A5001329336- RNA modifications and cancer
- RNA and protein synthesis mechanisms
- Cancer-related gene regulation
- RNA Research and Splicing
- Liver physiology and pathology
- Cancer-related molecular mechanisms research
- Genomics and Phylogenetic Studies
- Macrophage Migration Inhibitory Factor
- Genomics and Chromatin Dynamics
- HVDC Systems and Fault Protection
- CRISPR and Genetic Engineering
- Listeria monocytogenes in Food Safety
- Circular RNAs in diseases
- Neurogenesis and neuroplasticity mechanisms
- Peptidase Inhibition and Analysis
- Bacteriophages and microbial interactions
- Bacterial Genetics and Biotechnology
- Organ Transplantation Techniques and Outcomes
- Immune cells in cancer
- MicroRNA in disease regulation
- Superconductivity in MgB2 and Alloys
- Bacterial biofilms and quorum sensing
- Neuroscience and Neuropharmacology Research
- Molecular Biology Techniques and Applications
Weizmann Institute of Science
2011-2024
Tel Aviv University
2006-2024
Sheba Medical Center
2024
Compugen (Israel)
2005-2006
Agricultural Research Organization
2004
Circular RNA forms had been described in all domains of life. Such RNAs were shown to have diverse biological functions, including roles the life cycle viral and viroid genomes, maturation permuted tRNA genes. Despite their potentially important roles, discovery circular has so far mostly serendipitous. We developed circRNA-seq, a combined experimental/computational approach that enriches for allows profiling prevalence whole-genome, unbiased manner. Application this archaeon Sulfolobus...
The presence of 5-methylcytidine (m5C) in tRNA and rRNA molecules a wide variety organisms was first observed more than 40 years ago. However, detection this modification limited to specific, abundant, RNA species, due the usage low-throughput methods. To obtain high resolution, systematic, comprehensive transcriptome-wide overview m5C across three domains life, we used bisulfite treatment on total from both gram positive (B. subtilis) negative (E. coli) bacteria, an archaeon (S....
Listeria monocytogenes is a human, food-borne pathogen. Genomic comparisons between L. and innocua, closely related non-pathogenic species, were pivotal in the identification of protein-coding genes essential for virulence. However, no comprehensive comparison has focused on non-coding genome. We used strand-specific cDNA sequencing to produce genome-wide transcription start site maps both organisms, developed publicly available integrative browser visualize analyze transcriptomes different...
One of the hallmarks opportunistic pathogens is their ability to adjust and respond a wide range environmental host-associated conditions. The human pathogen Pseudomonas aeruginosa has an thrive in variety hosts cause acute chronic infections individuals with impaired host defenses or cystic fibrosis. Here we report in-depth transcriptional profiling this organism when grown at host-related temperatures. Using RNA-seq samples from P. 28°C 37°C detected genes preferentially expressed body...
Transcription of a gene usually ends at regulated termination point, preventing the RNA-polymerase from reading through next gene. However, sporadic reports suggest that chimeric transcripts, formed by transcription two consecutive genes into one RNA, can occur in human. The splicing and translation such RNAs lead to new, fused protein, having domains both original proteins. Here, we systematically identified over 200 cases intergenic human genome (involving 421 genes), experimentally...
The core promoter is the regulatory sequence to which RNA polymerase recruited and where it acts initiate transcription. Here, we present first comprehensive study of yeast promoters, providing massively parallel measurements activity TSS locations relative usage for thousands native designed sequences. We found be highly correlated entire that variation in different regions substantially tunes its a predictable way. also show location, orientation, flanking bases critically affect TATA...
Long-lasting immunity depends on the generation of protective antibodies through germinal center (GC) reaction. N6-methyladenosine (m6A) modification mRNAs by METTL3 activity modulates transcript lifetime primarily function m6A readers; however, physiological role this molecular machinery in GC remains unknown. Here, we show that modifications are required for maintenance differential functions readers. Mettl3-deficient B cells exhibited reduced cell-cycle progression and decreased...
Whole-transcriptome sequencing studies from recent years revealed an unexpected complexity in transcriptomes of bacteria and archaea, including abundant non-coding RNAs, cis-antisense transcription regulatory untranslated regions (UTRs). Understanding the functional relevance plethora RNAs a given organism is challenging, especially since some these were attributed to ‘transcriptional noise’. To allow search for conserved transcriptomic elements we produced comparative transcriptome maps...
Processed pseudogenes (PPGs) are cDNA sequences that were generated through reverse transcription of mature, spliced mRNAs and have subsequently been reinserted at a new genomic location. These usually no longer transcribed considered "dead on arrival." Here we show PPGs can be used to generate map the transcriptome. By analyzing thousands human PPGs, able discover hundreds transcript variants so far unidentified. An experimental verification subset these by RT-PCR indicates most them still...
Memory is thought to be subserved by structural and functional alteration in synaptic connectivity. But although neuronal plasticity requires gene expression, the identity of proteins involved largely unknown. Using chick 1-day-old passive avoidance learning paradigm differential display RNA fingerprinting, we identified 13 candidate genes which are upregulated intermediate medial hyperstriatum ventrale (IMHV), an area that has been correlated with initial processing memory formation. One...
Abstract N6-methyladenosine (m 6 A) is the most abundant modification on mRNA, and implicated in critical roles development, physiology disease. The ability to map m A using immunoprecipitation-based approaches has played a role dissecting functions mechanisms of action. Yet, these are limited specificity, unknown sensitivity, unable quantify m6A stoichiometry. These limitations have severely hampered our unravel factors determining where will be deposited, which levels (the ‘m6A code’),...
Abstract Long-lasting immunity from pathogens depends on the generation of protective antibodies through germinal center (GC) reaction. The Myc gene produces highly short-lived transcripts which are essential for high-affinity antibodies. mRNA lifetime is regulated by N6-methyladenosine (m 6 A)-modification mRNAs METTL3 activity; however, role this machinery in GC remains unclear. Here, we find that m A-modification required maintenance stabilization atypical A-interactor, IGF2BP3. MYC...
<title>Abstract</title> Introduction: Liver regeneration following resection is a complex process relying on coordinated pathways and cell types in the remnant organ. Myeloid-Derived Suppressor Cells (MDSCs) have role liver regeneration-related angiogenesis but their influence hepatocyte proliferation immune modulation during unclear. Methods We examined transcriptional response of regenerating hepatocytes after major mice with CD11b<sup>+</sup>Ly6G<sup>+</sup> MDSCs (G-MDSCs) depletion...