The latest Tweets from Kadener Lab (@kadenerlab): "https://t.co/VOExAyFxj9" Aaron is an Attending Pediatric Neuro-Oncologist at the Dana-Farber/Boston Childrens Cancer and Blood Disorders Center. Pamudurti N., Bartok O., Jens O., Ashwal-Fluss R., Stottmeister C., Ruhe L., Hanan M., Wyler E., Perez-Hernandez D., Ramberger E., Shenzis S., Samson M., Dittmar G., Landthaler M., Chekulaeva M., Rajewsky N. and Kadener S. Translation of circRNAs. My diverse. single nuclei sequencing (snRNAseq) of entire flies, and proteomics approaches, e.g. Determine the nature of circadian rhythms within organisms. and Torres H.N. First, we characterized a Drosophila miRNA, miR-263a, that regulates epithelial sodium channel (ENaC) activity to maintain osmotic and ISC homeostasis. Proximity labeling-based methods coupled with mass spectrometry (MS) offer a high-throughput approach for systematic analysis of spatially-restricted proteomes. Adam then moved to Boston for his postdoc in the lab of Dr. Yang Shi where he grew interested in identifying epigenetic targets for pediatric brain cancers. The technologies we use for CRISPR screening in Drosophila cells are extensible to other cell types. Fsica, Tcnico Sup. She then obtained her the PhD from Cancer Biology PhD program at the University of Michigan in 2022. J. Biol. Anna moved to Boston in 2022 to continue her career as a scientist focused on pediatric neuro-oncology and hopes to make a difference for the young patients affected by this diverse group of devastating diseases. Simchovitz A, Hanan M, Niederhoffer N, Madrer N, Yayon N, Bennett ER, Greenberg DS, Kadener S, Soreq H. Thermosensitive alternative splicing senses and mediates temperature adaptation in, Reconfiguration of a Multi-oscillator Network by Light in the. 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. Cramer P., Cceres J.F., Cazalla D., Kadener S., Muro, A., Baralle F. and Kornblihtt A. I am studying translational activators of the circadian clock in Drosophila. Ph.D. University of So Paulo (USP)- Brazil. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. and Torres H.N. This dual reporter can be used in either fixed or live tissues to monitor spatio-temporal activity of signaling pathways at an unprecedented resolution. For his honors thesis, Sher characterized the role of the MAPK/ERK signaling modulator SPRY2 in regulating the transcriptome of the HL-60 Acute Myeloid Leukemia cell line. Hanan M., Soreq H. and Kadener S. CircRNAs in the brain. Informative set of videos on insect physiology and endocrinology: New paper: Articles Cited by Public access Co-authors. Verified email at brandeis.edu - Homepage. Community support Reprint. In the Bandopadhayay Lab, Jess is applying genomic approaches to optimize novel treatment approaches for pediatric brain tumors, and is also working to characterize the role long non-coding RNAs play in the formation of Diffuse Intrinsic Pontine Gliomas. An early ancestor in the evolution of splicing: a. Nogues G., Kadener S., Cramer P., de la Mata M., Fededa J.P., Blaustein M., Srebrow A. and Kornblihtt A.R. CircRNAs expression levels are not correlated with the expression of their linear isoforms, indicating a potentially widespread layer of previously unknown gene regulation. Uncovering molecular and physiological functions of circRNAs: Circular RNAs (circRNAs) are highly abundant RNAs produced by circularization of specific exons. Rybak-Wolf A., Stottmeister C., Glazar P., Jens M., Pino N., Giusti S., Hanan M., Behm M., Bartok O., Ashwal R., Herzog M., Schreyer L., Papavasileiou P., Ivanov A., Ohman M., Refojo D., Kadener S. and Rajewsky N. Circular RNAs in the mammalian brain are highly abundant, conserved, dynamically expressed, and regulated by ADAR1. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. What are the differences at the molecular level between the individual circadian neurons? Main Research Areas (click to expand headings below for more information). Selected for Faculty of 1000 (Factor 3.0 Recommended). Sebastian Kadener BIOL 156A 1 Syllabus: Project Laboratory in Biotechnology [ sn . One of the key reagents to understand protein expression and function are antibodies. Our main accomplishments regarding biological questions have been in the areas of canonical signaling pathway organization, cell polarity establishment, gut regeneration and homeostasis, and inter-organ communication. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. A polar mechanism coordinates different regions of alternative splicing within a single gene. 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. Cold Spring Harbor Laboratory Online. Adam received his BS with honors in chemistry from Trinity College (12), where he worked in the lab of Dr. Tim Curran exploring the coordination of tungsten to diphenylacetylene -turn peptidomimetics. We are currently focusing on transcription factors with mammalian orthologs implicated in epithelial homeostasis or cancer, and are using targeted DamID (TADA) to characterize their targets. Nogues G., Kadener S., Cramer P., Bentley D. and Kornblihtt A.R. He can also be found doing crossword puzzles at odd hours. Our laboratory is interested in understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. Lerner I. * Corresponding authors. Fededa J.P., Petrillo E., Gelfand M.S., Neverov A.D., Kadener S., Nogues G., Pelisch F., Baralle F.E., Muro A.F. As part of his bachelors program, he joined the group of Prof. Tony Kourzarides at the University of Cambridge in 2019 as a visiting undergraduate student to investigate the role and pharmacological inhibition of histone acetyl transferases in leukemia. Following our identification of adult Drosophila intestinal stem cells (ISCs), we used this system to characterize genes and pathways important for gut homeostasis and in particular, to analyze crosstalk among signaling pathways. B.S., University of Barcelona, Spain Ph.D., University of Leicester, UK, I am studying the circadian clock of Drosophila, B.S. These studies have allowed us to better characterize what cell types are present in different gut regions and provide us with new powerful data sets with which we can better characterize the transcriptional networks that define lineage relationships among cell types, cell-cell interactions among cell types (i.e. RNA biology Neurosciences. These esg>yki gut tumors induce organ wasting by secreting the insulin binding protein ImpL2 into the hemolymph, which reduces insulin signaling in peripheral tissues. Associate Professor, Brandeis University. Now, in an article published in the journal Molecular Cell, the lab of Dr. Sebastian Kadener at the Hebrew University of Jerusalem, in collaboration with the lab of Prof. Nikolaus Rajewsky at the . Pamudurti N., Bartok O., Jens O., Ashwal-Fluss R., Stottmeister C., Ruhe L., Hanan M., Wyler E., Perez-Hernandez D., Ramberger E., Shenzis S., Samson M., Dittmar G., Landthaler M., Chekulaeva M., Rajewsky N. and Kadener S. Translation of circRNAs. Alternative splicing regulates biogenesis of miRNAs located across exon-intron junctions. He went to college in Malaysia before moving to Philadelphia. Transcriptional activators differ in their abilities to control alternative splicing. Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. In the Bandopadhayay Lab, Leslie has been able to combine her background in cancer cell metabolism with genomic, transcriptomic and gene editing approaches to understand the biology of pediatric brain tumors and elucidate mechanisms of resistance to targeted therapies such as BET-bromodomain inhibition. leptin), neural development, and behavior are conserved, . For his senior clinic project, John worked with HRL Laboratories to create an algorithm for electrostatically tuning quantum dots using neural networks for quantum computers. More. Fun fact: Outside the lab, Adam is an avid soccer fan and enjoys watching the English Premier League. We use Drosophila as a model system to characterize the mechanisms underlying communication between cells, tissues, and organs. Mezan S., Ashwal-Fluss R., Shenhav R., Garber M. and Kadener S. Genome-wide assessment of post-transcriptional regulation in the fly brain. For example, the vertebrate CNS receives information regarding the status of peripheral metabolic processes via hormonal signaling and direct macromolecular sensing. In the Bandopadhayay Lab, Michelle is interested in using computational efforts to better characterize pediatric brain tumors. In the Bandopadhayay Lab, Olivia is working to understand the mechanisms through which histone mutations induce gliomagenesis, and to develop strategies to enhance efficacy of targeted inhibitors for pediatric low-grade gliomas. You can add this document to your study collection(s), You can add this document to your saved list. Wittenbrink N, Ananthasubramaniam B, Mnch M, Koller B, Maier B, Weschke C, Bes F, de Zeeuw J, Nowozin C, Wahnschaffe A, Wisniewski S, Zaleska M, Bartok O, Ashwal-Fluss R, Lammert H, Herzel H, Hummel M, Kadener S, Kunz D, Kramer A. Levin-Klein R., Fraenkel S., Lichtenstein M., Matheson L., Bartok O., Nevo Y., Kadener S., Corcoran A., Cedar H., Bergman Y. Our lab is interested in determining how molecular and neural circadian components regulate each other and generate a system that is both robust and plastic. Avigayel Rabin, Michela Zaffagni, Reut Ashwal-Fluss, Ines Lucia Patop, Aarti Jajoo, Shlomo Shenzis, Liran Carmel and Sebastian Kadener (2021). Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. Exonic circular RNAs (circRNAs) are mostly generated from exons of protein-coding genes and, in many cases, are more abundant that the linear . Fun fact: One of the first things Jens did when he arrived in Boston was to buy a bike. Patop IL, Wst S, Kadener S. Craving for Introns. The work is a collaboration between Dr. Kadener's lab and Prof. Nikolaus Rajewsky from the Max Dellbruck Institute, Berlin, Germany. Elife 8. 1, Artyomov M., Shishkin A., Kadri S., Zhu X., Gutman M., Garber M.* and Kadener S.* Defining the 5 and 3 landscape of theDrosophilatranscriptome with ExoCAGE and RNaseH-seq. Perelman School of Medicine at the University of Pennsylvania Sayan is originally from India where he completed his undergraduate training in Electrical Engineering at Jadavpur University, Kolkata. Nucleic Acids Research47(11): e95; 1-16 (2017). ( 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. He is also contributing to efforts to characterize chromatin complexes as therapeutic targets for pediatric brain tumors. Im an undergraduate in the Class of 2023 majoring in Chemical Biology at Brandeis. The Kadener laboratory studies how molecular processes in the brain determines behavior with a special emphasis on RNA metabolism. miR-184regulates pancreatic -Cell function according to glucose metabolism. Fun fact: Maddie is a multimedia artist and during quarantine, Maddie collaged all of the wooden furniture in her apartment. Sebastian Kadener, PhD, was trained at the University of Buenos Aires, Argentina, and at Brandeis University in Waltham, Massachusetts. Proximity Labeling: Characterizing the proteome composition of organelles and subcellular regions of living cells can facilitate the understanding of cellular organization as well as protein interactome networks. Further, our work and that of others has suggested functions of these moleculesin vivo. Zaffagni M, Kadener S. NEAT1 is overexpressed in Parkinson's disease substantia nigra and confers drug-inducible neuroprotection from oxidative stress. Zaffagni M, Kadener S. NEAT1 is overexpressed in Parkinson's disease substantia nigra and confers drug-inducible neuroprotection from oxidative stress. How do circRNAs work at the molecular level? Working under the mentorship of Dr. Beth Lawlor, April focused on understanding how hijacking of normal developmental pathways lead to heterogeneity and cell state plasticity in Ewing sarcoma. Circadian clocks are remarkably robust: they are able to keep time without timing cues and are resilient to large variations in environmental conditions. First, we developed a new method to visualize the dynamic activation of pathway activities. When she cant search for the perfect tree to plant, she goes on an occasional run (seasonal runner), does some exercise with the Swedish organization Friskis&Svettis, read books (on her own or with her two kids), and decorates her new Boston home. Bartok O., Teesalu M., Pandey V., Hanan M., Poukkula M., Havula E., Moussaieff A., Vodala S., Nahmias Y., Kadener S.* and Hietakangas V.* Cabut-dependent repressive branch of the sugar sensing transcriptional network regulates glyceroneogenesis. What is their mechanisms of action? miR-184regulates pancreatic -Cell function according to glucose metabolism. Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. 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. She received her BA in Molecular and Cell Biology from the University of California, Berkeley in 2019. He received his BS in Biochemistry and Molecular Biology in 2022 from Dickinson College in Carlisle Pennsylvania. Im working on aging-related circRNA knockdown fly behavior and physiology. Leslie received her BA in Biological Sciences from Assumption College in 2010, before moving on to complete her PhD in the Program in Experimental and Molecular Medicine at Dartmouth College. As an underlying mechanism, the balance or critical reaction hypothesis have been proposed. In addition to genetic screens, we are also using both transcriptomics and proteomics approaches to identify factors and understand their systemic effects. Antibodies allow protein visualization by immunostaining, biochemical study by immunoprecipitation and western blot, and proteomic study by IP-MS. 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. These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. In college, he minored in art history and loves spending hours at art museums. 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. In addition, skeletal muscles produce various myokines that influence metabolic homeostasis, lifespan, and the progression of age-related diseases and aging in non-muscle tissues. Molecular Neurobiology and RNA metabolism. I am interested in studying circular RNA formation. ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. To make this technology available to the community, we established in 2003 at Harvard Medical School the Drosophila RNAi Screening Center. Dana joined the Bandopadhayay Lab in 2021 where is she working to apply single-cell methods to evaluate the heterogeneity of pediatric gliomas, and to understand spatial associations. Now the stage is set for the most exciting questions, which we are currently working in the lab, by combining molecular, computational and RNA biology with advances techniques in genetics and neurosciences. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. Sebastian Kadener Principal Investigator M.Sc., The University of Buenos Aires, Buenos Aires, Argentina Ph.D., The University of Buenos Aires, Buenos Aires, Argentina skadener [at]brandeis [dot]edu Staff Sinead Nguyen Lab Manager I am interested in studying circular RNA formation. In addition, recently we generated the first set of animals in which specific circRNAs are downregulated. 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. Cs. Among the next significant questions to address are how complex phenotypes arise in the context of the whole organism and how the programs regulating these phenotypes are influenced by genetic background and environment. Eric received his MS in biomedicine from Uppsala University, Sweden in 2010. We have also generated stable nuclease-dead Cas9 activator (dCas9a) cell lines that can be used, after transfection with gRNAs, to perform overexpression screens - thus complementing loss of function screens. . During his time at Dickinson, Sher worked in Dr. Michael Roberts lab, investigating gene targets for potential Acute Myeloid Leukemia therapies. During her time at Brandeis, Maddie worked in the lab of Sebastian Kadener studying RNA metabolism and the circadian rhythm. For example, little is understood about how the simultaneous growth and differentiation of different tissues and organs are coordinated and how the development of different cell types and tissues is integrated within an organ. Circadian clocks are also exceptionallyplasticas they can quickly and specifically adjust to specific environmental cues. These experiments will provide a system-wide understanding of the factors originating from tumors and how they perturb systemic energy balance, and how peripheral organs in turn respond to initiate cachectic phenotypes. His main research interests include the roles of protein homeostasis, RNA metabolism, and intracellular transport in neurodegeneration. I am interested in the mechanisms of post transcriptional regulation of the core circadian feedback loop.

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