THE HUMAN PROTEIN ATLAS BLOG

New Cell Atlas coming up

2016-11-08
Cell Atlas Project Discovery Proteomics

Emma Lundberg, Director of the Cell Atlas

In less than one month from now, we will release a new version of our database, HPA16! The biggest news is the introduction of a brand new Cell Atlas. It will be an image-based atlas over the subcellular distribution of the human proteome.

– Cells are the machinery of life. Much of the bustling activity in the human cell results from proteins performing specific tasks in designated compartments, the organelles. The Cell Atlas that we are creating will be image-based and describe the subcellular distribution of the human proteome, says Emma Lundberg, Director of the Cell Atlas...Read more


Image of the week - FDXR by solartech0

2016-06-10
Citizen Science Image of the week Mitochondria Project Discovery Subcell Atlas

Figure 1. Staining of FDXR (green) with DNA (blue) and microtubules (red) in A549 cells.

Welcome to HPA image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by solartech0 who found this image while playing Project Discovery in EVE online.

The protein stained in Fig 1. is an image of ferredoxin reductase (FDXR) found in the mitochondria of the cell. This sample shows a staining of FDXR in A549 adenocarcinomic alveolar basal epithelial cells.

FDXR is a protein involved in cellular metabolism. This process is what provides energy for our cells and is carried out in the mitochondria of the cell...Read more


Image of the week - Moesin & siRNA from x Truf

2016-06-03
Citizen Science Image of the week Plasma membrane Project Discovery Subcell Atlas

Figure 1. Staining of MSN (green) with DNA (blue) and microtubules (red) in U-251 MG cells. S

It's time for another HPA image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by x Truf a member of the Signal Cartel in EVE online who found this image while playing Project Discovery.

The protein stained in Fig 1. is an image of Moesin (MSN) found in the plasma membrane of the cell. This sample shows a staining of MSN in U-251 MG human glioblastoma astrocytoma (brain) cells.

MSN is a member of the ERM family which provide a link between plasma membranes and actin filaments. This link was briefly discussed in a previous blog...Read more


Image of the week - Focal Adhesions by Shiverwarp

2016-05-20
Citizen Science Focal Adhesions Image of the week Project Discovery Subcell Atlas

Staining of CORO2B (green) with tubules (red) and DNA (blue) in U-251 MG cells.

Welcome to another HPA image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by Shiverwarp who found this image while playing Project Discovery in EVE online.

The protein stained in Fig 1. is an image of Coronin, actin binding protein, 2B (CORO2B) found in the focal adhesions and at the plasma membrane of the cell. This sample shows U-251 MG human glioblastoma astrocytoma (brain) cells.

Focal adhesions are transmembrane groups of protein that allow the cell to "grab" the surrounding environment...Read more


Image of the week - Nuclear speckles, Selphentine

2016-05-13
Citizen Science Image of the week Nuclear speckles Project Discovery Subcell Atlas

Fig 1. Staining of DDX39B (green) with tubules (red) and DNA (blue) in MCF-7 cells.

Welcome to another HPA image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by Selphentine who pointed out several nice examples of proteins localized to "nuclear speckles". In Project Discovery, citizen scientists are refining our annotations for proteins within the nucleus by labeling these nuclear speckles, previously not annotated in the atlas.

The protein stained in Fig 1. is an image of DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B (DDX39B) seen in the nuclear speckles. This sample shows MCF-7 cells, a human adenocarcinoma cell line from breast cancer...Read more


Image of the week - Membrane by Aleksandra Shaishi

2016-04-22
Citizen Science Image of the week Project Discovery Subcell Atlas

Fig 1. Staining of SLCA (3 & 14) (green) with tubules (red) and DNA (blue) in CACO-2 cells. This image was taken directly as posted by Aleksandra Shaishi and thus color-channel toggles can be seen at the bottom of the image.

It's the end of the week, and that means another HPA image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by Aleksandra Shaishi who found this image playing Project Discovery.

The protein labeled in Fig 1. is an image of the antibody HPA006539, which labels solute carrier family 2 (facilitated glucose transporter) (SLC2A) member 3 and member 14. This is what we call a "multi-targeting" antibody as it binds more than one protein...Read more


Image of the week - Nucleoli rim found by Yadaryon

2016-04-08
Citizen Science Image of the week Nucleoli Project Discovery Subcell Atlas

Fig 1. Staining of nucleoli rim by NPM1 (green) with tubules (red) in A-431 cells.

It's time for another Image of the week! This week's image was brought to us by citizen scientists in Project Discovery, and specifically by Yadaryon who pointed out several nice examples of proteins localized to the rim of the nucleoli.

The nucleolus is an organelle within the nucleus of your cells. There may be one or more nucleoli in each nucleus, but they usually occur in small numbers. The primary job of the nucleoli is to assemble ribosomes which in turn make proteins within your cells...Read more


Image of the week - Polarized HEP G2 membrane

2016-04-02
Citizen Science Image of the week Project Discovery Subcell Atlas

Staining of plasma membrane (green) with tubules (red) and DNA (blue) in HEP G2 cells.

Welcome to the second edition of image of the week. This week's image was brought to us by citizen scientists in Project Discovery. After analyzing the recent data from the project, this image was among the most frequently labeled as "abnormal" by the users.

This is an image of EPB41L1 (erythrocyte membrane protein band 4.1-like 1). This staining is observed in HEP G2 human liver hepatocellular carcinoma cells. As you can clearly see here, there is significant cell-to-cell variation (CCD) in the staining, and even within a single cell at times.

As the name suggests, this is a well known membrane protein...Read more


Image of the week - Centrosomes from CalebAyrania

2016-03-25
Citizen Science Project Discovery Subcell Atlas

Staining of mitotic centrosomes (green) with tubules (red) and DNA (blue) in CACO-2 cells.

Introducing the HPA image of the week! Each week we will pick an image we find particularly interesting and briefly discuss it. This series will particularly focus on images brought to us by citizen scientists working on Project Discovery, though may include images from other projects in the atlas as well.

This week's image is brought to us by citizen scientist CalebAyrania who found this staining playing Project Discovery and correctly identified the antibody as labeling centrosomes in mitotic cells (cells undergoing division). This staining was observed in CACO-2 colorectal epithelial adenocarcinoma cells...Read more


Project Discovery - Day 1 results

2016-03-16
CCP Citizen Science EVE Online Human Protein Atlas MMOS Project Discovery Proteome

Fig. 1. Confusion matrix of gamer predictions versus HPA predictions. Here columns represent votes of gamers. Confusions occurring with a frequency below 1% are set to black for clarity.

Thanks Science Fans!

The response to Project Discovery has been amazing and overwhelming. You have taken to the game in a way none of us expected. Keep it up!

First, in an effort to stream line our interactions with you we have created a number of official social media outlets:

EVE forums: We have a number of official accounts we will respond to questions with.Twitter: HPA_Discovery - dedicated to posting updates, announcements and all things Project Discovery. Twitter is severely character limited so it's difficult to answer questions there.Reddits: /r/EVE and /r/projectdiscovery - We will be here for support as well...Read more