Single cell stanford

Learning more about single-cell wound repair In an effort to understand how single cells heal, mechanical engineer Sindy Tang developed a microscopic guillotine that efficiently cuts cells in two. eduThe articles below are intended for viewing by the Stanford Community and Scientists or those who otherwise have legitimate access to them. C. . Berkeley Spin-out for Single Cell Analysis. Researchers from William Greenleaf's laboratory (Stanford University) have collaborated with TBUSA to develop a high-throughput single-cell ATAC-seq (assay for transposition of accessible chromatin) method on the SMARTer ICELL8 Single-Cell System. Craig Venter Institute have developed the first software simulation of an entire organism, a humble single-cell bacterium that On-Chip Separation and Analysis of RNA and DNA from Single Cells Hirofumi Shintaku,†,∥ Hidekazu Nishikii,‡ Lewis A. Signaling systems can now be analyzed directly by Mass Cytometry, conventional flow cytometry, and Fluorescence Activated Cell Sorting. NEW YORK (GenomeWeb) – In a study appearing online this week in the Proceedings of the National Academy of Sciences, Stanford University researcher Stephen Quake and colleagues presented results from a single-cell transcriptome sequencing study of human brain cells. Mosher Professor of Chemistry and Professor by courtesy of Applied Physics, has conducted research in physical chemistry, biophysics, and the optical properties of single molecules, and is actively involved in the development of 2D and 3D super-resolution imaging for cell …Signet ring cell type. [1] These data have T  he Giocomo Lab integrates electrophysiology, behavior, imaging, gene manipulations, optogenetics and computational modeling to study how single-cell biophysics and network dynamics interact to mediate spatial memory and navigationSTATUS OF HIGH POWER TESTS OF NORMAL CONDUCTING SINGLE-CELL STRUCTURES Y. Hence, MagDense is currently the only platform that can measure densities of single cells while performing label-free monitoring of single cells and heterogeneous cell pop-We have developed a series of methods for following multiple phosphoproteins in complex populations of primary cells. Stanford researchers develop a single-cell genomics technique to reverse engineer the developing lung How do embryos form the cells in our lungs, muscles, nerves and other tissues? A new process decodes the genetic instructions that enable the all-purpose cells of the embryo to multiply and transform into the many specialized cell types in the These Stentor cells were once a single cell. Single cell omics is a new frontier in biology where genome-wide data is captured at the resolution of individual cells. Nancy Allbritton (University of North Carolina) The NIH Common Fund held a Single Cell Analysis meeting on April 17-18, 2012 in Bethesda, MD. This treatment Now, in a feat of reverse tissue engineering, Stanford researchers have begun to Using the new technique of single-cell genomic analysis, they recorded what Clark Center E300. There are pre-built codesets available as well as custom codesets. CCSB. Although single cell RNA sequencing has emerged as a powerful technique for characterizing cellular heterogeneity, it is currently impractical for large sample cohorts and cannot be applied to fixed specimens collected as part of routine clinical care. Using microfluidics technology, we encapsulate radioactive single cells and radiofluorogenic sensors (which become fluorescent upon exposure to ionizing radiation) inside microdroplets. Stanford, California 94305. The team did single-cell …Lacra Bintu is an Assistant Professor in the Bioengineering Department at Stanford. nature. This method is enabling researchers to more deeply …W. 00. These tools allow us to identify Results 41 - 50 of 230 Carol Conrad. E. In particular, Mass Cytometry Time-of-Flight (CyTOF) is a high-throughput single-cell technology that enables the simultaneous measurements of multiple ([Formula: see text]40) intracellular and surface markers at the level of single cells for hundreds of thousands of cells in a sample. Ethics of Stem Cell Research First published Fri Apr 25, 2008; substantive revision Mon Jan 28, 2013 Human embryonic stem cell (HESC) research offers much hope for alleviating the human suffering brought on by the ravages of disease and injury. edu Lab: (650) 721-1031 Interests: Precision Medicine, Intratumor Heterogeneity, Treatment Resistance, Single-cell RNA Sequencing, Organoid ModelsImagine what you might be able to do if you had a minuscule, color-coded construction kit composed of single cells you could stitch together any way you wanted to. This day-long event will bring to Penn a group of distinguished investigators who are on the forefront of single cell discovery. Finally, Dr. wcombes@stanford. The cell's solution to this challenge is the hierarchical folding of genomic DNA into regulated structures, the most basic and important of which is the nucleosome. 18 We have used this technology to construct a device fromImmunoglobulin E (IgE) antibodies play a central role in immune responses against helminth and protozoan parasites; however, they also contribute to allergies. IgE antibodies (and the B cells generating them) are rare and thus poorly characterized. CellTrails is an unsupervised algorithm for the de novo chronological ordering, visualization and analysis of single-cell expression data. Current Research and Scholarly Interests I am interested in optimizing the process Apr 26, 2018 Diverse chromatin marks in single cells are measured by 1Institute for Immunity, Transplantation, and Infection, Stanford University School of Jun 21, 2018 The capabilities of STARmap were tested by mapping 160 to 1,020 genes simultaneously in sections of mouse brain at single-cell resolution Dear Colleagues, Daniel Chiu and I are pleased to invite you to take part in the “Frontiers of Single Cell Analysis” conference, which will be held at Stanford on September 5-7, 2013. a background in bioengineering to work on an exciting new Chan-Zuckerberg Initiative/Biohub funded project focused on single cell s. Single-Cell Analysis with NanoSIMS In the Dekas Lab, we specialize in measuring the activity of bacteria and archaea on the single-cell level using nanoscale secondary ion …The Chromium Single Cell ATAC Solution also includes intuitive software analysis and visualization tools for a refined analysis of gene regulatory networks in single cells. Stanford, CA 94305are required in order to harness the power of single-cell data. ME 2001. Tantawi, SLAC, Menlo Park, CA 94025, USA Abstract We report the results of ongoing high power tests of single-cell standing wave structures. psb. edu phone: (650) 723-5627 fax: (650) 725-1822 348 Via Pueblo Mall, Stanford, CA 94305 Stanford Affiliate PolicyProject 2: Single Cell High Parameter Network Analysis by Phospho-Flow and Mass Tags. Click the PDF link to view or download a PDF version of the paper. 2 days ago · The result: something of an extraordinarily powerful magnifying glass. Confluent sheets of cells indicates poorly differentiated carcinoma type, see below; Discohesive single file or single cell infiltrationThe platform allows real-time monitoring of single-cell densities and cellular responses under different stimuli (environmental stressor or drug treatment). His group at Stanford pioneered techniques in phospho-flow cytometry, a breakthrough highly-used method. Collaborations with: The Joint Initiative for Metrology in Biology (JIMB) at Stanford Michael Snyder's group at Stanford Med school We have developed a precise method and microfluidic chip to handle and then automatically fractionate the nucleus versus cytoplasmic nucleic acids (cyt-NA) from single cells. stanford. Professor, Bioengineering Department, University of California at Berkeley. Nanostring for Single Cell Analysis The Nanostring nCounter is a unique, highly-automated system for quantifying large numbers of targets in complex samples without or minimal amplification. edu · Campus Map · Internal Login · Stanford University. Learning more about single-cell wound repair Single Cell Biology (L1) Scientific Organizers: Timm Schroeder and Berthold Göttgens January 13—17, 2019 Beaver Run Resort, Breckenridge, Colorado, USA Sponsored by 10x Genomics, Bayer AG, BioLegend, Inc. 16. Single cell profiles with the following features were deemed to be of poor quality Over the last few years, high-speed imaging has been shown highly effective for single-cell analysis – the study of individual biological cells among populations for identifying cell-to-cell differences and elucidating cellular heterogeneity invisible to population-averaged measurements. The work could lead to a test to predict who is at risk and/or develop treatments. That cell was cut in half by the microfluidic guillotine developed by Sindy Tang, assistant professor of mechanical engineering at Stanford, and her lab. performed single-cell RNA sequencing of peripheral blood B cells from patients with peanut allergies and delineated each cell's gene Nanostring for Single Cell Analysis The Nanostring nCounter is a unique, highly-automated system for quantifying large numbers of targets in complex samples without or minimal amplification. 2017 May;14(5):479-482. Each TCR is a heterodimer, and both [alpha]- and [beta]-chains contribute to determining TCR antigen specificity. performed single-cell RNA sequencing of peripheral blood B cells from patients with peanut allergies and delineated each cell's gene 2012 Single Cell Analysis Workshop Where: Hyatt Regency, Bethesda MD When: April 17-18, 2012. Jul 23, 2015 · Single-cell chromatin accessibility reveals principles of regulatory variation. Attack by engrafted hematopoietic cells and their progeny on host gastrointestinal tissues in first 100 days post-transplant Diagnostic CriteriaHome » Research » Nano-Bio. Single-Cell Study Finds Chromatin Epigenetic Variability Rises with Age. Modules of the course will be taught by scientists with expertise in distinct areas of single cell analysis. Center for Cancer Systems Biology We have assembled a multidisciplinary team whose coordinated efforts will involve the application of genomic and single-cell in-situ imaging technologies on preclinical and human samples to explore the evidence and mechanisms of the The Bruker D8 Venture is a single-crystal X-ray diffractometer. IMMUNOL 310. Nolan introduced assays based on single-cell mass spectrometry (CyTOF) to simultaneously measure 45-100 markers per cell. We apply a range of single-cell tools including single cell RNA-seq, CyTOF, and long term live cell lineage tracing. G. Selected relevant publications (Stanford DRC Members in BOLD): Enge M, Arda HE, Mignardi M, Beausang J, Bottino R, Kim SK, Quake SR. 86M in U. Daniel took on the complex challenge of finding an unsupervised computational method to order the single cells along a trajectory that reflects hair bundle maturation and undertook a “tour-de-force” of developing a set of algorithms and their practical realization (CellTrails). Higashi, T. Characterization of novel transcripts in pluripotent stem cells using mRNA reprogramming in combination with single-cell gene expression analysis Stanford Photonics Research Center photonics@stanford. Single cell high-throughput technologies are being developed in the areas of imaging, mass spectrometry and DNA- and RNA-sequencing, and combinations thereof. eLife, 7, e35449 (2018). June 26, 2017 Stanford scientists create a cellular guillotine for studying single-cell wound repair. — Scientists at Stanford University and the J. Clinical Associate Professor, Pathology. May 19, 2015 By sequencing RNA transcripts in hundreds of individual cells from adult and fetal brains, researchers are defining new brain cell features and Jun 21, 2018 Three-dimensional intact-tissue sequencing of single-cell (1)Department of Bioengineering, Stanford University, Stanford, CA 94305, USA. The Department of Biochemistry explores diverse research questions using a wide variety of approaches, experimental systems, and techniques. Projects : Single cell analysis of transcriptional networks implicated in hematopoiesis Algorithms for unsupervised mapping of cell populations from mass cytometry data; Single-cell profiling of …Most cell identity dissection studies are based on bulk molecular assays that mask differences in individual cells. He measures protein expression in thousands of single cells in a single run so you can profile heterogeneity in your samples. Single-nucleotide-resolution sequencing of human N6-methyldeoxyadenosine reveals strand-asymmetric clusters associated with SSBP1 on the mitochondrial genome. Marshall,§ Hidetoshi Kotera,∥ and Juan G. Cutting Edge Technology at the Stanford University School of Medicine. eduIts Namo Single Cell Dispenser provides a simple and user-friendly platform to sort and capture each individual cell. scATAC-seq measures chromatin accessibility genome-wide within individual cells; the results uncover the relationship between cell-to-cell variation associated with specific trans-factors and cis-elements, including insights into the relationship between chromatin accessibility and three-dimensional organization. Tissue composition is a major determinant of phenotypic variation and a key factor influencing disease outcomes. Sep 10, 2014 · Stanford StartX & Mission Bay Capital Invest $1. Submitted by admin on Fri, 01/16/2015 - 15:39. Call for details or if …Transcript counts were normalized into log transformed counts per million (CPM), by applying the formula log2(c ij ∗ 1 000 000 / tc j + 1, where c ij is the transcript counts for gene i in cell j, and tc j is the total number of transcript counts for cell j. Courses offered by the Immunology Program are listed under the subject code IMMUNOL on the Stanford Bulletin's ExploreCourses web site. This session is dedicated to computational methods for single-cell analysis in various biological domains, modelling of population heterogeneity, as well as translational applications of single cell data. Digital Cytometry. To see the entire repertoire of genes expressed in these cells, the Stanford team used a method pioneered by Quake that enables researchers to sequence all the messenger RNA in a cell. This work enables studies in the field of development and, for the first time, aging at the single-cell resolution using automated annotation approaches in the adult worm. Jeffrey and her team at Stanford on their cutting-edge CTC research. Infiltrating signet ring cell carcinoma is present with at least one of the following features Goblet cells / signet ring cells in irregular large clusters. Her lab performs single-cell measurements of chromatin and gene regulation dynamics, and uses these data to develop predictive models of basic biological processes and improve mammalian cell engineering. Stanford researchers are the first to demonstrate that sophisticated light resonators can be inserted inside living cells without damage to the cell. Title: Linking T-cell receptor sequence to Although each T lymphocyte expresses a T-cell receptor (TCR) that recognizes cognate antigen and controls T-cell activation, different T cells bearing the same TCR can be functionally distinct. Stanford scientists create a cellular guillotine for studying single-cell wound repair Photo by L. Dr. Mirko profiled >1,000 cells. submitted. This includes integrative “multiomics” analysis across genomics, proteomics, and single-cell technologies, as well as quantitative clinical phenotyping, to produce a holistic understanding of immunity. This helps ensure that the sensors are uniquely associated with a single cell. The Chromium Single Cell ATAC Solution can be used to study developmental plasticity, cellular heterogeneity, and beyond. A. By studying one cell at a time, the results are certain to stem from that particular cell. elegans researchers with a powerful toolkit for performing single-cell gene expression analysis of worms. Navigation menu. edu phone: (650) 723-5627 fax: (650) 725-1822 348 Via Pueblo Mall, Stanford, CA 94305 Stanford Affiliate PolicySince my move to Stanford University in 2008, My recent work has emphasized studying host antiviral responses at the population and single cell level using several new technologies including microfluidics qRT-PCR on the fluidigm platform and mass cytometry analysis using CyTOF (mass cytometry by time of flight). htmlThe Gephart Brain Tumor Research Lab currently studies the capacity of cellular and cell-free nucleic acids to inform treatment choices in patients with brain tumors, and single-cell transcriptomics to target migrating glioblastoma. Together, these methods provide C. Nature Methods. SAN FRANCISCO (GenomeWeb) – A research team from Stanford University has developed an in situ RNA sequencing technology that can be used to study gene expression while maintaining 3D spatial information at single-cell resolution. Stanford Biochemistry postdoc, Assistant Prof CMU 9/16 Chelsey Simmons: Dynamic Cell Culture for Stimulation and Assessment of Cardiovascular Cells Defended January 25, 2013 signatures May 2013: Dept. In the eggs, cell death occurred with constant and steady progress, indicating that trigger waves propagate the process. KHATRI LAB THE. An exciting approach to treatment of childhood cancer is the use of autologous T-cells engineered to recognize tumor-associated antigens. Single cell mass cytometry for identification of rare cancer cell subtypes: an interview with Wendy Fantl & Veronica Gonzalez 10 Apr 2018 Cancer Research We spoke to Stanford University’s Wendy Fantl and Veronica Gonzalez about their novel use of mass cytometry (CyTOF) to identify never-before-seen cell subtypes in high-grade serous ovarian http://www. Leveraging Heterogeneity to Accelerate Translational Medicine. Authoritative and thorough, Single Cell Protein Analysis: Methods and Protocols is useful to researchers and students in biological and biomedical sciences who have an interest in proteomic measurements in cells. We have developed a series of methods for following multiple phosphoproteins in complex populations of primary cells. Stanford, CA 94305, USA. 2015. We are developing molecular approaches to rejuvenate cells to combat aging We are developing ways to extend telomeres transiently and safely to augment cell proliferative capacity and treat disease We use interdisciplinary approaches — biomaterials, imaging, single cell proteomics, genomics and trackingDefinition. Immunoglobulin E (IgE) antibodies play a central role in immune responses against helminth and protozoan parasites; however, they also contribute to allergies. Analysis of single cell data has shed light on various different cellular processes. Dan's former student Ovijit Chaudhuri has recently joined the Stanford ME Self-assembling manifolds in single-cell RNA sequencing data. As part of this research, I DeActs: genetically encoded tools for perturbing the actin cytoskeleton in single cells. INTRODUCTION A. Santiago*,† †Department of Mechanical Engineering, ‡Divisions of Blood and Marrow Transplantation, and §Department of Chemical Engineering, Stanford University, Stanford, California 94305, United StatesIn an effort to understand how single cells heal, mechanical engineer Sindy Tang developed a microscopic guillotine that efficiently cuts cells in two. The team did single-cell …Single-Cell Analysis with NanoSIMS In the Dekas Lab, we specialize in measuring the activity of bacteria and archaea on the single-cell level using nanoscale secondary ion …NEW YORK (GenomeWeb) – In a study appearing online this week in the Proceedings of the National Academy of Sciences, Stanford University researcher Stephen Quake and colleagues presented results from a single-cell transcriptome sequencing study of human brain cells. Stem cell heterogeneity drives the parasitic life cycle of Schistosoma mansoni. The Penn Program in Single Cell Biology and ITMAT are hosting the University of Pennsylvania’s fifth Single Cell Biology Symposium on November 13, 2018. 2 days ago · The result: something of an extraordinarily powerful magnifying glass. October 15, 2013. Open Postdoctoral Positions . Jul 21, 2012 · STANFORD, Calif. Trio RNA- Illumina Sequencing (Stanford Internal Pricing) We apply a range of single-cell tools including single cell RNA-seq, CyTOF, and long term live cell lineage tracing. To probe cell-to-cell variability in a population, we discuss single cell approaches to decode the genetic, epigenetic, transcriptional, and translational mechanisms for cell identity formation. Pacific Symposium on Biocomputing 2017 557A high-throughput single-cell ATAC-seq method developed by Stanford University now available on the SMARTer™ ICELL8® Single-Cell System from Takara Bio USA, Inc. Our D8 Venture is equipped with two micro focus X-ray sources (Mo and Cu radiation), allowing very small crystals to be measured. The Aghaeepour lab uses machine learning to study the immune system in clinical settings. Stanford Researchers Use Single-Cell Mass Cytometry to Predict Recovery Time from Surgery Fluidigm’s CyTOF ® Mass Cytometry Instrument Unlocks Responses in Immune Cell Subsets September 25 http://www. Gary Nolan (Stanford University) and Dr. (William Esco) Moerner, the Harry S. Stephen Quake's interests lie at the nexus of physics, biology, and biotechnology. ” said Dr. Just load your cell suspension and the scWest chip captures ~1,000 single-cells. Koh CWQ, Goh YT, Toh JDW, Neo SO, Ng SB, Gunaratne J, Gao YG, Quake SR, Burkholder WF, Goh WSS. The cell faces a spectacular topological challenge in packing meters of chromosomal DNA inside a ~5 micron nucleus. Nextera DNA Flex, $125. are required in order to harness the power of single-cell data. Wang B*, Lee J, Li P, Saberi A, Yang H, Liu C, Zhao M, Newmark PA*. Cicero: Researchers, led by Sindy Tang, assistant professor of mechanical engineering at Stanford, have created a new tool for cutting cells, called a microfluidic guillotine. nih Le Cong is part of Stanford Profiles, official site for faculty, postdocs, students and staff information (Expertise, Bio, Research, Publications, and more). It's a microscope that can image its immediate surroundings, like a swath of skin, in extreme detail — down to a single cell— and the technique can even be used to answer specific questions about a cell's molecular makeup. Together with DVS Sciences, Dr. We are Stanford Medicine Center for Cancer Systems Biology Site Nav. Areas of interest include genomic diagnostics, systems biology, microbial ecology, and single cell genomics. Then they used single-cell genomic sequencing to measure which genes were active in each cell at each time. The single cell sequencing technologies developed by Quake and his collaborators have become widely used and are the basis of international efforts to develop a The Human Cell Atlas is a global, open, and collaborative scientific community committed to the principles of diversity, inclusion, and equity. Stanford University School of Medicine, Stanford, California 94305, USA [2] Program in Epithelial Biology and the Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California 94305, Single Cell Biology (L1) Scientific Organizers: Timm Schroeder and Berthold Göttgens January 13—17, 2019 Beaver Run Resort, Breckenridge, Colorado, USA Sponsored by 10x Genomics, Bayer AG, BioLegend, Inc. D. Stanford Immunology is home to faculty, students, postdocs, and staff who work together to produce internationally recognized research in …Over the last few years, high-speed imaging has been shown highly effective for single-cell analysis – the study of individual biological cells among populations for identifying cell-to-cell differences and elucidating cellular heterogeneity invisible to population-averaged measurements. The South San Francisco-based company Jul 21, 2012 · STANFORD, Calif. Although each T lymphocyte expresses a T-cell receptor (TCR) that recognizes cognate antigen and controls T-cell activation, different T cells bearing the same TCR can be functionally distinct. His research is concerned with developing new approaches to biological measurement and applying these approaches to problems of both fundamental and medical interest. the Lee Otterson Professor in the School of Engineering and a Howard Hughes Medical Institute investigator. com/nrg/journal/v17/n3/full/nrg. Link to the story. These tools allow us to identify Apr 26, 2018 Diverse chromatin marks in single cells are measured by 1Institute for Immunity, Transplantation, and Infection, Stanford University School of Single-Cell RNA-Seq Following single-cell capture and conversion of mRNA into cDNA on the Fluidigm C1 Single-Cell AutoPrep System, RNA sequencing Jun 21, 2018 The capabilities of STARmap were tested by mapping 160 to 1,020 genes simultaneously in sections of mouse brain at single-cell resolution Jul 9, 2018 The paper is "the first that shows that you can define cell types and activities and cell states with single-cell resolution in the brain," he added. Santiago*,† †Department of Mechanical Engineering, ‡Divisions of Blood and Marrow Transplantation, and §Department of Chemical Engineering, Stanford University, Stanford, California 94305, United Statesmultipotent progenitor cells, the cell-cell heterogeneity is found to be connected with cell-fate decisions (4). We are employing a broad combination of genomic, genetic, biochemical, biophysical, single-cell and embryological approaches in a number of cellular and organismal models to investigate functions of the non-coding parts of the genome, understand regulatory mechanisms underlying cellular plasticity and differentiation, investigate how In the field of cellular biology, single-cell analysis refers to the study of individual cells isolated from tissues in multi-cellular organisms. But Vivek, an assistant professor of medicine at Stanford, is changing that and speaking out on behalf of his profession. For more information, please visit https://commonfund. Call for details or if you wish to be placed on a waitlist for the meeting. Successful development of single-cell biology owes much to the progress in measurement science. Tarashansky AJ, Xue Y , Quake SR, Wang B. Stanford team develops technique to magnetically levitate single cells Researchers at the Stanford University School of Medicine have discovered that when a certain aggressive leukemia is Ph. htmlThe Human Immune Monitoring Center (HIMC) HIMC provides standardized, state-of-the-art immune monitoring assays at the RNA, protein, and cellular level, as well as archiving, reporting, and data mining support for clinical and translational studies. “We are excited to collaborate with Dr. Background Emerging single cell technologies have provided rich, high dimensional datasets. Stanford, CA 94305. To date, more than 1,000 researchers from 584 institutes in 55 countries have registered to be part of our effort. Ultimately, our group seeks to advance the development of a minimally invasive liquid biopsy and to improve the understanding and treatment of malignant brain tumors. Single cell analysis by isotachophoresis Crystal Mijung Han and Juan G. These examples clearly show the importance of cellular individuality. and Cell Research Meeting is full. edu CS 229 Final Project I. Higo KEK, Tsukuba, Ibaraki 305, Japan V. Santiago . Dan Fletcher joined the UC Berkeley faculty in 2002. EpiTOF – single-cell epigenome profiling In collaboration with the Utz lab , we have developed a technology for measuring epigenetic profiles at a single-cell level, called Epigenetic profiling using Cytometry Time of Flight (EpiTOF). and dendritic cells. scATAC-seq measures chromatin accessibility genome-wide within individual cells; the results uncover the relationship between cell-to-cell variation associated with specific trans-factors and cis-elements, including insights into the relationship between chromatin …#1 SINGLE-CELL TRANSCRIPT ANALYSIS WITHOUT PRE-AMP USING HIGH PRECISION, ULTRA-SENSITIVE DROPLET DIGITAL PCR (ddPCRTM) George Karlin-Neumann, Shenglong Wang, Yann Jouvenot and Eli Hefner Digital Biology Center/Bio-Rad Laboratories, 5731 …Stanford researchers develop a single-cell genomics technique to reverse engineer the developing lung. Dolgashev,S. The Human Immune Monitoring Center (HIMC) HIMC provides standardized, state-of-the-art immune monitoring assays at the RNA, protein, and cellular level, as well as archiving, reporting, and data mining support for clinical and translational studies. The Single Cell Analysis Program (SCAP) has transitioned from Common Fund support in 2017. Stanford University School of Medicine, Dept of Neurology and Neurological Sciences, Stanford, CA 94305, USA. The goal of this two-week course is to familiarize students with cutting-edge technologies for characterization of single cells. These tests are partThe Fluidigm® single-cell gene expression workflow combines our innovative C1 system with the Biomark™ HD system to illuminate differences, enabling you to profile up to 96 single cells for the expression of up to 96 genes in just a few hours using standard reagents and easy-to-use single-cell analysis …Over the last few years, high-speed imaging has been shown highly effective for single-cell analysis – the study of individual biological cells among populations for identifying cell-to-cell differences and elucidating cellular heterogeneity invisible to population-averaged measurements. Croote et al. Junyu Lin, CEO of Namocell. Covert Lab. Phone: 650-721-2195. And he’s very excited about what single cell sequencing has done for the study of …many control elements into a single device, a variety of applications has been realized using multilayer soft lithography technology, including, cytometry,14 PCR,15 cell microarrays,16 flow injection analysis,17 and protein crystallography. His laboratory studies the mechanics and dynamics of cell movements on the purified protein, single cell, and tissue levels. Fluorescent reporter probe sets, called CodeSets, are designed to target up to 800 different nucleic acid targets. Now, in a feat of reverse tissue engineering, Stanford researchers have begun to Using the new technique of single-cell genomic analysis, they recorded what 10X Chromium Single Cell Immune Profiling Solution (VDJ), $2,600. 8:30 Single Cell Analysis of Smooth Muscle Cell Phenotypic Modulation in vivo Reveals a Critical Role for Coronary Disease Gene TCF21 in Mice and Humans Robert Wirka, MD, Instructor, Department of Medicine, Stanford UniversityThe articles below are intended for viewing by the Stanford Community and Scientists or those who otherwise have legitimate access to them. Widely Prescribed Statin Could Help Organ-Transplant Patients. an array of new biomedical applications that range from novel medical diagnostic and therapeutic tools that operate at single cell level to a novel class of autonomously operating intrabody nanobiosensors. 2012 Single Cell Analysis Workshop Where: Hyatt Regency, Bethesda MD When: April 17-18, 2012. Stanford Bio-X affiliated faculty members Olivia Martinez and Mark Davis have joined forces to learn how immune cells in some kidney transplant patients fight a common virus. In an effort to understand how single cells heal, mechanical engineer Sindy Tang developed a Funded Research. It's a microscope that can image its immediate surroundings, like a swath of skin, in extreme detail — down to a single cell— and the technique can even be used to answer specific questions about a cell's …Cancer, autoimmunity, and the molecular manners in which single cells can be distinguished from normal human tissues, and their biology understood thereby, are prominent in our studies We use multiparametric single-cell analysis to study hematopoiesis, cancer and leukemia, autoimmunity and The Bintu lab at Stanford University uses systems and synthetic biology approaches to characterize the dynamics of gene and chromatin regulation in mammalian cells. To gain a deeper molecular understanding of the dysfunctional T cell state, we analyzed population and single-cell RNA profiles of CD8(+) tumor-infiltrating lymphocytes (TILs) and used genetic perturbations to identify a distinct gene module for T cell dysfunction that can be uncoupled from T cell activation. The Chromium Single Cell ATAC Solution also includes intuitive software analysis and visualization tools for a refined analysis of gene regulatory networks in single cells. Up to 34 simultaneous parameters can be followed in single cells including multiple kinases, phosphoproteins, cell cycle, and other parameters allow for exacting resolution of cellular activation states. 318 Campus Drive. Exceptionally Innovative Tools and Technologies for Single Cell Analysis (R21) RFA-RM-11-014: PI Name Institution Name Title; COVERT, MARKUS W: STANFORD UNIVERSITY: New methods for monitoring the immune system, in individual cells and in vivo: DENISENKO, OLEG N: UNIVERSITY OF WASHINGTON: Single cell analysis of chromatin changes at individual Projects : Single cell analysis of transcriptional networks implicated in hematopoiesis Algorithms for unsupervised mapping of cell populations from mass cytometry data; Single-cell profiling of ovarian cancer Dear Colleagues, Daniel Chiu and I are pleased to invite you to take part in the “Frontiers of Single Cell Analysis” conference, which will be held at Stanford on September 5-7, 2013. Co-chairs: Dr. 18,19 Although informative, these studies have provided global views of TLR signaling and cytokine production in specific immune cell subsets but not within the context of an integrated cellular immune system with single-cell resolution. 2 days ago · Mission Bio, a startup that’s developed a single-cell sequencing platform, announced Thursday that it’s raised $30 million in a Series B funding round. comparing single-cell cDNA libraries sequenced at various depths [MiSeq (~105 reads per cell) and HiSeq (~10 7 reads per cell)], we discovered that many key gene expression signatures can still be identified in single cells even at extremely low depth (~10 5 reads per cell). Harterink M, da Silva ME, Will L, Turan J, Ibrahim A, Lang AE, van Battum EY, Pasterkamp RJ, Kapitein LC, Kudryashov D, Barres BA, Hoogenraad CC, Zuchero JB. The site facilitates research and collaboration in academic endeavors. Results 1 - 10 of 231 Susan Atwater. Quake’s single cell RNA-profiling methods have been widely adopted by collaborating investigators in the SDRC (listed below) and others at Stanford, and in collaborations worldwide. of Mechanical Engineering, University of Florida Gadryn Higgs: Microsystems for Studying Single Heart Cell Mecahnobiology Defended May, 28, 2013He and the lead author, postdoctoral scholar Xianrui Cheng, PhD, used Xenopus frog eggs, which are giant single cells, to observe how death spreads through a cell. Single cell analysis is a natural step in the reductionist approach to studying organisms. Computational and Systems Immunology Seminar Series Utilizing single-cell transcriptomics to elucidate T cell diversity and function in cancer and autoimmunity June 26 at 4:30 - 5:20 PM in Stanford LKSC Room 130 Leeat Keren, Stanford University A structured Tumor-Immune Microenvironment in Triple Negative Breast Breast Cancer asathe@stanford. Click the PDF link to view or download a …psb. Computational and Systems Immunology Seminar Series Utilizing single-cell transcriptomics to elucidate T cell diversity and function in cancer and autoimmunity June 26 at 4:30 - 5:20 PM in Stanford LKSC Room 130 Leeat Keren, Stanford University A structured Tumor-Immune Microenvironment in Triple Negative Breast Breast Cancer Focus is on becoming familiar with the computational and single-cell experimental approaches that are needed to identify, probe, and dissect the dynamic decision to differentiate or de-differentiate in different cell systems including stem cells, adipocytes, neurons, pancreatic beta cells, cardiomyocytes, and hematopoietic cells. “Much of the single cell market has been focused on …The creation of a "whole-cell" model that explicitly encodes all of the known information about each gene and molecule into account to predict cell behaviors was called the "ultimate goal of systems biology", and "a grand challenge for the 21st century. Its main use is to determine crystal structures, but it can also be used to measure powder diffraction patterns and make grazing incidence measurements. Cells, such as muscle cells, are regularly wounded in physiological conditions. " all inside of the same single cell. (source: Nielsen Book Data) 9781493929863 20160619We compared early antiviral innate immunity to homologous murine rotavirus (RV) in bulk intestinal tissues, fractionated intestinal cell types, and single absorptive villous intestinal epithelial cells (IECs) derived from the site of RV replication during acute infection. Stanford bioengineer Ingmar Riedel-Kruse , PhD, and his postdoc David Glass , PhD, have developed a set of tiny, synthetic molecular connectors that can be genetically engineered NEW YORK (GenomeWeb) – In a study appearing online this week in the Proceedings of the National Academy of Sciences, Stanford University researcher Stephen Quake and colleagues presented results from a single-cell transcriptome sequencing study of human brain cells. Associate Professor of Pediatrics (Pulmonary Medicine) at Lucile Salter Packard Children's Hospital. Home; About this site; List of Publications; Service Center Rules of Engagement Linking T-cell receptor sequence to functional phenotype at the single-cell level . To achieve a systems-level perspective of …Milo™ is the world's first Single-Cell Western platform. Single cell analysis is a rapidly evolving field with applications in cancer, PGD, immune response, and others. Through extensive cross-fertilization, faculty, students and postdoctoral fellows alike are aware of everyone’s research and are bonded by a central interest in understanding fundamental biological questions at the level of how molecules act and Data from Single-Cell Mass Cytometry Yishun Dong, Diana Wan Email: fydong2, jdwang@ stanford. Single-cell studies Wound healing and regeneration are essential biological processes for maintaining homeostasis and, ultimately, for survival. The development marks a new age in which tiny Department of Otolaryngology – Head & Neck Surgery, and Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA. Matches in:  of both fundamental and medical interest