E Stampouloglou, N Cheng, A Federico, E Slaby, S Monti, GL Szeto, ... JL Drewes, GL Szeto, EL Engle, Z Liao, GM Shearer, MC Zink, ... Army Research Laboratory Technical Report ARL-TR-2159, New articles related to this author's research, Wayne State, MIT, University of Florida, Purdue, UMBC -- Chemical, Biochemical & Environmental Engineering, Professor of Molecular Engineering, University of Chicago, Stanford University; Broad Institute of MIT and Harvard, Structure-based programming of lymph-node targeting in molecular vaccines, Engineering synthetic vaccines using cues from natural immunity, Eradication of large established tumors in mice by combination immunotherapy that engages innate and adaptive immune responses, Nanoparticulate STING agonists are potent lymph node–targeted vaccine adjuvants, Histone deacetylase inhibitors impair the elimination of HIV-infected cells by cytotoxic T-lymphocytes, Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd, A microfluidic platform enabling single-cell RNA-seq of multigenerational lineages, Microglial depletion with CSF1R inhibitor during chronic phase of experimental traumatic brain injury reduces neurodegeneration and neurological deficits, Liposomal vaccines incorporating molecular adjuvants and intrastructural T-cell help promote the immunogenicity of HIV membrane-proximal external region peptides, Minocycline Attenuates HIV Infection and Reactivation by Suppressing Cellular Activation in Human CD4. Jesse M. Engreitz. G Szeto, D Van Egeren, H Worku, A Sharei, B Alejandro, C Park, K Frew, ... GL Szeto, JL Pomerantz, DRM Graham, JE Clements, Journal of Biological Chemistry 286 (13), 11275-11282, Journal of Materials Chemistry B 4 (9), 1610-1618. . Jesse M. Engreitz. Gene expression in mammals is regulated by noncoding elements that can impact physiology and disease, yet the functions and target genes of most noncoding elements remain unknown. First, we review the fundamentals of CRISPR-Cas enzymes and functional genomics tools that leverage these systems. Jesse M. Engreitz 1 Division of Systems Medicine, Department of Pediatrics, 2 Department of Bioengineering, 3 Lucile Packard Children's Hospital, 4 Biomedical … Google Scholar; NCBI myBibliography; Current Research and Scholarly Interests. . in Microbiology from California State University, Long Beach and spent three years as a researcher in Max Seibold’s Lab at National Jewish Health in Denver, CO. His work in the Seibold Lab included investigating the effects of air pollution on the asthmatic lung and deploying gene-editing methods to identify genes underlying differentiation of lung cell types. Jesse … Genome-wide association studies have now identified tens of thousands of noncoding loci associated with human diseases and complex traits, each of which could reveal … Distribution of the position of motif sites for CTCF (A), ELF1 (B), FOXP1 (C), ARID3A (D), EPAS1 (E), and RREB1 (F) across NDR regions, centered around the peak of the DHS signal. For example, Xist expresses in an allelic-specific manner to execute dosage compensation in mammalian female cells []; COLDAIR is a plant lncRNA induced by cold []; and lincRNA-p21 expression is induced by DNA damage [].Therefore, lncRNAs can serve as signals to regulate gene expression in spatial and temporal manners. Gavin received his PhD from UCSD in Molecular Biology, and finished a postdoctoral fellowship with Bob Kingston at MGH. Outside of the lab, Michael enjoys backpacking in the Sierra Nevada Mountains, spending time at the dog park, and skateboarding. The ones marked * may be different from the article in the profile. CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome. 341(August)(2013)1-9. [Europe PMC free article] [Google Scholar] Engreitz J.M., et al. The Journal of clinical investigation 125 (6), 2532-2546. Before coming to the Engreitz Lab, he was part of the International Trade and Investment practice at Hogan Lovells. Stephanie left the California Mojave Desert to complete her undergraduate degree at UC San Diego, where she studied Biochemistry and Cell Biology. Microfluidic squeezing for intracellular antigen loading in polyclonal B-cells as cellular vaccines. McHugh CA, Chen C, Chow A, Surka CF, Tran C, McDonel P, Pandya-Jones A, Blanco M, Burghard C, Moradian A, Sweredoski MJ, Shishkin AA, Su J, Lander ES, Hess S, Plath K, Guttman M (2015) The Xist lncRNA directly interacts with SHARP to silence transcription through HDAC3. The ones marked. in Biology and Clinical Psychology from Tufts University, where she developed microfluidic tools to study fungal-mediated dispersal facilitation of bacteria. He continues to collaborate with the lab as PhD student in the Stanford Genetics program. The following articles are merged in Scholar. Associate Computational Biologist, 2017-2020Subsequent position: Staff Scientist, Harvard Medical School, Undergraduate Researcher, 2017-2020Subsequent position: PhD Program in Genetics, Stanford University, PhD Student and Postdoctoral Fellow, 2014-2019Subsequent position: Investigator, Bristol-Myers Squibb, Research Associate, 2017-2019Subsequent position: NIH MD/PhD Oxford-Cambridge Scholars Program, University of Wisconsin, Research Associate, 2015-2017Subsequent position: PhD Program in Systems Biology, Harvard Medical School, Research Associate, 2015-2017Subsequent position: PhD Program in Molecular and Cellular Biology, Harvard University. She aspires to develop computational models that describe molecular processes and to further promote new experimental designs. Kaite holds a B.S. Ronghao is a PhD student in the Genetics program, co-mentored by Jesse and Tom Rando. She is particularly interested in dissecting the sequence logic behind enhancers and linking variants to functions and disease mechanisms. Flow cytometry-based enrichment of distinct phenotypic populations was assessed for their gene expression . He is particularly interested in understanding how dynamic interactions between enhancers, transcription factors and target genes orchestrate differentiation and function of complex tissues such as the human heart. Outside of lab, Yannick enjoys playing piano, listening to jazz music, and hanging out with his cat, Sakamoto. His research has been supported by the National Human Genome Research Institute, Foundations for the National Institutes of Health, Harvard Society of Fellows, Fannie and John Hertz Foundation, and Department of Defense. CAS PubMed Google Scholar 13. His current goal is to map enhancer-promoter connections in different cell types and develop genomic tools to dissect the mechanistic details of those interactions. He is particularly interested in linking non-coding risk variants to their underlying functions and disease mechanisms at single-cell resolution. Cell 159(1):188-199. doi: 10.1016/j.cell.2014.08.018 CrossRef PubMed PubMedCentral Google Scholar Jesse M Engreitz, Amy Pandya-jones, Patrick Mcdonel, Alexander Shishkin, Klara Sirokman, Christine Surka, Sabah Kadri, Jeffrey Xing, Alon Goren, Eric S Lander, Kathrin Plath, Mitchell Guttman, The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome, Science (80-.). The fibrous annulus of the mitral valve defines the functional orifice and anchors the anterior and posterior leaflets, playing an important role in normal … Outside of lab, she enjoys exploring the Bay Area. The results . Our team is currently located at Stanford University and at the Broad Institute. [Figure][1] Reaching out. Judhajeet also holds a Master’s and a Bachelor’s degree from University of Calcutta, India. Gene expression is precisely controlled across human cell types to control cellular functions and phenotypes. Jesse M. Engreitz 1 Division of Systems Medicine, Department of Pediatrics, 2 Department of Bioengineering, 3 Lucile Packard Children's Hospital, 4 Biomedical Informatics Training Program, Stanford University School of Medicine, Stanford, CA 94305, USA and 5 Optra Systems Pvt. Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics. We present a high-throughput approach that uses CRISPR interference (CRISPRi) to discover regulatory elements and identify their target genes. Currently, she is studying for her master’s in Computer Science. We analyzed 12 lncRNA loci whose RNA transcripts in mouse embryonic stem cells (mESCs) show preferential localization to the nucleus and span a range of abundance levels (Methods, Extended Data Fig. Ronghao is interested in studying the genetic and epigenetic changes of aging, and hopes to find the potential causes of aging. We assess >1 megabase (Mb) of sequence in the vicinity of 2 essential . 1a, Note S1). Before coming to the Broad Institute to join the Engreitz group, Drew completed an undergraduate degree in Biology and German Literature at Boston University, where he studied lung and thyroid progenitor biology with Laertis Ikonomou and worked on science policy and global health initiatives. She completed her undergraduate studies in Applied Mathematics and Molecular and Cell Biology with Neurobiology emphasis at UC Berkeley. Before coming to the Engreitz Lab, Stephanie was a researcher in Irving Weissman’s lab at Stanford, where she contributed to single-cell RNA-seq projects focused on building the human and mouse cell atlas. Outside the lab, Jesse enjoys playing jazz/rock/funk, testing Chinese recipes, and surfing. Gabriella completed her Ph.D. at the University of New South Wales (UNSW) in Sydney, Australia, under the supervision of Professor Merlin Crossley and Dr. Kate Quinlan. Google Scholar 4. ar-Rushdi A, Nishikura K, Erikson J, Watt R, Rovera G, et al. 2: Figure S2: Cohesin degradation eliminates loop domains and the vast majority of loops, Related to Figure 2 (A) APA scores vs. distance for pairs of convergently oriented CTCF/cohesin-associated loop anchors separated by a given distances. Celina T. Nguyen. Here we present a technology to quantify the level of expression of genes in single cells, which will help to understand how genes are regulated in each cell type in the human body. Drew studies the biochemical specificity between enhancers and promoters and how disease risk variants affect immune cell function in vivo. in Biochemistry from the University of Tokyo. in Evolutionary Biology of the Human Species at Columbia University. Judhajeet is broadly interested in understanding gene regulatory networks in healthy and diseased cells. Klann, T. S. et al. View author publications. Second, we explore how these new perturbation technologies are transforming the study of regulation of and by RNA, focusing on the functions of DNA regulatory elements and long noncoding RNAs (lncRNAs). We demonstrate that this technology improves upon existing tools to enable understanding how DNA . Their, This "Cited by" count includes citations to the following articles in Scholar. Gene regulation is known to play a fundamental role in human disease, but mechanisms of regulation vary greatly across genes. Abstracts: AACR Special Conference on Tumor Immunology and Immunotherapy; October 20-23, 2016; Boston, MA Checkpoint blockade against CTLA-4 or PD-1 has demonstrated … You can also search . SSP Rao, MH Huntley, NC Durand, EK Stamenova, ID Bochkov, . Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA . Outside the lab, Antonio loves to write and consume fiction, play the trombone, and visit beaches. You can also search for this author in PubMed Google Scholar. You can also search for this author in PubMed Google Scholar. Content. Sus correspondientes, La lista denominada Citados por incluye las citas a los siguientes artÃculos de Google Académico. His work in the Xue lab involved utilizing the C. elegans model to investigate genes involved in mitochondrial stress response and disease, as well as understand the molecular effects of radiotherapy. CJ Ye, J Chen … Genome-wide association studies (GWAS) are a valuable tool for understanding the biology of complex traits, but the associations found rarely point directly to causal genes. P Natarajan, GM Peloso, SM Zekavat, M Montasser, A Ganna, M Chaffin, ... Nuevos artÃculos relacionados con la investigación de este autor, The Xist lncRNA exploits three-dimensional genome architecture to spread across the X chromosome, The Lin28/let-7 axis regulates glucose metabolism, Local regulation of gene expression by lncRNA promoters, transcription and splicing, Transcriptome-wide mapping reveals widespread dynamic-regulated pseudouridylation of ncRNA and mRNA, Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre, Long non-coding RNAs: spatial amplifiers that control nuclear structure and gene expression, RNA-RNA interactions enable specific targeting of noncoding RNAs to nascent Pre-mRNAs and chromatin sites, Systematic mapping of functional enhancerâpromoter connections with CRISPR interference, Eradication of large established tumors in mice by combination immunotherapy that engages innate and adaptive immune responses, Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood, A genetic variant associated with five vascular diseases is a distal regulator of endothelin-1 gene expression, Recurrent and functional regulatory mutations in breast cancer, Activity-by-contact model of enhancerâpromoter regulation from thousands of CRISPR perturbations, Ribosome levels selectively regulate translation and lineage commitment in human hematopoiesis, The NORAD lncRNA assembles a topoisomerase complex critical for genome stability, Independent component analysis: mining microarray data for fundamental human gene expression modules, Systematic dissection of genomic features determining transcription factor binding and enhancer function, Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease, Deep-coverage whole genome sequences and blood lipids among 16,324 individuals. Here, we introduce a new method to identify the causal genes by integrating GWAS summary statistics with gene expression, biological pathway, and predicted protein-protein interaction data. J.O.M was supported by the Richard and Susan Smith Family Foundation, the HHMI Damon Runyon Cancer Research Foundation Fellowship (DRG-2274-16), the AGA Research … Broad . Jesse M. Engreitz. Dulguun aims to understand how enhancer-gene connections rewire across cell types, cell states, and dynamic cellular trajectories. Antonio is an undergraduate majoring in Bioengineering at Stanford University and aspires to attain a Ph.D. in a genomics-related field. Currently, only patients with HER2-positive tumors are candidates for HER2-targeted therapies. El sistema no puede realizar la operación en estos momentos. Inténtalo de nuevo más tarde. (Lower) Heatmaps show the position of 10,000 motif sites in NDRs. 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