Resource: A multi-species multi-timepoint transcriptome database and webpage for the pineal gland and retina

被引：13

作者：

Chang, Eric ^{[1
]}

Fu, Cong ^{[2
,3
,4
,5
]}

Coon, Steven L. ^{[2
,6
]}

Alon, Shahar ^{[7
,8
,19
]}

Bozinoski, Marjan ^{[9
,10
]}

Breymaier, Matthew ^{[11
]}

Bustos, Diego M. ^{[2
,20
]}

Clokie, Samuel J. ^{[2
,21
]}

Gothilf, Yoav ^{[7
,8
]}

Esnault, Caroline ^{[1
]}

Iuvone, P. Michael ^{[12
,13
]}

Mason, Christopher E. ^{[9
,10
]}

Ochocinska, Margaret J. ^{[2
,22
]}

Tovin, Adi ^{[7
,8
,23
]}

Wang, Charles ^{[14
]}

Xu, Pinxian ^{[15
]}

Zhu, Jinhan ^{[16
,17
]}

Dale, Ryan ^{[1
]}

Klein, David C. ^{[2
,18
]}

机构：

[1] Eunice Kennedy Shriver Natl Inst Child Hlth & Hum, Bioinformat & Sci Programming Core, NIH, Bethesda, MD USA

[2] Eunice Kennedy Shriver Natl Inst Child Hlth & Hum, Sect Neuroendocrinol, Program Dev Endocrinol & Genet, NIH, Bethesda, MD USA

[3] First Hosp Jilin Univ, Minist Educ, Key Lab Organ Regenerat & Transplantat, Changchun, Peoples R China

[4] Jilin Univ, Inst Theoret Chem, Lab Theoret & Computat Chem, Changchun, Peoples R China

[5] Natl Local Joint Engn Lab Anim Models Human Dis, Changchun, Peoples R China

[6] Eunice Kennedy Shriver Natl Inst Child Hlth & Hum, Mol Genom Core, Off Sci Director, NIH, Bethesda, MD USA

[7] Tel Aviv Univ, George S Wise Fac Life Sci, Dept Neurobiol, Tel Aviv, Israel

[8] Tel Aviv Univ, Sagol Sch Neurosci, Tel Aviv, Israel

[9] Weill Cornell Med Coll, Dept Physiol & Biophys, New York, NY USA

[10] Weill Cornell Med Coll, Inst Computat Biomed, New York, NY USA

[11] Eunice Shriver Kennedy Natl Inst Child Hlth & Hum, Comp Support Serv Core, NIH, Bethesda, MD USA

[12] Emory Univ, Sch Med, Dept Ophthalmol, Atlanta, GA 30322 USA

[13] Emory Univ, Sch Med, Dept Pharmacol & Chem Biol, Atlanta, GA USA

[14] Loma Linda Univ, Sch Med, Ctr Genom, Loma Linda, CA USA

[15] Mt Sinai Sch Med, Icahn Med Inst, Dept Genet & Genom Sci, New York, NY USA

[16] US FDA, Natl Ctr Toxicol Res, Jefferson, AR 72079 USA

[17] Anhui Med Univ, Deptment Physiol Sch Basic Med Sci, Hefei, Peoples R China

[18] Eunice Kennedy Shriver Natl Inst Child Hlth & Hum, Off Sci Director, NIH, Bethesda, MD USA

[19] Bar Ilan Univ, Alexander Kofkin Fac Engn, Ramat Gan, Israel

[20] Consejo Nacl Invest Cient & Tecn, Inst Histol & Embriol Mendoza, Mendoza, Argentina

[21] Womens & Childrens NHS Fdn Trust, West Midlands Reg Genet Labs, Birmingham, W Midlands, England

[22] NHLBI, NIH, Bldg 10, Bethesda, MD 20892 USA

[23] Bar Ilan Univ, Fac Life Sci, Ramat Gan, Israel

来源：

JOURNAL OF PINEAL RESEARCH | 2020年 / 69卷 / 03期

基金：

中国国家自然科学基金;

关键词：

biological rhythms; neurotranscriptomics; pineal; retina; RNA-Seq; transcriptome; webpage; ARYLALKYLAMINE N-ACETYLTRANSFERASE; TRYPTOPHAN-HYDROXYLASE; MELATONIN SYNTHESIS; EVOLUTION; SEQUENCE; AANAT; CDNA; GENE; RNAS;

D O I：

10.1111/jpi.12673

中图分类号：

R5 [内科学];

学科分类号：

1002 ; 100201 ;

摘要：

The website and database provides RNA sequencing data from multi-species analysis of the pineal glands from zebrafish (Danio rerio), chicken (White Leghorn), rat (Rattus novegicus), mouse (Mus musculus), rhesus macaque (Macaca mulatta), and human (Homo sapiens); in most cases, retinal data are also included along with results of the analysis of a mixture of RNA from tissues. Studies cover day and night conditions; in addition, a time series over multiple hours, a developmental time series and pharmacological experiments on rats are included. The data have been uniformly re-processed using the latest methods and assemblies to allow for comparisons between experiments and to reduce processing differences. The website presents search functionality, graphical representations, Excel tables, and track hubs of all data for detailed visualization in the UCSC Genome Browser. As more data are collected from investigators and improved genomes become available in the future, the website will be updated. This database is in the public domain and elements can be reproduced by citing the URL and this report. This effort makes the results of 21st century transcriptome profiling widely available in a user-friendly format that is expected to broadly influence pineal research.

引用

页数：13

共 33 条

[1] Zebrafish serotonin-N-acetyltransferase-2 gene regulation:: Pineal-restrictive downstream module contains a functional E-box and three photoreceptor conserved elements [J].