A5029528576- Advanced Proteomics Techniques and Applications
- Single-cell and spatial transcriptomics
- Immunotherapy and Immune Responses
- RNA modifications and cancer
- Cancer Immunotherapy and Biomarkers
- Cancer Genomics and Diagnostics
- Cell Image Analysis Techniques
- Gene expression and cancer classification
- AI in cancer detection
- Monoclonal and Polyclonal Antibodies Research
- Glycosylation and Glycoproteins Research
- Ubiquitin and proteasome pathways
- Molecular Biology Techniques and Applications
- Influenza Virus Research Studies
- Machine Learning in Bioinformatics
- Animal Genetics and Reproduction
- Sperm and Testicular Function
- Radiomics and Machine Learning in Medical Imaging
- Bioinformatics and Genomic Networks
- Glioma Diagnosis and Treatment
- Neuroendocrine Tumor Research Advances
- Pituitary Gland Disorders and Treatments
- Immune Cell Function and Interaction
- RNA and protein synthesis mechanisms
- Cancer-related molecular mechanisms research
Uppsala University
2016-2025
Science for Life Laboratory
2015-2024
KTH Royal Institute of Technology
2019-2024
Stanford University
2024
Uppsala University Hospital
2022
Bethany College - West Virginia
2018
Université Grenoble Alpes
2016
CEA Grenoble
2016
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2016
Inserm
2016
Resolving the molecular details of proteome variation in different tissues and organs human body will greatly increase our knowledge biology disease. Here, we present a map tissue based on an integrated omics approach that involves quantitative transcriptomics at organ level, combined with microarray–based immunohistochemistry, to achieve spatial localization proteins down single-cell level. Our tissue-based analysis detected more than 90% putative protein-coding genes. We used this explore...
Global classification of the human proteins with regards to spatial expression patterns across organs and tissues is important for studies biology disease. Here, we used a quantitative transcriptomics analysis (RNA-Seq) classify tissue-specific genes representative set all major combined this antibody-based profiling same tissues. To present data, launch new version Human Protein Atlas that integrates RNA protein data corresponding ∼80% protein-coding access primary both on an individual...
Modeling the cancer transcriptome Recent initiatives such as The Cancer Genome Atlas have mapped genome-wide effect of individual genes on tumor growth. By unraveling genomic alterations in tumors, molecular subtypes cancers been identified, which is improving patient diagnostics and treatment. Uhlen et al. developed a computer-based modeling approach to examine different types nearly 8000 patients. They provide an open-access resource for exploring how expression specific influences...
Mapping the proteome Proteins function in context of their environment, so an understanding cellular processes requires a knowledge protein localization. Thul et al. used immunofluorescence microscopy to map 12,003 human proteins at single-cell level into 30 compartments and substructures (see Perspective by Horwitz Johnson). They validated results mass spectroscopy them model refine protein-protein interaction networks. The is highly spatiotemporally regulated. Many localize multiple...
Single-cell RNA analysis has been integrated with spatial protein profiling to create a single–cell type map of human tissues.
The correct spatial distribution of proteins is vital for their function and often mis-localization or ectopic expression leads to diseases. For more than a decade, the Human Protein Atlas (HPA) has constituted valuable tool researchers studying protein localization in human tissues cells. centerpiece HPA its unique antibody collection mapping entire proteome by immunohistochemistry immunocytochemistry. By these approaches, 10 million images showing patterns at single-cell level were...
Mapping the mammalian brain The diverse physiology of is reflected in its complex organization at regional, cellular, and subcellular levels. Sjöstedt et al. combined data—both newly acquired from other large-scale mapping projects—from transcriptomics, single-cell genomics, situ hybridization, antibody-based protein profiling to map molecular profiles human, pig, mouse brain. analysis consistent with a conserved basic architecture during evolution, but it does show differences regional gene...
Human adult spermatogenesis balances spermatogonial stem cell (SSC) self-renewal and differentiation, alongside complex germ cell-niche interactions, to ensure long-term fertility faithful genome propagation. Here, we performed single-cell RNA sequencing of ~6500 testicular cells from young adults. We found five niche/somatic types (Leydig, myoid, Sertoli, endothelial, macrophage), observed germline-niche interactions key human-mouse differences. Spermatogenesis, including meiosis, was...
A blood cell protein-expression atlas Genome-wide analyses are increasingly providing resources for advances in basic and applied biomedical science. Uhlen et al. performed a global expression analysis of human types integrated this data with across all major tissues organs the protein atlas. This comprehensive compendium allows classification protein-coding genes regard to their tissue- cell-type distribution. Science , issue p. eaax9198
Abstract The endometrium, the mucosal lining of uterus, undergoes dynamic changes throughout menstrual cycle in response to ovarian hormones. We have generated dense single-cell and spatial reference maps human uterus three-dimensional endometrial organoid cultures. dissect signaling pathways that determine cell fate epithelial lineages lumenal glandular microenvironments. Our benchmark organoids reveals states regulating differentiation secretory ciliated both vivo vitro. In vitro...
A database provides information on the relative abundances and locations of human proteins that are predicted to be secreted.
The human testis undergoes dramatic developmental and structural changes during puberty, including proliferation maturation of somatic niche cells, the onset spermatogenesis. To characterize this understudied process, we profiled analyzed single-cell transcriptomes ∼10,000 testicular cells from four boys spanning puberty compared them to those infants adults. During undifferentiated spermatogonia sequentially expand differentiate prior initiation gametogenesis. Notably, identify a common...
The testis' function is to produce haploid germ cells necessary for reproduction. Here we have combined a genome-wide transcriptomics analysis with immunohistochemistry-based protein profiling characterize the molecular components of testis. Deep sequencing (RNA-Seq) normal human testicular tissue from seven individuals was performed and compared 26 other types. All 20 050 putative genes were classified into categories based on expression patterns. shows that testis most tissue-specific by...
A decade on from the completion of Human Genome, Protein Atlas, a multinational research project supported by non-profit Knut and Alice Wallenberg Foundation, recently launched (November 6, 2014) an open source tissue-based interactive map human proteome. team multidisciplinary researchers with expertise spanning biotechnology, information technology, medicine have used combination several 'omics technologies to proteins down single cell level, showing both restricted certain tissues—such as...
Abstract For a complete understanding of system's processes and each protein's role in health disease, it is essential to study protein expression with spatial resolution, as the exact location proteins at tissue, cellular, or subcellular levels tightly linked function. The Human Protein Atlas (HPA) project large‐scale initiative aiming mapping entire human proteome using antibody‐based proteomics integration various other omics technologies. publicly available knowledge resource...
The NUDIX enzymes are involved in cellular metabolism and homeostasis, as well mRNA processing. Although highly conserved throughout all organisms, their biological roles biochemical redundancies remain largely unclear. To address this, we globally resolve individual properties inter-relationships. We purify 18 of the human proteins screen 52 substrates, providing a substrate redundancy map. Using crystal structures, generate sequence alignment analyses revealing four major structural...
Cancer testis antigens (CTAs) are of clinical interest as biomarkers and present valuable targets for immunotherapy. To comprehensively characterize the CTA landscape non-small-cell lung cancer (NSCLC), we compared RNAseq data from 199 NSCLC tissues to normal transcriptome 142 samples 32 different organs. Of 232 CTAs currently annotated in Caner Testis Database (CTdatabase), 96 were confirmed NSCLC. obtain an unbiased profile NSCLC, applied stringent criteria on our set defined 90 genes...