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Manual evaluation of tissue microarrays in a high‐throughput research project: The contribution of Indian surgical pathology to the Human Protein Atlas (HPA) project
Author(s) -
Navani Sanjay
Publication year - 2016
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.201500409
Subject(s) - human protein atlas , tissue microarray , annotation , proteomics , proteome , computational biology , dna microarray , population , human proteome project , pathology , bioinformatics , biology , protein expression , computer science , immunohistochemistry , medicine , gene expression , biochemistry , gene , environmental health
The Human Protein Atlas (HPA) program ( www.proteinatlas.org ) is an international program that has been set up to allow for a systematic exploration of the human proteome using antibody‐based proteomics. This is accomplished by combining high‐throughput generation of affinity‐purified (mono‐specific) antibodies with protein profiling in a multitude of tissues/cell types assembled in tissue microarrays. Twenty‐six surgical pathologists over a seven‐and‐half year period have annotated and curated approximately sixteen million tissue images derived from immunostaining of normal and cancer tissues by approximately 23 000 antibodies. Web‐based annotation software that allows for a basic and rapid evaluation of immunoreactivity in tissues has been utilized. Intensity, fraction of immunoreactive cells and subcellular localization were recorded for each given cell population. A text comment summarizing the characteristics for each antibody was added. The methods used and the challenges encountered for this exercise, the largest effort ever by a single group of surgical pathologists, are discussed. Manual annotation of digital images is an important tool that may be successfully utilized in high‐throughput research projects. This is the first time an Indian private pathology laboratory has been associated with cutting‐edge research internationally providing a classic example of developed and emerging nation collaboration.