Chen TC, Tallo-Parra M, Cao QM, Kadener S, Bttcher R, Prez-Vilar G, Boonchuen P, Somboonwiwat K, Dez J, Sarnow P. A lncRNA survey finds increases in neuroprotective LINC-PINT in Parkinson's disease substantia nigra. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. NanoTags, VHH05- and 127D01-tagsthat are 14 and 10 amino acids in length, and their corresponding nanobodies (NbVHH05 and Nb127D01) are excellent reagents for both, We have developed a series of bioinformatics tools that provide the research community with well-designed, user-friendly resources that impact research at all stages, from project design to data analysis and integration. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. CRISPR-generated mutant cell lines, in combination with RNAi, provide a robust platform for combinatorial screening. Metazoan MicroRNAs (2018) David P. Bartel CELL Non-canonical functions of microRNA pathway enzymes - Drosha, DGCR8, Dicer and Ago proteins Ph.D. University of So Paulo (USP)- Brazil. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. How do circRNAs work at the molecular level? Title. These lines can be combined with tissue-specific delivery of Cas9 to generate clones of cells (mosaics) or combined with germline expression of Cas9 to generate null mutations. We are now adapting the pooled-format CRISPR screening approach for use in cell lines from medically relevant mosquito species. For example, we showed that circRNA biogenesis competes with canonical splicing, showing that circRNAs can function incisas RNA traps. Brown S.A., Ripperger J., Kadener S., Fleury-Olela F., Vilbois F., Rosbash M. and Schibler U. 178: These lines can be used to validate results from genome-wide RNAi screens as well as to conduct low- or high-throughput genetic screens and other studies in vivo. * Corresponding authors. These tools, which are available via. in Physics. Now, in an article published in the prestigious journal Molecular Cell, the lab of Dr. Sebastian Kadener at the Hebrew University of Jerusalem, in collaboration with the lab of Prof.. Fun fact: Michelle is a huge Stephen King fan. High-accuracy determination of internal circadian time from a single blood sample. One of these translated circRNAs is circMbl. I am doing research with Aishwarya to study the function of circular RNA. The work is a collaboration between Dr. Kadener's lab and Prof. Nikolaus Rajewsky from the Max Dellbruck Institute, Berlin, Germany. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Selected for Faculty of 1000 (Factor 9 Exceptional). Protocol. A defining property of circadian clocks is temperature compensation, characterized by the resilience of circadian free-running periods against changes in environmental temperature. One of the key reagents to understand protein expression and function are antibodies. Fun fact: Like many Swedish people, Eric has completed Vasaloppet, a 60-mile cross-country skiing race (twice!). Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? As an underlying mechanism, the balance or critical reaction hypothesis have been proposed. Pvf1 produced by yki-gut tumors activates MEK/ERK signaling and enhances catabolism in multiple tissues. . M.Sc., The University of Buenos Aires, Buenos Aires, Argentina Ph.D., The University of Buenos Aires, Buenos Aires, Argentina. Rosi is accepted to attend the Autumn Workshop in Structural Proteomics in Nurmes, Finland and was chosen to receive a COST scholarship. I am interested in studying circular RNAs and neurological disorders. Belacortu Y., Weiss R., Kadener S. and Paricio N. Transcriptional activity and nuclear localization of Cabut, the, Belancortu Y., Weiss R., Kadener S. and Paricio N. Expression of, Van der Linden A.M., Beverly M., Kadener S., Rodriguez J., Wasserman S., Rosbash M. and Sengupta P. Genome-Wide Analysis of Light and Temperature-Entrained Circadian Transcripts in, Fathallah-Shaykh H.M., Bona J.L. We showed that their translation is mediated by IRES-like sequences, is enhanced in response to starvation and happens in association with membranes and in synapses. and Kornblihtt A.R. Eric received his medical degree in 2016 and defended his PhD thesis in 2018. What is their mechanisms of action? Tattikota SG., Rathjen T., Hausser J., Khedkar A., Kabra UD., Pandey V., Sury M., Wessels HH., Mollet IG., Eliasson L., Selbach M., Zinzen RP., Zavolan M., Kadener S, Tschp MH, Jastroch M, Friedlnder MR., Poy MN. I am studying translational activators of the circadian clock in Drosophila. Selected for Faculty of 1000 (Factor 3.0 Recommended). Its very important for us! Gene Expression Omnibus (GEO) is a database repository of high throughput gene expression data and hybridization arrays, chips, microarrays. Third, more recently we used single-cell RNAseq (scRNAseq) to describe all the cell types and their transcriptomes in the Drosophila gut. Finally, as an alternative to RNAi for partial loss-of-function screens using a Cas system, we have shown that Cas13 is an effective tool for CRISPRi in Drosophila cells. Boston, MA. Jess earned her PhD in Neuroscience working in the laboratory of Dr. Thomas Clandinin, utilizing the Drosophila visual system and forward genetics to study synapse development and axon degeneration. Pathways that are misregulated in animals that develop organ wasting in the context of these various tumor models are identified using a combination of transcriptomics, e.g. * Corresponding authors. Fun fact: Anna is a gardening nerd on hold, as she does not have a garden in Boston. For doing this, we study the circadian clock from a systemic point of view, including studies at the molecular and neural levels. Rabin A, Zaffagni M, Ashwal-Fluss R, Patop IL, Jajoo A, Shenzis S, Carmel L, Kadener S. Extensive tissue-specific expression variation and novel regulators underlying circadian behavior. We showed that miRNAs have a key role in providing robustness to the circadian system both during development and in adults. Statuses. Simchovitz A, Hanan M, Yayon N, Lee S, Bennett ER, Greenberg DS, Kadener S, Soreq H. A Parkinson's disease CircRNAs Resource reveals a link between circSLC8A1 and oxidative stress. Site developed by Health Communication Core, April received her BS in Cellular and Molecular Biology from Beloit College in 2017, where she worked in the lab of Dr. Amy Briggs studying the role of. For doing this, we study the circadian clock from a systemic point of view, including studies at the molecular and neural levels. 2012- Lab manager at Ami Citri laboratory at the Hebrew University of Jerusalem 2010- 2012 Postdoc at the Hebrew University of Jerusalem at Sebastian Kadener Lab; research topic-studying neodegenerative diseases using fruit flies as a model 2000-2003 Research assistant at QBI company; I was part of research Because results from tissue culture screens need to be followed up with in vivo validation, and given the independent value of tools for in vivo genetic studies, we have improved methods for transgenic RNAi in Drosophila. Lerner I. Articles Cited by Public access Co-authors. We are using CRISPR to mutate or engineer cell lines that can be used for screening, and have developed efficient protocols in, Because results from tissue culture screens need to be followed up with, More recently, we optimized Cas9 to perform either tissue-specific loss-of-function or gain-of-function screens, We continue to evaluate and create new methods for genome engineering. Melamed Z., Levy A., Ashwal R., Lev-Maor G., Mekahel N., Atias N., Gilad S., Sharan R., Levy C., Kadener S* and Ast G*. Nucleic Acids Research47(11): e95; 1-16 (2017). *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . Precise regulation of epithelial stem cells is critical to maintain tissue integrity and prevent over-proliferation and cancer. The challenge is now to understand how these pathways intersect and cooperate, as it is not clear if some pathways regulate the activity of others, or if they act concomitantly. Molecular Interaction Search Tool) for mining, visualization and analysis of network data, for mining protein post-translational modification (PTM) data and comparison of PTM data across species and. Biol., The University of Buenos Aires, Buenos Aires, Argentina, Ph.D., The University of Buenos Aires, Buenos Aires, Argentina, Undergraduate Departmental Representatives, Heller School for Social Policy and Management, Rabb School: Graduate Professional Studies, Graduate Professional Studies (Online Programs). Fun fact: In his native language of Urdu, Shers full name translates to lion/tiger brave. Olivia received her B.A. Simchovitz A, Hanan M, Yayon N, Lee S, Bennett ER, Greenberg DS, Kadener S, Soreq H. A Parkinson's disease CircRNAs Resource reveals a link between circSLC8A1 and oxidative stress. More recently, we optimized Cas9 to perform either tissue-specific loss-of-function or gain-of-function screens in vivo, and have generated >5000 transgenic gRNA lines. In October 2021, Anna defended her PhD thesis (and Mimi had the honor of being her faculty opponent!!). Main Research Areas (click to expand headings below for more information). In response to tissue damage reagents such as paraquat and bleomycin, TrpA1 mediates calcium influx, which in turn activates Ras/MAPK pathway and induces stem cell proliferation. ( a) Simplified overview of three stages of the gypsy retrotransposon life cycle, (i) parent insertion in the genome, (ii) the transcribed RNA (genomic RNA), and (iii) the new copy inserted in the genome. In the Bandopadhayay Lab, Michelle is interested in using computational efforts to better characterize pediatric brain tumors. Sebastian Kadener. Rosi is attending the structural MS workshop in Finland. ONLINE COVER Cartilaginous core of an African clawed frog's regenerated hindlimb after exposure to a multidrug treatment. Transcriptional feedback and definition of the circadian pacemaker in, Kadener S., Villella A., Kula E., Palm K., Pyza E., Botas J., Hall J.C. and Rosbash M. Neurotoxic protein expression reveals connections between the circadian clock and mating behavior in. Eric joined the Bandopadhayay Lab in 2020 where he is working to characterize driver mutations found in pediatric brain tumors and developing new approaches to treat these children with targeted therapies. ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. Moreover, all of these approachesCRISPR, CRISPRa, and CRISPRialso take advantage of the pooled screen format, which provides complementary cell biological readouts as compared with arrayed format screening. Derr A, Yang C, Zilionis R, Sergushichev A, Blodgett DM, Redick S, Bortell R, Luban J, Harlan DM, Kadener S, Greiner DL, Klein A, Artyomov MN, Garber M. End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data. From 2002 to 2008, Sebastian Kadener was a postdoc working in the Michael Rosbash laboratory. In a collaboration with Sebastian Kadeners lab at Brandeis, we generated a new set of PspCas13b and RfxCas13d expression constructs that can be used to target RNA in cells and in vivo. Further, our work and that of others has suggested functions of these moleculesin vivo. Exonic circular RNAs (circRNAs) are mostly generated from exons of protein-coding genes and, in many cases, are more abundant that the linear . Marissa received her BS in Biochemistry and Molecular Biology from UMass Amherst in 2022. Are circRNAs involved in neurodevelopmental and neurodegenerative diseases? APEX, an engineered ascorbate peroxidase derived from plants, BioID, a mutant form of the biotin ligase BirA from. Moreover, we also showed that the neural and molecular circadian systems compensate and interact with each other. Chikne V.*, Doniger T.*, Bartok O. Weiss R., Bartok O., Mezan S., Malka Y and Kadener S. Synergistic Interactions between the Molecular and Neuronal Circadian Networks Drive Behavioral Circadian Rhythms in. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. For Faculty of 1000 ( Factor 3.0 Recommended ), Argentina circadian system both development. Part of the biotin ligase BirA from Rosbash laboratory molecular Biology from UMass Amherst in 2022 throughput! Temperature compensation, characterized by the resilience of circadian free-running periods against in. Received his medical degree in 2016 and defended his PhD thesis ( and Mimi had the honor of her... 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