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BrainEXP specifications

Information


Unique identifier OMICS_30721
Name BrainEXP
Alternative name Brain EXPression
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainers


  • person_outline Chao Chen
  • person_outline Chunyu Liu

Additional information


ttp://www.brainexp.org/Help.aspx

Publication for BrainEXP

BrainEXP citations

 (55)
library_books

Bipolar disorder with binge eating behavior: a genome wide association study implicates PRR5 ARHGAP8

2018
PMCID: 5804024
PMID: 29391396
DOI: 10.1038/s41398-017-0085-3

[…] nction was investigated using ENCODE data via the tools HaploReg (version v4.1) and RegulomeDB (version 1.1). Possible expression quantitative trait locus (eQTL) associations between the top SNPs and brain expression were explored with BRAINEAC data (http://www.braineac.org). For genome-wide significant SNPs, we also explored potential regulatory mechanisms by visualizing 3D compartment organizati […]

library_books

Duplications at 19q13.33 in patients with neurodevelopmental disorders

2018
PMCID: 5820601
PMID: 29473046
DOI: 10.1212/NXG.0000000000000210

[…] ermined with an in-house Python script (available on request). Genes inside the consensus region were further evaluated as disease candidate genes with additional publicly available resources for (1) brain expression, strongly brain-expressed genes (n = 4,756), specified by a log (RPKM) >4.5 of the BrainSpan RNA.Seq transcriptome data set; (2) overlapping CNVs reported in the curated control inclu […]

library_books

Expitope 2.0: a tool to assess immunotherapeutic antigens for their potential cross reactivity against naturally expressed proteins in human tissues

2017
BMC Cancer
PMCID: 5745885
PMID: 29282079
DOI: 10.1186/s12885-017-3854-8

[…] expression analysis are most likely derived from the same individual except for seven brain samples []. In order to avoid data redundancy with the new Illumina Body Map database, we now only use the brain expression data from Wang et al. []. The new version 2.0 of Expitope incorporates three gene expression and four protein abundance datasets (Table ). It should be noted that in contrast to the P […]

library_books

Coevolution of Siglec 11 and Siglec 16 via gene conversion in primates

2017
BMC Evol Biol
PMCID: 5701461
PMID: 29169316
DOI: 10.1186/s12862-017-1075-z

[…] h is known as a repressor of BACE1 transcription in rat microglial cells [], is modified by the SIGLEC16P→SIGLEC11 gene conversion ([]; see Additional file : Figure S1). Thus, it is possible that the brain expression of human Siglec-11 emerged via the SIGLEC16P→SIGLEC11 gene conversion. The SIGLEC16P→SIGLEC11 gene conversion is an example of a pseudogene (a nonfunctional allele) contributing to th […]

library_books

Genome wide expression and response to exposure based psychological therapy for anxiety disorders

2017
PMCID: 5611743
PMID: 28850109
DOI: 10.1038/tp.2017.177

[…] ly, this study was conducted in a clinical setting with live participants, and therefore required the use of peripheral samples. However, whilst peripheral samples may not be wholly representative of brain expression patterns, transcriptomic comparisons in previous research have indicated that the expression of over 80% of genes is shared between peripheral blood and other tissues (including brain […]

library_books

Ultra rare mutations in SRCAP segregate in Caribbean Hispanic families with Alzheimer disease

2017
PMCID: 5570674
PMID: 28852706
DOI: 10.1212/NXG.0000000000000178

[…] ation was applied to the FPKM calls, with batch effect removed using Combat. Logarithm base 2 transformation was applied to the gene expression level prior to the analyses.The Student t test compared brain expression levels between LOAD and controls. Regression models were used to examine the association of gene expression with LOAD and with level of cognition proximate to death. Regression models […]

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BrainEXP institution(s)
School of Life Science, Central South University, Changsha, China; Hunan Qingpeng International Information Technology, Changsha, China; Qingres Limited, London, UK; Department of Psychiatry, SUNY Upstate Medical University, Syracuse, NY, USA; National Clinical Research Center for Geriatric Disorders, Central South University, Changsha, China
BrainEXP funding source(s)
Supported by National Natural Science Foundation of China grants 81401114, 31571312, the National Key Plan for Scientific Research and Development of China (2016YFC1306000), Innovation-Driven Project of Central South University (No. 2015CXS034,2018CX033), and NIH grants 1 U01 MH103340-01, 1R01ES024988.

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