A5100401279- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- Single-cell and spatial transcriptomics
- COVID-19 epidemiological studies
- Plant Virus Research Studies
- Genomics and Chromatin Dynamics
- SARS-CoV-2 and COVID-19 Research
- Viral Infections and Immunology Research
- Genomics and Phylogenetic Studies
- Pluripotent Stem Cells Research
- Animal Virus Infections Studies
- Viral Infections and Vectors
- Advanced biosensing and bioanalysis techniques
- COVID-19 and Mental Health
- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- RNA regulation and disease
- RNA modifications and cancer
- Viral Infections and Outbreaks Research
- Neuroinflammation and Neurodegeneration Mechanisms
- COVID-19 Digital Contact Tracing
- MicroRNA in disease regulation
- Protein Degradation and Inhibitors
- Gene Regulatory Network Analysis
- SARS-CoV-2 detection and testing
Broad Institute
2016-2025
McGovern Institute for Brain Research
2014-2025
Massachusetts Institute of Technology
2014-2025
Howard Hughes Medical Institute
2019-2025
First Affiliated Hospital of GuangXi Medical University
2024
Guangxi Medical University
2024
IIT@MIT
2022-2023
Moscow Institute of Thermal Technology
2023
Anhui University
2020-2023
The University of Texas Health Science Center at Houston
2021-2022
Single-cell RNA sequencing (RNA-Seq) provides rich information about cell types and states. However, it is difficult to capture rare dynamic processes, such as adult neurogenesis, because isolation of neurons from tissue challenging markers for each phase are limited. Here, we develop Div-Seq, which combines scalable single-nucleus RNA-Seq (sNuc-Seq) with pulse labeling proliferating cells by 5-ethynyl-2'-deoxyuridine (EdU) profile individual dividing cells. sNuc-Seq Div-Seq can sensitively...
The noncoding genome affects gene regulation and disease, yet we lack tools for rapid identification manipulation of elements. We developed a CRISPR screen using ~18,000 single guide RNAs targeting >700 kilobases surrounding the genes NF1, NF2, CUL3, which are involved in BRAF inhibitor resistance melanoma. find that locations modulate drug also harbor predictive hallmarks function. With subset regions at CUL3 locus, demonstrate engineered mutations alter transcription factor occupancy...
Understanding the trends in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) evolution is paramount to control COVID-19 pandemic. We analyzed more than 300,000 high-quality genome sequences of SARS-CoV-2 variants available as January 2021. The results show that ongoing during pandemic characterized primarily by purifying selection, but a small set sites appear evolve under positive selection. receptor-binding domain spike protein and region nucleocapsid associated with nuclear...
Transcription factors (TFs) regulate gene programs, thereby controlling diverse cellular processes and cell states. To comprehensively understand TFs the programs they control, we created a barcoded library of all annotated human TF splice isoforms (>3,500) applied it to build Atlas charting expression profiles embryonic stem cells (hESCs) overexpressing each at single-cell resolution. We mapped TF-induced reference types validated candidate for generation types, spanning three germ layers...
Despite the widespread implementation of public health measures, coronavirus disease 2019 (COVID-19) continues to spread in United States. To facilitate an agile response pandemic, we developed How We Feel, a web and mobile application that collects longitudinal self-reported survey responses on health, behaviour demographics. Here, report results from over 500,000 users States 2 April 2020 12 May 2020. show surveys can be used build predictive models identify likely COVID-19-positive...
Science & Society26 March 2018Open Access The power of synthetic biology for bioproduction, remediation and pollution control UN's Sustainable Development Goals will inevitably require the application molecular biotechnology on a global scale Víctor de Lorenzo Global Future Council Biotechnologies, World Economic Forum, Geneva, Switzerland Systems Biology Program, National Center Biotechnology CSIC, Madrid, Spain Search more papers by this author Kristala LJ Prather Department Chemical...
Much remains unknown about the transmission dynamics of COVID-19. How severity index case and timing exposure is associated with disease in close contacts patients COVID-19 clinical presentation those developing not well elucidated.To investigate association between development among to evaluate whether who develop COVID-19.This study used a large, population-based cohort 730 individuals (index patients) received diagnosis Zhejiang Province, China, from January 8 July 30, 2020, along contact...
The TnpB proteins are transposon-associated RNA-guided nucleases that among the most abundant encoded in bacterial and archaeal genomes, but whose functions transposon life cycle remain unknown. appears to be evolutionary ancestor of Cas12, effector nuclease type V CRISPR-Cas systems. We performed a comprehensive census TnpBs genomes constructed phylogenetic tree on which we mapped various features these proteins. In multiple branches tree, catalytic site is rearranged, demonstrating...
A number of endogenous genes in the human genome encode retroviral gag -like proteins, which were domesticated from ancient retroelements. The paraneoplastic Ma antigen (PNMA) family members a capsid domain, but their ability to assemble as capsids and traffic between cells remains mostly uncharacterized. Here, we systematically investigate PNMA proteins find that PNMAs are secreted by cells. We determine PNMA2 forms icosahedral efficiently does not naturally encapsidate nucleic acids....
To spread, transposons must integrate into target sites without disruption of essential genes while avoiding host defense systems. Tn7-like employ multiple mechanisms for target-site selection, including protein-guided targeting and, in CRISPR-associated (CASTs), RNA-guided targeting. Combining phylogenomic and structural analyses, we conducted a broad survey selectors, revealing diverse used by Tn7 to recognize sites, previously uncharacterized target-selector proteins found newly...
Diffuse large B-cell lymphoma (DLBCL) is the most common type of aggressive lymphoid malignancy and a highly heterogeneous disease. In this study, we performed whole-genome transcriptome sequencing, genome-wide CRISPR-Cas9-knockout screen to study an activated B-cell-like DLBCL cell line (RC-K8). We identified distinct pattern genetic essentialities in RC-K8, including dependency on CREBBP MDM2. The associated with balanced translocation involving EP300, which results truncated form protein...
Point-of-care (POC) nucleic acid detection technologies are poised to aid gold-standard in controlling the COVID-19 pandemic, yet shortcomings capability perform critically needed complex detection-such as multiplexed for viral variant surveillance-may limit their widespread adoption. Herein, we developed a robust clustered regularly interspaced short palindromic repeats (CRISPR)-based using LwaCas13a and PsmCas13b simultaneously diagnose severe acute respiratory syndrome coronavirus 2...
Fanzor (Fz) is an ωRNA-guided endonuclease extensively found throughout the eukaryotic domain with unique gene editing potential. Here, we describe structures of Fzs from three different organisms. We find that share a common ωRNA interaction interface, regardless length ωRNA, which varies considerably across species. The analysis also reveals Fz's mode DNA recognition and unwinding capabilities as well presence non-canonical catalytic site. demonstrate how protein conformations Fz shift to...
We call upon the research community to standardize efforts use daily self-reported data about COVID-19 symptoms in response pandemic and form a collaborative consortium maximize global gain while protecting participant privacy.