Michelle is a graduate student in Harvards Biological and Biomedical Sciences PhD Program. I am interested in studying circular RNAs and neurological disorders. 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. She is also working to evaluate the role of altered metabolic signaling to driving formation of pediatric tumors such as Diffuse Intrinsic Pontine Gliomas. Determine the nature of circadian rhythms within organisms. Moreover, we also showed that the neural and molecular circadian systems compensate and interact with each other. She then obtained her the PhD from Cancer Biology PhD program at the University of Michigan in 2022. Clonally stable VK allelic choice instructs IgK repertoire. As an underlying mechanism, the balance or critical reaction hypothesis have been proposed. Moreover, we also showed that the neural and molecular circadian systems compensate and interact with each other. 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. Our studies on Drosophila gut led us to establish a model of tumor-induced organ wasting that is relevant to cachexia. 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. @skadener. CRISPR-generated mutant cell lines, in combination with RNAi, provide a robust platform for combinatorial screening. This plasticity is the result of the existence of very efficient input pathways that convey the external signals into the core oscillator machinery. 10.1261/rna.068692.118 References. Articles Cited by Public access Co-authors. DIOPT allows scientists to design experiments based on the knowledge obtained from a different organism(s) and to prioritize genes based on evolutionary conservation. Or do you know how to improve StudyLib UI? Third, we found that the stretch activated calcium channel Piezzo regulates ISC proliferation and differentiation. The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. News. Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. 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. He went to college in Malaysia before moving to Philadelphia. for mining and comparison of single-cell RNA-seq data across species. Ines Patop. Aaron was born and raised in Kuantan, a small beach town on the east coast of peninsular Malaysia. In addition to genetic screens, we are also using both transcriptomics and proteomics approaches to identify factors and understand their systemic effects. Andranik Ivanov and Sebastian Meczmack (Prof. Rajewsky's . Sebastian Kadener Associate Professor of Biology Research Description Molecular Neurobiology and RNA metabolism Our laboratory is interested for understanding how molecular processes in the brain determine behavior with special emphasis on RNA metabolism. In October 2021, Anna defended her PhD thesis (and Mimi had the honor of being her faculty opponent!!). Patop IL, Wst S, Kadener S. Craving for Introns. 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 . Riley was born and raised in Seoul, South Korea, and moved to the U.S when she was 11 years old. Although Celiac disease put a damper on her plans to be a foodie, Dana loves to eat and is always on the hunt for new gluten-free restaurants. This work, led by Sebastian Kadener, summarizes years of development of a pipeline that improves upon current tools. Fun fact: Like many Swedish people, Eric has completed Vasaloppet, a 60-mile cross-country skiing race (twice!). 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. To facilitate these studies, we are developing various techniques and resources in functional genomics and proteomics. Lacadie S.A., Tardiff D.F., Kadener S. and Rosbash M. In vivo commitment to yeast cotranscriptional splicing is sensitive to transcription elongation mutants. RNA biology Neurosciences. Advantages of CRISPRi as compared with RNAi are that the level of knockdown can be more tightly controlled and the system appears to have reduced off-target effects. The Kadener laboratory studies how molecular processes in the brain determines behavior with a special emphasis on RNA metabolism. PERIOD1-associated proteins modulate the negative limb of the mammalian circadian oscillator. 312. What are the general mechanism of the circadian clock to deal with genetic and/or environmental perturbations? Selected for Faculty of 1000 (Factor 3 Recommended). 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. cabut during early embryogenesis, dorsal closure and nervous system development. Furthermore, dehydration of the intraluminal surface in miR-263a mutant guts increases bacterial infection, as evident by the increased expression of antimicrobial peptides. 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. While the former supposes a temperature-dependent balancing of reactions with opposite effects on circadian period, the . Litovchenko M, Meireles-Filho ACA, Frochaux MV, Bevers RPJ, Prunotto A, Anduaga AM, Hollis B, Gardeux V, Braman VS, Russeil JMC, Kadener S, Dal Peraro M, Deplancke B. Host-derived circular RNAs display proviral activities in Hepatitis C virus-infected cells. 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. *, Afik S., Menet J., Wolfson V., Weissbein U., Haimovich D., Gafni C., Friedman N., Rosbash M. and Kadener S. . We use, To complement RNAi-based approaches, we are also developing a number of tools based on CRISPR technologies. Statuses. We have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including split-GAL4, LexA, and QF. Followers. Dana received her BA in Biology from the University of Pennsylvania (21). Sebastian Kadener BIOL 156A 1 Syllabus: Project Laboratory in Biotechnology [ sn . Selected for Faculty of 1000 (Factor 3 Recommended). During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. miR-184regulates pancreatic -Cell function according to glucose metabolism. Thisrobustnessis the result of multiple layers of regulation that extend beyond the single-cell level. Metazoan MicroRNAs (2018) David P. Bartel CELL Non-canonical functions of microRNA pathway enzymes - Drosha, DGCR8, Dicer and Ago proteins 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. In the past 50 years, studies using genetically tractable model systems have led to a detailed understanding of genetic mechanisms involved in the control of developmental events, as illustrated by our knowledge of patterning and morphogenesis. 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. These two short peptide tags and their nanobodies can be used for labeling and manipulating proteins. 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. Is the category for this document correct. For her Masters studies, she moved to Uppsala and finisher her MSc in Medicine in 2014 after spending a semester in Dr. Fredrik Swartlings lab with a degree project focused on BET and CDK2 inhibition in MYC/N-driven medulloblastoma. Prior to coming to Brandeis, Sayan worked in the Bangalore Life Science Cluster, India as a research fellow. *, Bartok O. Molecular Neurobiology and RNA metabolism. He plans to continue his career as a physician-scientist in pediatric oncology. ), we have identified and validated novel mechanisms of how stem cells adjust their rate of proliferation/differentiation to meet the demand for tissue regeneration. Im working on aging-related circRNA knockdown fly behavior and physiology. Understanding how circadian rhythms are generated, maintained, and adapted to changing conditions is key, as several diseases such as cancer and depression are associated with misalignment of the circadian clock with the environment. Fun fact: In his native language of Urdu, Shers full name translates to lion/tiger brave. Community support Reagent. Further, our work and that of others has suggested functions of these moleculesin vivo. 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. In addition, recently we generated the first set of animals in which specific circRNAs are downregulated. Fededa J.P., Petrillo E., Gelfand M.S., Neverov A.D., Kadener S., Nogues G., Pelisch F., Baralle F.E., Muro A.F. During her free time, Riley enjoys watching documentaries, cooking Korean food, and visiting cafes to drink iced vanilla latte. * Corresponding authors. tested regenerative limb interventions to restore form and function to the amputated hindlimbs in adult African clawed frogs. Murugan et al. 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. 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. High-accuracy determination of internal circadian time from a single blood sample. She received her BA in Molecular and Cell Biology from the University of California, Berkeley in 2019. During development, cells have to interact to coordinate proliferation and differentiation to form tissues and organs. Over the years, we have added a number of screening reagents and developed bioinformatics tools to improve the platform. Bartok O., Kyriacou C., Levine J., Sehgal A. and Kadener S. Adaptation of molecular circadian clockwork to environmental changes: a role for alternative splicing and miRNAs. Alexander M. van der Linden, Matthew Beverly, Sebastian Kadener, Joseph Rodriguez, Sara Wasserman, Michael Rosbash, Piali Sengupta. 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. 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. Fun fact: Adams passions expand beyond the lab and include weightlifting, hot yoga, singing acappella, heading to the ballpark for a game, and visiting craft breweries. 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. Lerner I. Dec 2017. Despite the importance of antibodies in biology study, antibodies are not available for most fly proteins. Eric received his MS in biomedicine from Uppsala University, Sweden in 2010. 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. In college, he minored in art history and loves spending hours at art museums. These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. Dr. Kadener studies the circadian clock -- a mechanism that controls the sleep/wake cycle -- and neurodegeneration in pre-clinical models . 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. We generated a dual reporter with a destabilized fast folding GFP (dsGFP) protein and a stable RFP reporter. Patop IL, Wst S, Kadener S. Craving for Introns. and Kadener S. Mathematical Model of the, Kadener S., Menet J., Sugino K., Horwich M.D., Weissbein U., Nawathean P., Vagin V., Zamore P., Nelson S. and Rosbash M. A role for miRNAs in the, Kadener S., Rodriguez J., Abruzzi K. and Rosbash M. Genome-wide identification of targets of the, Kadener S., Schoer R., Menet J. and Rosbash M. Circadian transcription contributes to core period determination in, Kadener S., Stoleru D., McDonald M., Nawathean P. and Rosbash M. , Rosbash M., Bradley S., Kadener S., Li Y., Luo W., Menet J.S., Nagoshi E., Palm K., Schoer R., Shang Y. and Tang C.H. *, Eliaz D.*, Cohen Chalamish S., Tschudi C., Unger R., Hashem Y., Kadener S. and Michaeli S. Pseudouridylation in. She also loves sleeping in, making guacamole, and reading about art history. Avigayel Rabin, Michela Zaffagni, Reut Ashwal-Fluss, Ines Lucia Patop, Aarti Jajoo, Shlomo Shenzis, Liran Carmel and Sebastian Kadener (2021). These questions are: Circadian clocks organize cellular, physiological, and behavioral timing in 24-hour cycles. Article. 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. Jens then moved to Heidelberg in 2021 to enroll in the masters program in Cancer Biology at the German Cancer Research Center (DKFZ). The Perrimon lab is interested in characterizing the mechanisms by which cells, tissues and organs communicate during development and in mature animals. Mutant cell lines, in combination with RNAi, provide a robust for. Have several efforts underway to produce new binary expression system reagents by CRISPR-mediated knock-in, including,., summarizes years of development of a pipeline that improves upon current.... 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