Comprehensive comparison of large-scale tissue expression datasets

TY - JOUR

T1 - Comprehensive comparison of large-scale tissue expression datasets

AU - Santos Delgado, Alberto

AU - Tsafou, Kalliopi

AU - Stolte, Christian

AU - Pletscher-Frankild, Sune

AU - O'Donoghue, Seán I

AU - Jensen, Lars Juhl

PY - 2015

Y1 - 2015

N2 - For tissues to carry out their functions, they rely on the right proteins to be present. Several high-throughput technologies have been used to map out which proteins are expressed in which tissues; however, the data have not previously been systematically compared and integrated. We present a comprehensive evaluation of tissue expression data from a variety of experimental techniques and show that these agree surprisingly well with each other and with results from literature curation and text mining. We further found that most datasets support the assumed but not demonstrated distinction between tissue-specific and ubiquitous expression. By developing comparable confidence scores for all types of evidence, we show that it is possible to improve both quality and coverage by combining the datasets. To facilitate use and visualization of our work, we have developed the TISSUES resource (http://tissues.jensenlab.org), which makes all the scored and integrated data available through a single user-friendly web interface.

AB - For tissues to carry out their functions, they rely on the right proteins to be present. Several high-throughput technologies have been used to map out which proteins are expressed in which tissues; however, the data have not previously been systematically compared and integrated. We present a comprehensive evaluation of tissue expression data from a variety of experimental techniques and show that these agree surprisingly well with each other and with results from literature curation and text mining. We further found that most datasets support the assumed but not demonstrated distinction between tissue-specific and ubiquitous expression. By developing comparable confidence scores for all types of evidence, we show that it is possible to improve both quality and coverage by combining the datasets. To facilitate use and visualization of our work, we have developed the TISSUES resource (http://tissues.jensenlab.org), which makes all the scored and integrated data available through a single user-friendly web interface.

KW - Journal Article

U2 - 10.7717/peerj.1054

DO - 10.7717/peerj.1054

M3 - Journal article

C2 - 26157623

SN - 2167-8359

VL - 3

SP - e1054

JO - PeerJ

JF - PeerJ

ER -