The Human Biomolecular Atlas Program (HuBMAP) is a program funded by the US National Institutes of Health to characterize the human body at single cell resolution, integrated to other efforts such as the Human Cell Atlas. [1] Among the products of the program is the Azimuth reference datasets for single-cell RNA seq data [2] [3] and the ASCT+B Reporter, a visualization tool for anatomical structures, cell types and biomarkers. [4] [5]
Millitomes are used to create uniformly sized tissue blocks that match the shape and size of organs from HuBMAP's 3D Reference Object Library. [6]
The HuBMAP received 27 million US dollars of funding from the NIH in 2020 and about 28.5 million in 2021. [7]
EcoHealth Alliance is an US-based non-governmental organization with a stated mission of protecting people, animals, and the environment from emerging infectious diseases. The nonprofit focuses on research aimed at preventing pandemics and promoting conservation in hotspot regions worldwide.
Brain mapping is a set of neuroscience techniques predicated on the mapping of (biological) quantities or properties onto spatial representations of the brain resulting in maps.
The Human Genome Project (HGP) was an international scientific research project with the goal of determining the base pairs that make up human DNA, and of identifying, mapping and sequencing all of the genes of the human genome from both a physical and a functional standpoint. It started in 1990 and was completed in 2003. It remains the world's largest collaborative biological project. Planning for the project started after it was adopted in 1984 by the US government, and it officially launched in 1990. It was declared complete on April 14, 2003, and included about 92% of the genome. Level "complete genome" was achieved in May 2021, with only 0.3% of the bases covered by potential issues. The final gapless assembly was finished in January 2022.
The Cancer Genome Atlas (TCGA) is a project to catalogue the genomic alterations responsible for cancer using genome sequencing and bioinformatics. The overarching goal was to apply high-throughput genome analysis techniques to improve the ability to diagnose, treat, and prevent cancer through a better understanding of the genetic basis of the disease.
Single-stranded DNA-binding protein 2 is a protein that in humans is encoded by the SSBP2 gene.
A connectome is a comprehensive map of neural connections in the brain, and may be thought of as its "wiring diagram". An organism's nervous system is made up of neurons which communicate through synapses. A connectome is constructed by tracing the neuron in a nervous system and mapping where neurons are connected through synapses.
The Human Microbiome Project (HMP) was a United States National Institutes of Health (NIH) research initiative to improve understanding of the microbiota involved in human health and disease. Launched in 2007, the first phase (HMP1) focused on identifying and characterizing human microbiota. The second phase, known as the Integrative Human Microbiome Project (iHMP) launched in 2014 with the aim of generating resources to characterize the microbiome and elucidating the roles of microbes in health and disease states. The program received $170 million in funding by the NIH Common Fund from 2007 to 2016.
Nader Pourmand is a Professor of Biomolecular Engineering leading the Biosensors and Bioelectrical Technology Group at the Baskin School of Engineering at the University of California Santa Cruz, Baskin School of Engineering.
Mark Atkinson is an American medical researcher best known for his contributions to research seeking to predict, prevent, and cure type 1 diabetes. He is the author of over 600 publications and is one of the world's most cited diabetes researchers.
The Human Protein Atlas (HPA) is a Swedish-based program started in 2003 with the aim to map all the human proteins in cells, tissues and organs using integration of various omics technologies, including antibody-based imaging, mass spectrometry-based proteomics, transcriptomics and systems biology. All the data in the knowledge resource is open access to allow scientists both in academia and industry to freely access the data for exploration of the human proteome. In June 2023, version 23 was launched where a new Interaction section was introduced containing human protein-protein interaction networks for more than 11,000 genes that will add new aspects in terms of protein function.
Extracellular RNA (exRNA) describes RNA species present outside of the cells in which they were transcribed. Carried within extracellular vesicles, lipoproteins, and protein complexes, exRNAs are protected from ubiquitous RNA-degrading enzymes. exRNAs may be found in the environment or, in multicellular organisms, within the tissues or biological fluids such as venous blood, saliva, breast milk, urine, semen, menstrual blood, and vaginal fluid. Although their biological function is not fully understood, exRNAs have been proposed to play a role in a variety of biological processes including syntrophy, intercellular communication, and cell regulation. The United States National Institutes of Health (NIH) published in 2012 a set of Requests for Applications (RFAs) for investigating extracellular RNA biology. Funded by the NIH Common Fund, the resulting program was collectively known as the Extracellular RNA Communication Consortium (ERCC). The ERCC was renewed for a second phase in 2019.
Dana Pe'er, Chair and Professor in Computational and Systems Biology Program at Sloan Kettering Institute is a researcher in computational systems biology. A Howard Hughes Medical Institute (HHMI) Investigator since 2021, she was previously a professor at Columbia Department of Biological Sciences. Pe'er's research focuses on understanding the organization, function and evolution of molecular networks, particularly how genetic variations alter the regulatory network and how these genetic variations can cause cancer.
Transmembrane protein 151B is a protein that in humans is encoded by the TMEM151B gene.
The Ray and Stephanie Lane Computational Biology Department (CBD) is one of the seven departments within the School of Computer Science at Carnegie Mellon University in Pittsburgh, Pennsylvania, United States. Now situated in the Gates-Hillman Center, CBD was established in 2007 as the Lane Center for Computational Biology by founding department head Robert F. Murphy. The establishment was supported by funding from Raymond J. Lane and Stephanie Lane, CBD officially became a department within the School of Computer Science in 2009. In November 2023, Carnegie Mellon named the department as the Ray and Stephanie Lane Computational Biology Department, in recognition of the Lanes' significant investment in computational biology at CMU.
James M. Anderson is an American Professor of Medicine and Cell Biology and is a Chief of Section of Digestive Diseases at the Yale School of Medicine. Anderson is also a director of the Division of Program Coordination, Planning, and Strategic Initiatives at the National Institutes of Health.
Jin Zhang is a Chinese-American biochemist. She is a professor of pharmacology, chemistry and biochemistry, and biomedical engineering at the University of California, San Diego.
The Human Cell Atlas is a project to describe all cell types in the human body. The initiative was announced by a consortium after its inaugural meeting in London in October 2016, which established the first phase of the project. Aviv Regev and Sarah Teichmann defined the goals of the project at that meeting, which was convened by the Broad Institute, the Wellcome Trust Sanger Institute and Wellcome Trust. Regev and Teichmann lead the project.
Sandro Santagata is an associate professor at Harvard Medical School and a physician-scientist at Brigham and Women’s Hospital where he practices neuropathology. His research focuses on precision medicine in cancer biology.
A millitome is a device designed to hold a freshly procured organ and facilitate cutting it into many small tissue blocks for usage in single-cell analysis. A millitome has discrete, equally placed cutting grooves in both the x and y directions to guide a carbon steel cutting knife to produce uniformly sized slices or cubes of tissue material. Millitome design and usage was developed by the HIVE MC-IU Team, Indiana University and members of the Cyberinfrastructure for Network Science Center (CNS) for the Human Reference Atlas project, which is part of the U.S. National Institutes of Health Common Fund’s Human Biomolecular Atlas Program (HuBMAP).