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TiSAn specifications

Information


Unique identifier OMICS_18663
Name TiSAn
Alternative name Tissue-Specific Annotation
Software type Framework/Library, Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages R
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Jacob Michaelson

Publication for Tissue-Specific Annotation

TiSAn citations

 (3)
library_books

Identifying and exploiting trait relevant tissues with multiple functional annotations in genome wide association studies

2018
PLoS Genet
PMCID: 5805369
PMID: 29377896
DOI: 10.1371/journal.pgen.1007186

[…] to be the most relevant tissue for hematological traits (MCHC, MCH, MCV, MPV, PLT and RBC), presumably because of liver’s important role in producing extrarenal erythropoietin []. In contrast, using tissue-specific annotation highlighted BloodImmune tissue as the most relevant tissue for hematological traits. The similarity and difference between SMART and PubMed search results highlight the impo […]

library_books

Overlapping cell population expression profiling and regulatory inference in C. elegans

2016
BMC Genomics
PMCID: 4772325
PMID: 26926147
DOI: 10.1186/s12864-016-2482-z

[…] larval expression patterns (Wilcoxon p < 10−8). This consistency is striking given that the RNA-seq data includes information about later embryonic stages not assayed in the imaging data. Thus, known tissue-specific annotation and expression patterns support the idea that genes which occur in a given cluster are expressed in a similar set of embryonic cells.We further validated the clusters by com […]

library_books

Spatial expression of transcription factors in Drosophila embryonic organ development

2013
Genome Biol
PMCID: 4053779
PMID: 24359758
DOI: 10.1186/gb-2013-14-12-r140

[…] We classified TFs using five expression pattern categories: not expressed, maternally deposited only, ubiquitous-only, patterned-only (defined with tissue-specific annotation terms at all expressed stages) or patterned-and-ubiquitous (defined with both tissue-specific and ubiquitous annotation terms). Nearly all TFs are expressed during embryogen […]

Citations

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TiSAn institution(s)
University of Iowa, Carver College of Medicine, Iowa City, IA, USA; Department of Psychiatry, Carver College of Medicine, Iowa City, IA, USA
TiSAn funding source(s)
Supported by NIH grants MH105527 and DC014489.

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