization. Optimized methods were developed and im...
Autores principales: | , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer US
2014
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4303740/ https://www.ncbi.nlm.nih.gov/pubmed/25284011 http://dx.doi.org/10.1007/s12021-014-9247-0 |
_version_ | 1782353969676288000 |
---|---|
author | Shcherbatyy, Volodymyr Carson, James Yaylaoglu, Murat Jäckle, Katharina Grabbe, Frauke Brockmeyer, Maren Yavuz, Halenur Eichele, Gregor |
author_facet | Shcherbatyy, Volodymyr Carson, James Yaylaoglu, Murat Jäckle, Katharina Grabbe, Frauke Brockmeyer, Maren Yavuz, Halenur Eichele, Gregor |
author_sort | Shcherbatyy, Volodymyr |
collection | PubMed |
description | The approximately 350 ion channels encoded by the mammalian genome are a main pillar of the nervous system. We have determined the expression pattern of 320 channels in the two-week-old (P14) rat brain by means of non-radioactive robotic in situ hybridization. Optimized methods were developed and implemented to generate stringently coronal brain sections. The use of standardized methods permits a direct comparison of expression patterns across the entire ion channel expression pattern data set and facilitates recognizing ion channel co-expression. All expression data are made publically available at the Genepaint.org database. Inwardly rectifying potassium channels (Kir, encoded by the Kcnj genes) regulate a broad spectrum of physiological processes. Kcnj channel expression patterns generated in the present study were fitted with a deformable subdivision mesh atlas produced for the P14 rat brain. This co-registration, when combined with numerical quantification of expression strengths, allowed for semi-quantitative automated annotation of expression patterns as well as comparisons among and between Kcnj subfamilies. The expression patterns of Kcnj channel were also cross validated against previously published expression patterns of Kcnj channel genes. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s12021-014-9247-0) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-4303740 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Springer US |
record_format | MEDLINE/PubMed |
spelling | pubmed-43037402015-01-27 A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain Shcherbatyy, Volodymyr Carson, James Yaylaoglu, Murat Jäckle, Katharina Grabbe, Frauke Brockmeyer, Maren Yavuz, Halenur Eichele, Gregor Neuroinformatics Data Original Article The approximately 350 ion channels encoded by the mammalian genome are a main pillar of the nervous system. We have determined the expression pattern of 320 channels in the two-week-old (P14) rat brain by means of non-radioactive robotic in situ hybridization. Optimized methods were developed and implemented to generate stringently coronal brain sections. The use of standardized methods permits a direct comparison of expression patterns across the entire ion channel expression pattern data set and facilitates recognizing ion channel co-expression. All expression data are made publically available at the Genepaint.org database. Inwardly rectifying potassium channels (Kir, encoded by the Kcnj genes) regulate a broad spectrum of physiological processes. Kcnj channel expression patterns generated in the present study were fitted with a deformable subdivision mesh atlas produced for the P14 rat brain. This co-registration, when combined with numerical quantification of expression strengths, allowed for semi-quantitative automated annotation of expression patterns as well as comparisons among and between Kcnj subfamilies. The expression patterns of Kcnj channel were also cross validated against previously published expression patterns of Kcnj channel genes. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s12021-014-9247-0) contains supplementary material, which is available to authorized users. Springer US 2014-10-07 2015 /pmc/articles/PMC4303740/ /pubmed/25284011 http://dx.doi.org/10.1007/s12021-014-9247-0 Text en © The Author(s) 2014 https://creativecommons.org/licenses/by/4.0/ Open Access This article is distributed under the terms of the Creative Commons Attribution License which permits any use, distribution, and reproduction in any medium, provided the original author(s) and the source are credited. |
spellingShingle | Data Original Article Shcherbatyy, Volodymyr Carson, James Yaylaoglu, Murat Jäckle, Katharina Grabbe, Frauke Brockmeyer, Maren Yavuz, Halenur Eichele, Gregor A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title | A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title_full | A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title_fullStr | A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title_full_unstemmed | A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title_short | A Digital Atlas of Ion Channel Expression Patterns in the Two-Week-Old Rat Brain |
title_sort | digital atlas of ion channel expression patterns in the two-week-old rat brain |
topic | Data Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4303740/ https://www.ncbi.nlm.nih.gov/pubmed/25284011 http://dx.doi.org/10.1007/s12021-014-9247-0 |
work_keys_str_mv | AT shcherbatyyvolodymyr adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT carsonjames adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT yaylaoglumurat adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT jacklekatharina adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT grabbefrauke adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT brockmeyermaren adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT yavuzhalenur adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT eichelegregor adigitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT shcherbatyyvolodymyr digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT carsonjames digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT yaylaoglumurat digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT jacklekatharina digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT grabbefrauke digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT brockmeyermaren digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT yavuzhalenur digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain AT eichelegregor digitalatlasofionchannelexpressionpatternsinthetwoweekoldratbrain |