As part of Glaucoma Awareness Month, we would like to present this image that really caught our eye! This week's image is negative ion mode lipid MALDI imaging mass spectrometry of human optic nerve tissue collected at 10µm spatial resolution using a MALDI TOF MS, by Dave Anderson with Jeff Spraggins and Kevin Schey at TMC-Vanderbilt Eye/Pancreas.
Are you looking for fame and notoriety? Send your best images to dena.procaccini@nih.gov.
NIH Common Fund Cellular Senescence Network (SenNet) Funding Opportunities
The Common Fund has issued three funding opportunities for Tissue Mapping Center, Technology Development and Application, and Consortium Organization and Data Coordinating Center.
This is a reminder to mark you calendars for May 19-21, 2021for the HuBMAP Annual Meeting. The meeting will be held virtually. Additional details to come.
Evaluation of Image Analysis Methods for Cell Segmentation
The HIVE Computational Tools component is conducting an evaluation of image analysis
methods for cell segmentation for use in HuBMAP pipelines. We would like to include all
current methods in the evaluation, so if you are using or know of relevant software we would
encourage you to let us know about it. In order to be included, the software should:
be available as open source software that runs under linux and does not require any commercial licenses
include a pre-trained model(s) that is applicable to 2D or 3D microscope images
produce a cell boundary segmentation from input images of one or more of the
following markers
Nucleus
Cytoplasm
Cell membrane
not require any additional input beyond acquisition metadata, such as pixel size, for the input images (i.e., should not require any tuning parameters)
If you have any suggestions, please send the URL for the software to murphy@cmu.edu. All
results will be made publicly available.
HuBMAP/LungMAP Computational Biology Postdoc Position (Job Posting)
The focus of the position will be on integrative analyses of locally generated multi-omic studies of the role of parenchymal cells in immunobiology of the developing lung, from birth through adulthood, including response in COVID-19.
Applications are now being accepted with a start date as early as February 1, 2021. Email cover letter and CV/resume to Gloria Pryhuber: gloria_pryhuber@urmc.rochester.edu
Pacific Northwest National Laboratory Postdoc Position (Job Posting)
The Environmental Molecular Sciences Division at Pacific Northwest National Laboratory (PNNL) seeks for an outstanding candidate for a postdoctoral position working on projects associated with biological applications of high throughput and quantitative proteome mapping of tissue heterogeneity of the pancreas at near single-cell resolution.
Underrepresented/Minority Internship Program (HuBMAP)
The HuBMAP Minority Internship Program is now accepting applications through February 15th.
Please help us get the word out by distributing this opportunity to any students or colleagues that my have interested students. This virtual internship program provides a fantastic opportunity to build connections, add to your experience and conduct vital research in the single cell community.
The Zhong lab at USCD is actively recruiting postdoc scholars to innovate in RNA biology and technologies, including spatial, single-cell, and extracellular transcriptomics.
Check out the newly released video, produced by HuBMAP associate member Mark Musen, that provides an introduction to ontologies - what they are, how they're used and why they're important in BioMed applications (for HuBMAP in particular). Link to the video here.
RFAs/Labs/Competitions
RFA-MH-21-140 BRAIN Initiative Cell Census Network (BICCN) Scalable Technologies and Tools for Brain Cell Census (RFA)
Developers in need of HIVE infrastructure may request access through the PSC web form, found here.
Instructions for using HIVE infrastructure can now be found in the "Quick Links" section of the Collaboration Portal. A direct link to this documentation can be foundhere. Please report any issues or direct any questions tohelp@hubmapconsortium.org.
Content Suggestions
The IEC is seeking to collect information of general interest from individual members and groups to share with the rest of the Consortium. Please submit content suggestions by emailing: admin@hubmapconsortium.org.
Past Newsletters are available on the Collaboration Portal.
For comments, suggestions about how to improve the HuBMAP Happenings, or questions about the consortium, please contact: help@hubmapconsortium.org
