• Genome View provides a graphical summary of the correspondences between PDB entity sequences and reference genomes. (rcsb.org)
  • In addition to entity sequences, Genome View also includes alignments between the genome and the UniProt and NCBI sequences associated with the PDB entity. (rcsb.org)
  • This list of sequenced plant genomes contains plant species known to have publicly available complete genome sequences that have been assembled, annotated and published. (wikipedia.org)
  • Unassembled genomes are not included, nor are organelle only sequences. (wikipedia.org)
  • Use bioinformatics to probe genomes, to explore and represent DNA and protein sequences. (mooc.es)
  • Then, use databases to find protein sequences' conserved domains and investigate their functions. (mooc.es)
  • The course will be of interest to undergraduates, post-graduates, researchers, bioinformaticians, biomedical researchers, microbiologists, healthcare professionals and all those who are interested in learning about the underlying mechanisms of bacterial disease, DNA sequences and protein data, or how to use online analytical tools to probe genomes. (mooc.es)
  • Protein sequences were clustered by the pairwise sequence similarity using CLANS. (biomedcentral.com)
  • Computer programs can predict PPIs based on similar interactions found in other proteins by comparing protein sequences and three-dimensional structures. (jove.com)
  • The phylogenetic tree analysis of the amino acid sequences of VvZFP, VaZFP, VrZFP, and AtZFP proteins showed that they were closely related and were divided into six subgroups. (bvsalud.org)
  • Current diagnostic PCR assays target a variety of SARS CoV-2 genes and the vast majority target sequences in regions of the SARS CoV-2 genome that are highly conserved. (who.int)
  • Bioinformatic analyses of DNA- and protein sequences. (lu.se)
  • In the laboratory, it's been adapted as a tool that consists of two key components: a short stretch of RNA that lines up with a specific gene, and then a cutting protein that moves in to snip the gene open. (technologyreview.com)
  • Additionally, we find that the ESC genome is organized in such a way as to juxtapose regions of DNA that show similar regulation by demonstrating that spatially associated regions in the genome are associated with the same gene regulatory factors. (ca.gov)
  • This finding adds a new dimension to our understanding of how ESC-specific gene regulation is maintained and how the genome is organized. (ca.gov)
  • The relationship between 3D organization of the genome and gene-regulatory networks is poorly understood. (ca.gov)
  • Together, our data highlight a pluripotency-specific genome organization in which pluripotency factors such as Nanog and H3K27me3 occupy distinct nuclear spaces and reveal a role for cell-type-specific gene-regulatory networks in genome organization. (ca.gov)
  • Here, we present a genome-wide analysis of the CDPK gene family in maize for the first time, and this genomic analysis of maize CDPK genes provides the first step towards a functional study of this gene family in maize. (biomedcentral.com)
  • Wsm2 is the only resistance gene discovered in wheat genome and has been located in a short genomic region of its chromosome 3B. (peerj.com)
  • A variety of approaches, including biochemical purification, gene isolation by homology, and genetic screens, have been successfully used for the identification of putative protein kinases and phosphatases. (rupress.org)
  • Gene structures and chromosomal locations of human protein prenyltransferase subunit genes. (biomedcentral.com)
  • Whole-genome assemblies of wild Oryza species will provide new sources of genes and gene variants/haplotypes, enhancing the ability of breeding programs to introduce desirable traits into domestic cultivars. (nature.com)
  • To make "now" an option, researchers from the University of California, San Diego (UCSD), and the Danish Technical University (DTU) have introduced a broom of sorts: a CRISPR-Cas-mediated gene-editing approach that can eliminate up to 70% of the contaminating protein by mass in recombinant-protein drugs. (ubigene.us)
  • This gene encodes a member of the protein kinase C (PKC) family of serine/threonine protein kinases. (nih.gov)
  • Detection of transcripts properties and location of the gene encoding the virus inclusion body protein. (microbiologyresearch.org)
  • Mapping of the coat protein gene of CaMV by its expression in a prokaryotic system. (microbiologyresearch.org)
  • The gene III product (p 15) of cauliflower mosaic virus is a DNA-binding protein while an immunologically related pi 1 polypeptide is associated with virions. (microbiologyresearch.org)
  • Detection of CaMV gene I and gene VI protein products in vivo using antisera raised to COOH-terminal β-galactosidase fusion proteins. (microbiologyresearch.org)
  • The team believes conventional gene expression profiling would not have been able to identify the two proteins as key protective factors. (medicalnewstoday.com)
  • The team's analyses highlighted a host of interactions between SARS-CoV-2-encoded and human proteins, dubbed the SARS-CoV-2 interactome (HuSCI), prompting more detailed analyses and genetic knockdown experiments with gene-edited viruses and ACE2 receptor-expressing lung cell lines. (genomeweb.com)
  • Current gene annotation of the horse genome is largely derived from in silico predictions and cross-species alignments. (uky.edu)
  • VvZFP10-GFP and VvZFP46-GFP fusion proteins were localized in the nucleus of tobacco cells , and VvZFP10 is the most responsive gene among all VvZFPs with the highest relative expression level to MeJA, ABA, SA and low- temperature (4 °C) stress. (bvsalud.org)
  • Identification of putative novel class-I lanthipeptides in firmicutes: A combinatorial in silico analysis approach performed on genome sequenced bacteria and a close inspection of Z-geobacillin lanthipeptide biosynthesis gene cluster of the Thermophilic geobacillus sp. (lu.se)
  • The viral S gene is important as it codes for the Spike protein which is the molecule that makes contact with, and allows entry of the virus into susceptible host cells, causing infection. (who.int)
  • Some mutations in the S gene may lead to changes in the spike protein which result in inhibition of contact and entry of the virus into human cells, however in the case of the VOC, they contain mutations in the S gene that enhance the process of contact and entry into human cells, increasing transmissibility of the virus. (who.int)
  • The S gene is one of the structural genes of the virus which encodes for a protein that sits on the surface of the SARS CoV-2 virus. (who.int)
  • A gene is a segment of DNA that provides the code to construct a protein or RNA molecule. (msdmanuals.com)
  • Two transmembrane domains were predicted in p11.7, and a DNA binding motif was found in p31.7 by amino acid sequence analysis, therefore p11.7 and p31.7 were predicted to be envelope and capsid protein, respectively. (umass.edu)
  • Further sequence analysis suggests that the protein products of Wsm2 may combat WSMV disease through a molecular mechanism involving protein degradation and/or membrane trafficking. (peerj.com)
  • Automatic comparisons of data from expressed sequence tags (ESTs) with genes (for example using the program Acembly, for which the results are available from the NCBI AceView server [ 2 ]) shows that all the human protein prenyltransferase genes have multiple alternative splice variants. (biomedcentral.com)
  • Caveolin-3 (Cav-3) has greater protein-sequence similarity to Cav-1 than to Cav-2, but it is expressed mainly in muscle cells, including smooth, skeletal, and cardiac myocytes. (biomedcentral.com)
  • June 27/M2 PressWIRE -- The USDA-Agricultural Research Service (USDA-ARS), chocolate maker Mars and IBM will pool scientific resources to sequence and analyze the entire cocoa genome. (preparedfoods.com)
  • the complete genome sequence of Mycobacterium tuberculosis continues to provide an invaluable resource to understand tuberculosis (TB), the leading cause of global infectious disease mortality. (jci.org)
  • While the genome sequence was already transformative at the time, the past 25 years of progress have substantially increased its impact on TB taxonomy, drug discovery, resistance mechanisms, epidemiology, vaccine development, and pathogenesis. (jci.org)
  • Therefore, in this study, we conducted a genome -wide identification of ZFP genes in three species of grapevine, namely Vitis vinifera , Vitis riparia, and Vitis amurensis, based on the sequence databases and phylogenetic and their conserved domains. (bvsalud.org)
  • Options: -m N N is a positive integer for weight match in genome sequence alignment. (cdc.gov)
  • N will be used as weight mismatch in genome sequence alignment. (cdc.gov)
  • default: 1] -p Do protein sequence alignment. (cdc.gov)
  • Without this option, the ssw_test will do genome sequence alignment. (cdc.gov)
  • nonglycosolated virion envelope protein (24).The complete nucleotide sequence for the RNA genome of yellow fever virus has been determined (24). (cdc.gov)
  • Genome Sequence of Geobacillus sp. (lu.se)
  • Background: We report an analysis of a protein network of functionally linked proteins, identified from a phylogenetic statistical analysis of complete eukaryotic genomes. (reading.ac.uk)
  • The organisation and evolution of the eukaryotic genomes. (lu.se)
  • Interestingly, VIP21 was isolated as an integral membrane protein component of transport vesicles derived from the trans-Golgi network in Madin-Darby canine kidney (MDCK) cells, suggesting that Cav-1/VTP21 may have a role in molecular trafficking as well as oncogenesis. (biomedcentral.com)
  • The study is also significant for another reason - the molecular searching method that the team used to find the two proteins. (medicalnewstoday.com)
  • This study provides a comprehensive genome-wide resource for the functional exploration of molecular, cellular, and epigenetic regulation at the top of the hematopoietic hierarchy. (lu.se)
  • Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2658 cancers across 38 tumour types, we describe DriverPower, a software package that uses mutational burden and functional impact evidence to identify driver mutations in coding and non-coding sites within cancer whole genomes. (lu.se)
  • The investigators analyzed the protein-coding impact of mutations in 12,341 cancer genomes of patients with 18 cancer types. (medscape.com)
  • Compared with patients with a smoking history, the cancer genomes of lifelong nonsmokers had fewer tobacco-associated SGMs. (medscape.com)
  • Testing across a collection of 2583 cancer genomes from the PCAWG project, DriverPower identifies 217 coding and 95 non-coding driver candidates. (lu.se)
  • Based on the genome sequencing results, an analysis of structural proteins and prediction of putative microRNAs of Hz-2V was performed. (umass.edu)
  • 8 provided an update to the OryzaGenome database which includes short-read sequencing data for several non-AA genome Oryza species. (nature.com)
  • Genome sequencing may help eliminate some of the guesswork of traditional breeding. (preparedfoods.com)
  • Sequencing the genomes of agriculture crops is a critical step if we want to better understand and improve a crop," said Judy St. John, USDA-ARS deputy administrator for Crop Production and Protection. (preparedfoods.com)
  • The increasing accessibility of whole-genome sequencing across research and clinical settings has improved our ability to predict antibacterial susceptibility, to track epidemics at the level of individual outbreaks and wider historical trends, to query the efficacy of the bacille Calmette-Guérin (BCG) vaccine, and to uncover targets for novel antitubercular therapeutics. (jci.org)
  • Whole-genome sequencing (WGS) of M. tuberculosis and related mycobacteria is now routine, allowing comparisons across time and space. (jci.org)
  • Newborn screening in the genomics era: are we ready for genome sequencing? (cdc.gov)
  • The discovery of driver mutations is one of the key motivations for cancer genome sequencing. (lu.se)
  • We show evolutionary signatures of termite eusociality by comparing the genomes and transcriptomes of three termites and the cockroach against the background of 16 other eusocial and non-eusocial insects. (nature.com)
  • Conclusion: A few simple rules can explain the topological structure and evolutionary changes to protein-interaction networks: most change is concentrated in satellite proteins of low connectivity and small phenotypic effect, and proteins differ in their propensity to form attachments. (reading.ac.uk)
  • Given these rules of assembly, power law scaled networks naturally emerge from simple principles of selection, yielding protein interaction networks that retain a high-degree of robustness on short time scales and evolvability on longer evolutionary time scales. (reading.ac.uk)
  • The genomic organization of the human genes that encode protein prenyltransferases is shown in Figure 1 . (biomedcentral.com)
  • Interestingly, 780 variants extend the open reading frame of the transcript and appear to be small errors in the equine reference genome, since they are also identified as homozygous variants by genomic DNA resequencing of the reference horse. (uky.edu)
  • Taken together, we provide a resource of equine mRNA structures and protein coding variants that will enhance equine and cross-species transcriptional and genomic comparisons. (uky.edu)
  • Subsequently, datasets collected from human pregnancy cohorts exposed to iAs or Cd were examined in relationship to the IDGs, specifically focusing on data representing epigenetic modifications (5-methyl cytosine), genomic perturbations (mRNA expression), and proteomic shifts (protein expression). (cdc.gov)
  • Silver Age of GOLD Introduces New Features The Genomes OnLine Database makes curated microbiome metadata that follows community standards freely available and enables large-scale comparative genomics analysis initiatives. (doe.gov)
  • In 2012, the Novo Nordisk Foundation awarded a large grant, which has funded groundbreaking work in genomics, systems biology, and large-scale genome editing for research and technology development of CHO cells at the DTU and UCSD. (ubigene.us)
  • Genome structure, comparative genomics, and bioinformatics. (lu.se)
  • In a carefully crafted press release , Broad chief Eric Lander said the system "represents a new generation of genome editing technology" that has "dramatic potential to advance genetic engineering. (technologyreview.com)
  • This genome re-confirms the genetic remoteness of the O. australiensis lineage within the O. officinalis genome complex. (nature.com)
  • To date, the species and cultivars that make up the AA genome clade have provided most of the genetic variation and resources that have led to the success of domesticated rice 4 , while other genome clades have contributed relatively little to domestication. (nature.com)
  • Many proteins, and the genes that make them, aren't well understood, and there's still much to learn from the human genetic instruction book. (sciencenews.org)
  • The translatome is the complete collection of messenger molecules that are involved with translating genetic information from DNA and carrying it to sites where proteins are made inside cells. (medicalnewstoday.com)
  • With genetically engineered mice, the team captured the genetic messages being translated into proteins in dopaminergic neurons in the mice's midbrain region. (medicalnewstoday.com)
  • The team's results suggested that proteins encoded by SARS-CoV-2 may be particularly prone to interacting with human proteins that contain genetic alterations previously implicated in individuals' risk of severe COVID-19 or "long COVID" cases that persist over long periods of time. (genomeweb.com)
  • Our results connect viral proteins to human genetic architecture for COVID-19 severity and offer potential therapeutic targets," the study's authors wrote, noting that genetic or small molecule inhibitor-based knockdown of interacting host proteins, such as the ubiquitin-specific peptidase 25 enzyme, seemed to dial down SARS-CoV-2 replication in cell line experiments. (genomeweb.com)
  • The genotype (or genome) is a person's unique combination of genes or genetic makeup. (msdmanuals.com)
  • Here, we examined long-range chromatin interactions genome-wide in mouse embryonic stem cells (ESCs), iPSCs, and fibroblasts and uncovered a pluripotency-specific genome organization that is gradually reestablished during reprogramming. (ca.gov)
  • Underlining the independence of these networks and their functional relevance for genome organization, loss of the Polycomb protein Eed diminishes interactions between Polycomb-regulated regions without altering overarching chromosome conformation. (ca.gov)
  • Protein phosphorylation can regulate enzyme function, mediate protein-protein interactions, alter subcellular localization, and control protein stability. (rupress.org)
  • Deciphering protein–protein interactions. (crossref.org)
  • NEW YORK - Studies by two independent research teams have spelled out interactions between SARS-CoV-2 viral proteins and proteins from human host cells during COVID-19 infections, revealing protein-protein interaction networks with clues to disease biology and potential treatment strategies. (genomeweb.com)
  • Among the specific contacts examined was an interaction between the viral protein NSP14 and a human transcription network under the control of NF-kappa-B, along with other interactions that impact human immune activity. (genomeweb.com)
  • Even so, the authors noted, their results suggest that alterations affecting protein-coding portions of the SARS-CoV-2 genome - including changes linked to known SARS-CoV-2 variants - can lead to changes in interactions and network patterns associated with the viral proteins. (genomeweb.com)
  • By setting these interactions against those described in prior interactome analyses, the team verified 218 previously described protein-protein interactions while revealing 361 new ones. (genomeweb.com)
  • We derive a 'variable rate of attachment' model in which proteins vary in their propensity to form network interactions independently of how many connections they have or of the total number of connections in the network, and show how this model can produce apparent power-law scaling without preferential attachment. (reading.ac.uk)
  • Many biological processes depend on protein-protein interactions. (jove.com)
  • Similar to ligand binding sites, interactions at a protein-protein interface may involve non-covalent bonds and hydrophobic forces. (jove.com)
  • Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. (jove.com)
  • Laboratory methods, such as affinity purification, mass spectrometry, and protein microarrays, can be used to identify new interactions. (jove.com)
  • The expression of cauliflower mosaic virus proteins was examined in crown gall tissue transformed by integration of virus genome DNA into plant host chromosomes by Agrobacterium tumefaciens- mediated transfer. (microbiologyresearch.org)
  • Initiation of translation of the cauliflower mosaic virus genome from a polycistronic mRNA: evidence from deletion mutagenesis. (microbiologyresearch.org)
  • Dozens of beneficial edits across the entire genome were discovered to accelerate the Design-Generate-Test-Learn cycle and increase the lysine production by 14,000-fold - ushering in the next era of genome editing. (aiche.org)
  • In 2010, researchers at the J. Craig Venter Institute in La Jolla, Calif., had stitched together a copy of the entire genome of the bacterium Mycoplasma mycoides and popped it into the cell of another bacterium whose genome had been removed. (sciencenews.org)
  • PacBio Iso-Seq data were generated for five distinct tissues to improve the functional annotation of 34,587 protein-coding genes and 42,329 transcripts. (nature.com)
  • Phylogenetic methods identify pairs of proteins that co-evolve on a phylogenetic tree, and have been shown to have a high probability of correctly identifying known functional links. (reading.ac.uk)
  • In other cases, different proteins or polypeptides come together to form a functional unit. (jove.com)
  • Genes are segments of deoxyribonucleic acid (DNA) that contain the code for a specific protein that functions in one or more types of cells in the body or the code for functional ribonucleic acid (RNA) molecules. (msdmanuals.com)
  • We analysed the genomes of two lower and one higher termite species and compared them to the genome of the German cockroach, Blattella germanica , as a closely related non-eusocial outgroup. (nature.com)
  • Two of these species ( O. sativa and Oryza glaberrima ), both of which belong to the AA genome clade, were independently domesticated in Asia and Africa, respectively. (nature.com)
  • The availability of Oryza '-omics' resources is increasing, yet the number of whole-genome assemblies for non-AA genome wild species remains low. (nature.com)
  • Galls upon plants of species that support infection by virus particles as well as upon non-host plants were analysed by immunoblotting using antisera specific to proteins encoded by viral genes I, IV and VI. (microbiologyresearch.org)
  • We introduce the use of explicit phylogenetic methods to reconstruct the ancestral presence or absence of proteins at the interior nodes of a phylogeny of eukaryote species. (reading.ac.uk)
  • Although the structures of rotavirus and other members of the Reoviridae have been extensively studied, little is known about the structures of virus-encoded non-structural proteins that are essential for genome replication and packaging. (nih.gov)
  • Several RNA binding sites, resulting from the quaternary organization of NSP2 monomers, may be required for the helix destabilizing activity of NSP2 and its function during genome replication and packaging. (nih.gov)
  • The involvement of viral DNA-binding proteins in the regulation of virulence genes, transcription, DNA replication, and repair make them significant targets. (mdpi.com)
  • The reversible phosphorylation of proteins on serine, threonine, and tyrosine residues represents a fundamental strategy used by eukaryotic organisms to regulate a host of biological functions, including DNA replication, cell cycle progression, energy metabolism, and cell growth and differentiation. (rupress.org)
  • HIV-1 also has regulatory genes ( tat and rev ) and genes that encode for accessory proteins ( vpu , vpr , vif , and nef ) that are important in viral replication and interaction with the host. (medscape.com)
  • This protein kinase is calcium-independent and phospholipid-dependent. (nih.gov)
  • For instance, many enzymes, such as protein kinase A here, form a cleft that can recognize and bind polypeptide loops of their binding partners. (jove.com)
  • The scientists found out how intrinsically disordered proteins in the center of the pore can form a spaghetti-like mobile barrier that is permeable for important cellular factors but blocks viruses or other pathogens. (mpg.de)
  • The image shows an artistic impression of the rocky scaffold structure of the nuclear pore complex filled with intrinsically disordered proteins in the central channel depicted as seaweeds. (mpg.de)
  • This is because these proteins are intrinsically disordered and lack a defined three-dimensional structure. (mpg.de)
  • As these intrinsically disordered proteins (IDPs) are constantly changing their structure, it is difficult for scientists to decipher their three-dimensional architecture and their function. (mpg.de)
  • An international collaboration between the UCL School of Pharmacy, the Lund Protein Production Platform (LP3) and ESS, through its DEMAX platform, have performed biophysical and structural studies of three non-structural proteins from the novel coronavirus, SARS CoV-2, the causative agent of COVID-19. (lu.se)
  • The α subunits of protein prenyltransferases consist of tetratricopeptide repeats and are part of the tetratricopeptide repeat superfamily [ 5 ], which also includes functionally diverse proteins involved in transcription, co-chaperoning, protein transport, cell-cycle control and phosphorylation. (biomedcentral.com)
  • Members of that team emphasized the apparent transcriptional consequences of SARS-CoV-2 proteins that make their way into human cells - in particular, those stemming from a co-immunoprecipitation-confirmed protein-protein interaction between SARS-CoV-2's ORF3a and the proposed human transcription factor ZNF579. (genomeweb.com)
  • This interface is observed frequently in proteins that contain leucine zipper domains such as eukaryotic transcription factors. (jove.com)
  • Q-type C2H2 zinc finger proteins (ZFPs), the largest family of transcription factors , have been extensively studied in plant genomes . (bvsalud.org)
  • However, the genes encoding this transcription factor family have not been explored in grapevine genomes . (bvsalud.org)
  • Our OrthoMCL analysis of protein coding genes on wheat chromosome 3B and its syntenic chromosomes in rice and Brachypodium discovered 4,035 OrthoMCL groups as preliminary candidates of Wsm2 orthologs. (peerj.com)
  • First of all, in defense of proteomics, I would point out that the paucity of biomarkers to reach the clinic far transcends proteomics and protein-based biomarkers. (biomedcentral.com)
  • Moreover, the technologies that have been utilized for discovery, particularly in the early days of proteomics, lacked sufficient depth to allow exploration of low abundance proteins and their modifications that represent a potentially rich source of biomarkers [ 4 ]. (biomedcentral.com)
  • Assembly of the O. australiensis genome has previously been challenging due to its high Long Terminal Repeat (LTR) retrotransposon (RT) content. (nature.com)
  • Oxford Nanopore long reads were combined with Illumina short reads to generate a high-quality ~ 858 Mbp genome assembly within 850 contigs with 46× long read coverage. (nature.com)
  • Assembly of a high-quality genome for O. australiensis provides an important resource for the discovery of critical genes involved in development and stress tolerance. (nature.com)
  • STP, serine/threonine protein phosphatase. (rupress.org)
  • The "unknome" database ranks human proteins by how little we know about them. (sciencenews.org)
  • It was isolated as one of several proteins that became phosphorylated on tyrosine residues in chicken embryo fibroblasts transformed with the v-Src oncogene [ 4 ]. (biomedcentral.com)
  • Low abundance proteins, on the other hand, produce weak spectra and often represent the interesting unknown processes. (lu.se)
  • There is a niche market for a collection of different proteins so that cuts can be placed anywhere in the genome," he says. (technologyreview.com)
  • Eugene Koonin, a researcher at the National Institutes of Health who coauthored the paper in Cell , said the current work began with computer predictions of proteins in bacteria that might serve a similar cutting role as Cas9. (technologyreview.com)
  • Streamlining Regulon Identification in Bacteria Regulons are a group of genes that can be turned on or off by the same regulatory protein. (doe.gov)
  • Valuable insight into these important enzymes has already emerged from the analysis of the yeast and worm genomes. (rupress.org)
  • For another paper appearing in Nature Biotechnology , researchers at the Cleveland Clinic, Cornell University, and elsewhere reported on findings from their own yeast-two-hybrid- and mass spectrometry-based interactome analyses, which unearthed more than 700 apparent ties between SARS-CoV-2 proteins and human host proteins. (genomeweb.com)
  • Co-immunoprecipitation of proteins and yeast two-hybrid screening are widely used to provide evidence on whether two proteins interact in vitro . (jove.com)
  • The development of CRISPR systems to facilitate the editing of genomes has created great excitement and inspired new ideas in engineering biology. (aiche.org)
  • However, covalent disulfide bonds between cysteine amino acids on each protein surface may also play a role to keep them together. (jove.com)
  • Tracing the Evolution of Shiitake Mushrooms Understanding Lentinula genomes and their evolution could provide strategies for converting plant waste into sugars for biofuel production. (doe.gov)
  • Feng Zhang, a researcher at the Broad Institute of MIT and Harvard, reported today in the journal Cell that he had developed a replacement for a key component of the genome-engineering system commonly known as CRISPR-Cas9. (technologyreview.com)
  • Broad and Feng have won more than 10 key patents on CRISPR genome editing using Cas9. (technologyreview.com)
  • This month, Robert Desimone, director of MIT's McGovern Institute for Brain Research, where Feng holds an appointment, wrote to the Economist correcting that magazine's account of how CRISPR-Cas9 was invented, saying the Berkeley team had used "no cells, no genomes and no editing. (technologyreview.com)
  • The discovery of how to manipulate the CRISPR system is probably only the beginning of a new era of precision genome editing, Feng says, with many new approaches under development. (technologyreview.com)
  • Our study shows that tobacco smoking signatures in DNA generate these harmful protein-truncating mutations that contribute to the development of cancer and its increasing complexity over time," senior author Jüri Reimand, PhD, Ontario Institute for Cancer Research, Toronto, Canada, told Medscape Medical News . (medscape.com)
  • These SGM mutations frequently affect cancer tumor suppressor genes such as TP53 , FAT1 , and APC , keeping them from fully forming to produce proteins that prevent abnormal cells from growing and causing cancer. (medscape.com)
  • In The Cancer Genome Atlas (TCGA), lung cancer samples included 10.5 tobacco smoking-associated SGMs per genome on average: 73% of cancers had at least one, and 39% had at least 10 of these protein-truncating mutations. (medscape.com)
  • The VOC differ from the original Wuhan virus as they have mutations across the genome. (who.int)
  • Mutations in other regions of the genome may also be informative for known VOI/VOC detection. (who.int)
  • Overall, these assays and approaches detect specific mutations or features such as insertions, deletions and point mutations in the SARS CoV-2 genome that are characteristic of a particular VOC/VOI using PCR. (who.int)
  • Levels of cellular protein phosphorylation are modulated both by protein kinases and phosphatases. (rupress.org)
  • We perform genome-wide association studies of 63 flow-cytometry derived cellular phenotypes-including cell-type specific measures of granularity, nucleic acid content and reactivity-in 41,515 participants in the INTERVAL study. (ox.ac.uk)
  • Scientists predict an explosion of new genome-editing methods. (technologyreview.com)
  • Various computational and biochemical methods are used to study protein interfaces. (jove.com)
  • In order to adequately comprehend the scope of laboratory methods, a basic understanding of the structure of the HIV virion and its genome is necessary. (medscape.com)
  • Genome-Wide Identification and Analysis of the Genes Encoding Q-Type C2H2 Zinc Finger Proteins in Grapevine. (bvsalud.org)
  • The genes encoding CaaX protein prenyltransferases are considerably longer than those encoding non-CaaX subunits, as a result of longer introns. (biomedcentral.com)
  • Scientists in Boston have come up with a twist on an important method for "editing" genomes that could give researchers added control over the DNA of living things and influence a raging patent dispute over the powerful techniques. (technologyreview.com)
  • For decades, researchers have been fascinated by the three-dimensional structure and function of these nuclear pores, which act as guardians of the genome: substances that are required for controlling the cell are allowed to pass, while pathogens or other DNA-damaging substances are blocked from entry. (mpg.de)
  • Most experimental techniques that researchers use to image proteins only work with a defined 3D structure. (mpg.de)
  • Soil Virus Offers Insight into Maintaining Microorganisms Through a collaborative effort, researchers have identified a protein in soil viruses that may promote soil health. (doe.gov)
  • Genome Insider: Methane Makers in Yosemite's Lakes Meet researchers who sampled the microbial communities living in the mountaintop lakes of the Sierra Nevada mountains to see how climate change affects freshwater ecosystems, and how those ecosystems work. (doe.gov)
  • But with two projects, communities are forming to generate high quality genomes to benefit researchers. (doe.gov)
  • In the spring of 2020, they managed to solve and started to analyse one of these proteins, Nsp10, by using the BioMAX beamline at MAX IV Laboratory. (lu.se)
  • A team in Germany from the Department of Theoretical Biophysics at the Max Planck Institute of Biophysics in Frankfurt am Main and the Synthetic Biophysics of Protein Disorder Group at Johannes Gutenberg University Mainz has literally filled a hole in the understanding of the structure and function of these nuclear pores. (mpg.de)
  • Thus, a substrate molecule could be identified in the access path to the active center and the structure indicated an unusual lipid-protein arrangement at the membrane transition. (mpg.de)
  • Proteins resident in the network acquire connections over time, but we find no evidence that 'preferential attachment' - the phenomenon of newly acquired connections in the network being more likely to be made to proteins with large numbers of connections - influences the network structure. (reading.ac.uk)
  • In conclusion, the physical structure and chemical properties of the interacting parts determine the type of interface between two proteins. (jove.com)
  • Thus, the entire structure and function of the body is governed by the types and amounts of proteins the body synthesizes. (msdmanuals.com)
  • The non-structural protein NSP2 of rotavirus, which exhibits nucleoside triphosphatase, single-stranded RNA binding, and nucleic-acid helix-destabilizing activities, is a major component of viral replicase complexes. (nih.gov)
  • Protein and nucleic acid blotting and immunobiochemical detection. (microbiologyresearch.org)
  • HIV infection can be diagnosed based on detection of antibodies that are directed against the proteins encoded by the 3 major genes, the detection of the p24 antigen, the viral nucleic acid, and, finally, by means of culturing the virus. (medscape.com)
  • From samples to protein structures and complexes. (doe.gov)
  • In fact, a large number of proteins need to form protein complexes or oligomers to carry out their functions. (jove.com)
  • Unambiguous characterization of site-specific phosphorylation of leucine-rich repeat Fli-I-interacting protein 2 (LRRFIP2) in Toll-like receptor 4 (TLR4)-mediated signaling. (nih.gov)
  • About 2000 pores are therefore built into the nuclear membrane, each consisting of about 1000 proteins. (mpg.de)
  • Caveolins can serve as protein markers of caveolae ('little caves'), invaginations in the plasma membrane 50-100 nanometers in diameter. (biomedcentral.com)
  • NADH:ubiquinone oxidoreductase, complex I, is one of the largest membrane protein assemblies known and has a central role in energy production by the mitochondrial respiratory chain, providing about 40 percent of the proton motive force required for the synthesis of adenosine triphosphate (ATP) that is the energy storage form of the cells. (mpg.de)
  • Genome Insider: A Shrubbier Version of Rubber Hear from the consortium working on understanding the guayule plant's genome, which could lead to an improved natural rubber plant. (doe.gov)
  • There are three different protein prenyltransferases in humans: farnesyltransferase (FT) and geranylgeranyltransferase 1 (GGT1) share the same motif (the CaaX box) around the cysteine in their substrates, and are thus called CaaX prenyltransferases, whereas geranylgeranyltransferase 2 (GGT2, also called Rab geranylgeranyltransferase) recognizes a different motif and is thus called a non-CaaX prenyltransferase [ 1 ]. (biomedcentral.com)