Confidence and Uncertainty - A multilabel AI-based model for evaluating protein expression in testis
In a study led by researchers in the HPA and at Brunel University London, a novel method for automated annotation of immunohistochemistry images was developed for annotating cell type-specific protein expression of 8 different cell types in human testis. The work comprised 7848 images (corresponding to 2794 proteins) and the image classifier also provided a novel uncertainty metrics (called DeepHistoClass), for identification of manual annotation errors. The workflow can be implemented for other tissues or utilized in large-scale protein mapping efforts for sourcing high-quality data...Read more
Previously we have highlighted proteins expressed in the human neural retina. This week's article emphasizes the cellular structure and molecular dynamics of the lens.
The main function of the lens is to focus light on the retina. The passage of light through the cornea, lens and vitreous all the way to the retinal layer of the eye is only possible due to transparency of the tissue. Although the lens is very protein-rich, light absorption and light scattering in the lens is minimal.
The lens comprises non-diving lens cells which are mainly composed of ordered proteins called crystallins...Read more
Melanoma is a common form of cancer in the skin and among skin cancers it is the most deadly form. Melanoma originates from cells of melanocytic origin and most typically begins as a small intraepidermal tumor (melanoma in situ). As the tumor continues to grow and progress, tumor cells invade the epidermis and eventually spread to regional lymph nodes and subsequently via hematogenic spread to distant organs. Tumor thickness of the primary tumor is the most important determining prognostic factor and thus is early discovery of key importance for survival.
The cancer image of the month shows skin with growth of a cutaneous melanoma...Read more
The Cell Atlas database was just recently released with data on more than 12.000 proteins and mapping to 30 organelles. Today, the scientific findings are published in Science in "A subcellular map of the humanproteome".
The cell is a complex entity that carries out multiple functions. In order to do this, the different parts of the cells are organized in structures, called organelles. By investigating the organelles and its proteome, and to understand how the proteins vary over time and space we can truly begin to understand human biology on a detailed level...Read more
Today, we are back in the Tissue Atlas facilities at the Rudbeck lab in Uppsala. Borbala Katona and Maria Aronsson are research engineers in the group working with microscopy and annotation of stained tissues, which we described last week.
Borbala Katona has a bachelors degree in biomedicine and a masters degree in infectious medicine and has been working within the Human Protein Atlas since 2014.
Maria Aronsson has a masters degree in medical biology from Linköping University and joined the Human Protein Atlas in 2012...Read more
The version 23 of the Human Protein Atlas is based on an updated genome assembly and features a new Interaction sectionJune 19, 2023