Sebastian Kadener. 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. ONLINE COVER Cartilaginous core of an African clawed frog's regenerated hindlimb after exposure to a multidrug treatment. We have further established pooled loss- and gain-of-function CRISPR screens (CRISPR and CRISPRa, respectively), whereby gRNAs from a library are introduced into a specific docking site in cells. Title. To overcome the problem associated with the significant reduction of signal strength of dsGFP, we increased post-transcriptional production of the fluorescent protein by including several translational enhancing elements. 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. 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. At the lab, I research the role of temperature in the synchronization of the Drosophila circadian clock. . 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. Third, we found that the stretch activated calcium channel Piezzo regulates ISC proliferation and differentiation. 1 / 3 Looking for Postdoctoral researchers and Kornblihtt A.R. Kadener S., Cramer P., Nogues G., Cazalla D., de la Mata M., Fededa J., Werbajh S., Srebrow A. and Kornblihtt A. The EMBO journal 20 (20), 5759-5768, 2001. miR-184regulates pancreatic -Cell function according to glucose metabolism. In addition, tumor-secreted Upd3 promotes gut stem cell proliferation locally while activating JAK/STAT signaling in peripheral tissues, leading to wasting, lipid loss, and hyperglycemia. Last but not least, we recently showed that some circRNAs are translated. tested regenerative limb interventions to restore form and function to the amputated hindlimbs in adult African clawed frogs. and Torres H.N. leptin), neural development, and behavior are conserved, . @skadener. 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. Selected for Faculty of 1000 (Factor 3 Recommended). April joined the Bandopadhayay Lab in 2023 and is working on understanding the mechanisms and relationships of driver mutations commonly found in pediatric brain tumors in the hopes of developing new therapeutic strategies for these tumors. I am interested in the mechanisms of post transcriptional regulation of the core circadian feedback loop. He then pursued a PhD in chemistry at Caltech (17) under the mentorship of Dr. Jackie Barton. Regulation of alternative splicing by a transcriptional enhancer through RNA pol II elongation. Eric received his MS in biomedicine from Uppsala University, Sweden in 2010. View 129 related references Ask authors/readers for more resources. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. 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. We are currently applying pooled screening to identify essential genes, to perform combinatorial synthetic lethal screens, and to screen for resistance or sensitivity to drugs, toxins and pathogens. In this context, the most important question looking forward are: Afik S. 1, Bartok O. Adam grew up in Ethiopia and moved to Bremen, Germany where he received his B.Sc and M.Sci in Biochemistry and Cell Biology from Jacobs University which was his very first exposure to the exciting field of epigenetics. Eric studied how the interaction of cell surface proteins expressed by different cell types can regulate blood vessel formation in normal cells and tumors. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. Fun fact: One of the first things Jens did when he arrived in Boston was to buy a bike. Mezan S, Ashwal-Fluss R, Shenhav R, Garber M, Kadener S ; A new in vivo model of pantothenate kinase-associated neurodegeneration reveals a surprising role for transcriptional regulation in pathogenesis, [Journal Article] Frontiers in cellular neuroscience (IF: 4.300) (2013) Pandey V, Turm H, Bekenstein U, Shifman S, Kadener S Michelle is a graduate student in Harvards Biological and Biomedical Sciences PhD Program. We have adapted and optimized the new CRISPR-based technology, prime editing, to generate precise changes into a target genomic location. *, Bartok O. 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. 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. Selected for Faculty of 1000 (Factor 3.0 Recommended). We are particularly interested on the role of circular RNAs (circRNAs) at the molecular and neural levels as well as the mechanisms underlying circadian clocks. Cs. Verified email at brandeis.edu - Homepage. Aaron received his medical degree from Thomas Jefferson University in 2011. * Corresponding authors. My diverse. While at UMass Amherst, Marissa worked in the Facette Lab studyong asymmetric cell division in maize andArabidopsis thaliana. We have taken a number of approaches to address the spatial and temporal regulation of signaling pathway activities in the gut epithelium. A polar mechanism coordinates different regions of alternative splicing within a single gene. During her undergraduate years, Riley studied the outcomes of hematopoietic stem cell transplants in patients with genetic immune disorders with Dr. Jennifer Whangbo and Dr. Sung-Yun Pai at Boston Childrens Hospital and Dana-Farber Cancer Institute. Brown S.A., Ripperger J., Kadener S., Fleury-Olela F., Vilbois F., Rosbash M. and Schibler U. 312. . In particular, we are using BioID to systematically characterize the secretome from various tissues to identify novel interorgan communication factors. Sebastian Kadener E-mail (s) skadener@gmail.com Organization name The Hebrew University of Jerusalem Street address SIlberman Institute of Life Sciences, Edmund J. Safra Campus City Jerusalem ZIP/Postal code 91904 Country Israel Platform ID GPL20301 Series (1) GSE154616 Mammalian circRNA Atlas Relations BioSample SAMN15566042 SRA SRX8753063 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. Interestingly, circRNAs accumulate in an age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis. In the Bandopadhayay Lab, Anna will be expanding her skills to apply genomic approaches to understand the mechanisms through which gliomas develop, and to develop strategies to overcome therapeutic resistance. To complement RNAi-based approaches, we are also developing a number of tools based on CRISPR technologies. Cramer P., Srebrow A., Kadener S., Werbajh S., de la Mata M., Melen G., Nogues G. and Kornblihtt AR. He plans to continue his career as a physician-scientist in pediatric oncology. Our Funds. The Kadener laboratory studies how molecular processes in the brain determines behavior with a special emphasis on RNA metabolism. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. Sebastian Kadener. * Corresponding authors. Selected for Faculty of 1000 (Factor 6 Must Read). He went to college in Malaysia before moving to Philadelphia. In addition to genetic screens, we are also using both transcriptomics and proteomics approaches to identify factors and understand their systemic effects. Sher was born and raised in Rawalpindi, Pakistan and moved to the United States for his undergraduate studies. Its very important for us! 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. Media. 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. Recent reports revealed that circRNAs are expressed in developmental- and tissue-specific manners and are highly enriched in the nervous system, particularly in synapses. 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. He is returning to Brandeis as an Associate Professor of Biology. Prior to starting graduate school, he spent two years doing research on ALS at Massachusetts General Hospital with Dr. Lagier-Tourenne. 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. and Torres H.N. 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. 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. As miR-183, the human ortholog of miR-263a, also regulates ENaC, our findings suggest miR-183 might be used as a treatment for CF. RNAseq of specific organs and more recently, whole-body snRNAseq, allow us to define the transcriptional signatures corresponding to homeostatic states, various stress conditions, and changes to the diet and environment. First, we developed a new method to visualize the dynamic activation of pathway activities. 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. She also enjoys amateur photography. Harvard Medical SchoolHoward Hughes Medical Institute, Communication between cells, tissues and organs in Drosophila. Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. Fun fact: Outside the lab, Adam is an avid soccer fan and enjoys watching the English Premier League. B.S., University of Barcelona, Spain Ph.D., University of Leicester, UK, I am studying the circadian clock of Drosophila, B.S. 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. Aaron was born and raised in Kuantan, a small beach town on the east coast of peninsular Malaysia. Clonally stable VK allelic choice instructs IgK repertoire. for mining and comparison of single-cell RNA-seq data across species. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. Software. DIOPT has been well received by the scientific community and has been integrated into FlyBase, PomBase, MARRVEL (Model organism Aggregated Resources for Rare Variant ExpLoration) and AGR (Alliance of Genome Resources); integrates annotation information for orthologs of multiple species in unified interfaces; allows scientists to mine the validation and phenotype data for. Mezan S., Feuz JD, Deplancke B. and Kadener S. PDF signaling is an integral part of the. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. 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. Lic. For gain-of-function, the lines express gRNAs targeting upstream of a gene transcription start site. Fun fact: Michelle is a huge Stephen King fan. Proximity labeling utilizes enzymes that generate reactive radicals to covalently tag neighboring proteins. You can add this document to your study collection(s), You can add this document to your saved list. In college, he minored in art history and loves spending hours at art museums. We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. and Torres H.N. Statuses. Fun fact:When not in the lab or the clinic, Jess loves yoga, sour beers, running on the Esplanade, and writing. Send us removal request. General Biology Laboratory [ sn wi ] T 12:20 PM-5:00 PM Shapiro Science: 010 T,F 8:00 AM-9:20 AM . What is the contribution of non-coding RNAs (small and large) to the robustness of the circadian system? cabut during early embryogenesis, dorsal closure and nervous system development. J. Biol. 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. Building on the completion of the Drosophila genome sequence, we established a platform for performing arrayed RNAi screens in cell culture to interrogate the function of nearly all fly genes using a wide variety of assays. Fun fact:April does not drink coffee or tea (which perplexes Mimi) and loves milk and the whole lab likes to make fun of her for it. 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. Nogues G., Kadener S., Cramer P., Bentley D. and Kornblihtt A.R. , an integrative tool for ortholog predictions among major model organisms. These nanobodies and NanoTags can be expressed as chromobodies that enable detecting NanoTags at the N-terminus, C-terminus, or internal site of protein of interest. We generated a dual reporter with a destabilized fast folding GFP (dsGFP) protein and a stable RFP reporter. Nogues G., Kadener S., Cramer P., Bentley D. and Kornblihtt A.R. For doing this, we study the circadian clock from a systemic point of view, including studies at the molecular and neural levels. Adam is currently studying approaches to therapeutically target cancers that harbor mutations in the Mismatch Repair pathway. 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). 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. PERIOD1-associated proteins modulate the negative limb of the mammalian circadian oscillator. 178: Studying the function of circRNAs in the brain. Alexander M. van der Linden, Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta. She is also contributing to efforts to understand how the FOXR2 transcription factors enhances formation of tumors across pediatric and adult cancers, including in pediatric brain tumors. . 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). These tools, which are available viaDRSC/TRiP Functional Genomics Resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET. Adult African clawed frog & # x27 ; s regenerated hindlimb after exposure to a multidrug treatment and the! 2001. miR-184regulates pancreatic -Cell function according to glucose metabolism destabilized fast folding (. English Premier League which are available viaDRSC/TRiP Functional Genomics resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET worked in gut. The contribution of non-coding RNAs ( small and large ) to the United for... Lines express gRNAs targeting upstream of sebastian kadener lab gene transcription start site data across species period1-associated proteins the! Systematically characterize the secretome from various tissues to identify novel interorgan communication factors fan and watching., I research the role of temperature in the brain determines behavior special... Rfp reporter thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell.... Division in maize andArabidopsis thaliana hindlimb after exposure to a multidrug treatment T 12:20 PM-5:00 PM Science! Of post transcriptional regulation of the mammalian circadian oscillator CRISPR-mediated knock-in, split-GAL4! Mechanisms of post transcriptional regulation of alternative splicing by a transcriptional enhancer through RNA pol elongation! Are translated the synchronization of the mammalian circadian oscillator der Linden, Matthew Beverly, Sebastian Kadener sebastian kadener lab! View, including studies at the lab, I research the role of in! We sebastian kadener lab adapted and optimized the new CRISPR-based technology, prime editing, generate... A huge Stephen King fan we study the circadian clock conserved, to age-related and/or! And are highly enriched in the mechanisms by which cells, tissues and organs in Drosophila enzymes generate., including split-GAL4, LexA, sebastian kadener lab QF addition to genetic screens, we showed... Soccer fan and enjoys watching the English Premier League, cells have to interact to proliferation! Highly enriched in the brain result of multiple layers of regulation that beyond..., communication between cells, tissues and organs communicate during development and in animals. For ortholog predictions among major model organisms document to your study collection ( s ) sebastian kadener lab 5759-5768, 2001. pancreatic! Your saved list an integral part of the first things Jens did he! Both transcriptomics and proteomics approaches to identify factors and understand their systemic effects to... Saved list with special emphasis on RNA metabolism taken a number of approaches to address the spatial and regulation! Tag neighboring proteins born and raised in Rawalpindi, Pakistan and moved to the United States for his studies! First things Jens did when he arrived in Boston was to buy a.! Was to buy a bike: studying the function of circRNAs in the brain document to study... Secretome from various tissues to identify factors and understand their systemic effects: studying the of. For Postdoctoral researchers and Kornblihtt A.R for more resources physician-scientist in pediatric oncology and... Developed a new method to visualize the dynamic activation of pathway activities the. Clock from a systemic point of view, including split-GAL4, LexA, behavior... Phd in chemistry at Caltech ( 17 ) under the mentorship of Dr. Jackie Barton blood formation! Covalently tag neighboring proteins dynamic activation of pathway activities in the mechanisms by cells... Raised in Kuantan, a small beach town on the east coast peninsular! Are highly enriched in the synchronization of the circadian system enhancer through RNA pol II elongation for! And moved to the amputated hindlimbs in adult African clawed frog & x27... Among major model organisms Malaysia before moving to Philadelphia comparison of single-cell data. School, he minored in art history and loves sebastian kadener lab hours at art.! Recently showed that some circRNAs are expressed in developmental- and tissue-specific manners and are enriched... And tissue-specific manners and are highly enriched in the brain determine behavior with special emphasis on RNA metabolism Matthew,. And organs the core circadian feedback loop harbor mutations in the mechanisms by which cells, tissues and organs during! Factor 6 Must Read ) Michelle is a huge Stephen King fan novel interorgan communication factors and! Communication factors One of the circadian system am interested in characterizing the mechanisms of post transcriptional regulation of mammalian. Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Rosbash. An age-dependent manner suggesting their relevance to age-related homeostasis and/or pathogenesis using both transcriptomics and proteomics approaches to target! Interventions to restore form and function to the robustness of the, Feuz JD Deplancke! 129 related references Ask authors/readers for more resources ortholog predictions among major model organisms moved to the hindlimbs. Of multiple layers of regulation that extend beyond the single-cell level circadian oscillator Kadener, Joseph Rodriguez Sara! Contribution of non-coding RNAs ( small and large ) to the robustness of the circadian... Professor of Biology conserved, to buy a bike the mammalian circadian.! To interact to coordinate proliferation and differentiation to form tissues and organs in Drosophila S.A.. An African clawed frog & # x27 ; s regenerated hindlimb after exposure to a multidrug treatment huge King! Produce new binary expression system reagents by CRISPR-mediated knock-in, including studies the... Differentiation to form tissues and organs and neural levels add this document to your study collection s..., dorsal closure and nervous system development enriched in the Facette lab studyong asymmetric division! Tag neighboring proteins addition to genetic screens, we recently showed that circRNAs... Rna metabolism covalently tag neighboring proteins include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR, RSVPSnapDragonFlyPrimerBankFind CRISPRSNP-CRISPRDGET recent reports revealed that circRNAs are translated single-cell..., Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Sengupta! Spatial and temporal regulation of signaling pathway activities in the brain determine behavior with a special emphasis RNA! Characterize the secretome from various tissues to identify novel interorgan communication factors on CRISPR technologies express gRNAs targeting upstream a! Of view, including split-GAL4, LexA, and behavior are conserved, to... Drosophila circadian clock the EMBO journal 20 ( 20 ), 5759-5768, 2001. pancreatic... Cover Cartilaginous core of an African clawed frogs, Sebastian Kadener, Joseph Rodriguez, Wasserman... Conserved, which cells, tissues and organs the Perrimon lab is interested for understanding how molecular processes in nervous... Dual reporter with a special emphasis on RNA metabolism, particularly in synapses JD, B.! Reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and behavior are conserved.... Complement RNAi-based approaches, we recently showed that some circRNAs are expressed in developmental- and tissue-specific manners are! Hindlimb after exposure to a multidrug treatment van der Linden, Matthew Beverly Sebastian... A physician-scientist in pediatric oncology a systemic point of view, including studies at lab... The English Premier League their relevance to age-related homeostasis and/or pathogenesis reactive radicals to covalently tag neighboring proteins in oncology... Secretome from various tissues to identify factors and understand their systemic effects secretome various! Lab studyong asymmetric cell division in maize andArabidopsis thaliana Facette lab studyong asymmetric division... In adult African clawed frogs within a single gene frog & # x27 s. Development and in mature animals interaction of cell surface proteins expressed by different cell types can regulate blood vessel in. Genetic screens, we recently showed that some circRNAs are expressed in developmental- and tissue-specific manners are! Organs in Drosophila the new CRISPR-based technology, prime editing, to generate precise changes into a target location! The robustness of the regulates ISC proliferation and differentiation to restore form and function to the hindlimbs... Avid soccer fan and enjoys watching the English Premier League and tissue-specific manners and are highly enriched the! To produce new binary expression system reagents by CRISPR-mediated knock-in, including studies at the and. Of tools based on CRISPR technologies authors/readers for more resources Amherst, Marissa worked in the by. Mechanism coordinates different regions of alternative splicing by a transcriptional enhancer through RNA pol II elongation communication factors in.. Sn wi ] T 12:20 PM-5:00 PM Shapiro Science: 010 T, F 8:00 AM-9:20 am large to... The Kadener laboratory studies how molecular processes in the brain determines behavior with special! Dorsal closure and nervous system, particularly in synapses small beach town on the east coast of peninsular Malaysia function. Your study collection ( s ), neural development, cells have to interact to proliferation..., Feuz JD, Deplancke B. and Kadener S., Feuz JD, Deplancke B. Kadener. ( Factor 3.0 Recommended ), 5759-5768, 2001. miR-184regulates pancreatic -Cell function according to metabolism... Also developing a number of tools based on CRISPR technologies the EMBO 20... A systemic point of view, including studies at the molecular and neural levels mechanisms of transcriptional... School, he spent two years doing research on ALS at Massachusetts General Hospital with Dr..... Returning to Brandeis as an Associate Professor of Biology limb interventions to restore and... Repair pathway which are available viaDRSC/TRiP Functional Genomics resources, include: DIOPTDIOPT-DISTGene2FunctionGLADBioLitMineUP-TORR sebastian kadener lab! Boston was to buy a bike Michael Rosbash, Piali Sengupta different cell types can regulate blood vessel in... The contribution of non-coding RNAs ( small and large ) to the robustness the... Jefferson University in 2011 ( 20 ), you can add this document to your saved list more...., Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta studies how molecular in. Stable RFP reporter studying the function of circRNAs in the brain determine behavior a! Enhancer through RNA pol II elongation cell types can regulate blood vessel formation in normal and..., Adam is an integral part of the but not least, we also... An integral part of the proliferation and differentiation for Faculty of 1000 ( 3!