Tag: NAR

Researcher/Postdoc to enhance computational resources for regulatory genomics with deep learning

Description: The Computational Biology & Gene Regulation group led by Anthony Mathelier at the NCMM, a part of the Nordic EMBL Partnership for Molecular Medicine, is seeking a highly motivated Researcher or Postdoctoral Fellow for a two-year position, starting as soon as possible in 2024. The selected candidate will play…

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High-sensitivity two-color detection of double-stranded DNA with a confocal fluorescence gel scanner using ethidium homodimer and thiazole orange

High-sensitivity two-color detection of double-stranded DNA with a confocal fluorescence gel scanner using ethidium homodimer and thiazole orange – Texas A&M University (TAMU) Scholar Search form   Overview   Research   Identity   Additional Document Info   Other   View All   Overview abstract Ethidium homodimer (EthD; lambda Fmax 620…

Continue Reading High-sensitivity two-color detection of double-stranded DNA with a confocal fluorescence gel scanner using ethidium homodimer and thiazole orange

GPATCH4 regulates rRNA and snRNA 2′-O-methylation in both DHX15-dependent and DHX15-independent manners

doi: 10.1093/nar/gkad1202. Online ahead of print. Nidhi Kanwal  1 , Nicolai Krogh  2 , Indira Memet  1 , Nicolas Lemus-Diaz  1 , Chairini C Thomé  1 , Luisa M Welp  3   4 , Athanasia Mizi  5 , Philipp Hackert  1 , Argyris Papantonis  5 , Henning Urlaub  3   4   6   7 , Henrik Nielsen  2 , Katherine…

Continue Reading GPATCH4 regulates rRNA and snRNA 2′-O-methylation in both DHX15-dependent and DHX15-independent manners

Exploring the Latest Advances in Transcriptomics

Since the idea of genetic regulation was first postulated back in the 1950s, our scientific understanding of the transcriptome has deepened greatly.1 Looking into the transcriptome of cells and tissues has helped scientists to understand the biological processes that drive both health and disease; however, the complex and occasionally mysterious…

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Seroprevalence and Molecular Characterization of B. abortus

Introduction Brucellosis is a zoonotic disease caused by Brucella spp., a gram-negative facultative intracellular coccobacillus.1 These microorganisms can infect livestock, wildlife, and humans, causing significant public concern and substantial agricultural economic loss. Currently, at least six novel Brucella species have been identified: Brucella pinnipedialis, Brucella ceti,2 Brucella papionis,3 Brucella microti,4…

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The Biostar Herald for Tuesday, December 19, 2023

The Biostar Herald publishes user submitted links of bioinformatics relevance. It aims to provide a summary of interesting and relevant information you may have missed. You too can submit links here. This edition of the Herald was brought to you by contribution from Mensur Dlakic, Istvan Albert, and was edited…

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Characterization of the Spectrum of Mitochondrial DNA Nucleotide Substitutions in Human Populations in High Altitude Environments

Burtscher, J., Mallet, R.T., Pialoux, V., et al., Adaptive responses to hypoxia and/or hyperoxia in humans, Antioxid. Redox Signal., 2022, vol. 37, pp. 887—912. doi.org/10.1089/ars.2021.0280 Article  PubMed  Google Scholar  Chandel, N.S., McClintock, D.S., Feliciano, C.E., et al., Reactive oxygen species generated at mitochondrial complex III stabilize hypoxia-inducible factor-1alpha during hypoxia: a…

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Characterization of runs of Homozygosity revealed genomic inbreeding and patterns of selection in indigenous sahiwal cattle

Almeida OAC, Moreira GCM, Rezende FM et al (2019) Identification of selection signatures involved in performance traits in a paternal broiler line. BMC Genomics 20:1–20. doi.org/10.1186/s12864-019-5811-1 Article  Google Scholar  Alshawi A, Essa A, Al-Bayatti S, Hanotte O (2019) Genome Analysis Reveals Genetic Admixture and Signature of Selection for Productivity and…

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PRRG4 regulates mitochondrial function and promotes migratory behaviors of breast cancer cells through the Src-STAT3-POLG axis | Cancer Cell International

Sung H, Ferlay J, Siegel RL, Laversanne M, Soerjomataram I, Jemal A, Bray F. Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality Worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2021;71(3):209–49. doi.org/10.3322/caac.21660. Article  PubMed  Google Scholar  Hu G, Chong RA, Yang Q, Wei Y, Blanco…

Continue Reading PRRG4 regulates mitochondrial function and promotes migratory behaviors of breast cancer cells through the Src-STAT3-POLG axis | Cancer Cell International

Chromosome-level genome assembly of the Stoliczka’s Asian trident bat (Aselliscus stoliczkanus)

Dobson, G. E. On a new genus and species of Rhinolophidae, with description of a new species of Vesperus, and notes on some other species of insectivorous bats from Persia. J. Asiat. Soc. Bengal. 40, 455–461 (1871). Google Scholar  Bates, P., Bumrungsri, S., Francis, C., Csorba, G. & Furey, N….

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Fatty Acid Metabolism-Related lncRNAs as Biomarkers for SKCM

Introduction Skin cutaneous melanoma (SKCM), as one of the most aggressive types of cancer due to its elevated degree of heterogeneity, has gained increasing attention during the past few decades.1 Also known as “the cancer that rises with the sun”,2 melanoma originates from cancerous melanocytes due to molecular or genetic…

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Whole mitochondrial and chloroplast genome sequencing of Tunisian date palm cultivars: diversity and evolutionary relationships | BMC Genomics

Johnson DV, Al-Khayri JM, Jain SM. Introduction: Date Production Status and Prospects in Africa and the Americas. In: Al-Khayri J, Jain S, Johnson D, editors. Date Palm Genetic Resources and Utilization: Volume 1: Africa and the Americas. Springer Netherlands, Dordrecht; 2015. p. 1–18. doi.org/10.1007/978-94-017-9694-1_1 Gros-Balthazard M, Hazzouri KM, Flowers JM. Genomic…

Continue Reading Whole mitochondrial and chloroplast genome sequencing of Tunisian date palm cultivars: diversity and evolutionary relationships | BMC Genomics

cGAS-STING signalling regulates microglial chemotaxis in genome instability

doi: 10.1093/nar/gkad1184. Online ahead of print. Affiliations Expand Affiliations 1 Department of Biochemistry, University of Cambridge, Cambridge, UK. 2 Neuroscience, R&D BioPharmaceuticals, AstraZeneca, Cambridge, UK. 3 Translational Genomics, Discovery Biology, Discovery Sciences, BioPharmaceuticals R&D, AstraZeneca, Mölndal, Gothenburg, Sweden. 4 Department of Data Sciences & Quantitative Biology, AstraZeneca, Cambridge, UK. Item…

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The Protective Mechanism of TFAM on Mitochondrial DNA and its Role in Neurodegenerative Diseases

Annesley SJ, Fisher PR (2019) Mitochondria in health and disease. Cells 8(7). doi.org/10.3390/cells8070680 Cannino G, Ferruggia E, Luparello C, Rinaldi AM (2009) Cadmium and mitochondria. Mitochondrion 9(6):377–384. doi.org/10.1016/j.mito.2009.08.009 Article  CAS  PubMed  Google Scholar  Bonora M, Missiroli S, Perrone M, Fiorica F, Pinton P, Giorgi C (2021) Mitochondrial control of genomic…

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Characterizing viral species in mosquitoes (Culicidae) in the Colombian Orinoco: insights from a preliminary metagenomic study

Kraemer, M. U. et al. The global distribution of the arbovirus vectors Aedes aegypti and Ae. albopictus. Elife 4, e08347. doi.org/10.7554/eLife.08347 (2015). Article  PubMed  PubMed Central  Google Scholar  Bhatt, S. et al. The global distribution and burden of dengue. Nature 496, 504–507. doi.org/10.1038/nature12060 (2013). Article  ADS  CAS  PubMed  PubMed Central …

Continue Reading Characterizing viral species in mosquitoes (Culicidae) in the Colombian Orinoco: insights from a preliminary metagenomic study

Origin and evolution of the triploid cultivated banana genome

Rouard, M. et al. Three new genome assemblies support a rapid radiation in Musa acuminata (wild banana). Genome Biol. Evol. 10, 3129–3140 (2018). CAS  PubMed  PubMed Central  Google Scholar  Langhe, E. D., Vrydaghs, L., Maret, P. D., Perrier, X. & Denham, T. Why bananas matter: an introduction to the history…

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ST23 Klebsiella pneumoniae in China

Introduction Klebsiella pneumoniae (KP), a member of the Enterobacteriaceae family, inhabits aquatic environments and can colonise respiratory and gastrointestinal tracts in humans, making it a significant opportunistic pathogen. It may result in pneumonia, meningitis, urinary tract infections, and bloodstream infections. Hypervirulent Kp (HvKp) is believed to cause severe community-acquired invasive…

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In situ metagenomics: A platform for rapid sequencing and analysis of metagenomes in less than one day

doi: 10.1111/1755-0998.13909. Online ahead of print. Affiliations Expand Affiliations 1 Microbiome Analysis Laboratory, Systems Biology Department, CNB-CSIC, Madrid, Spain. 2 Departamento de Ecoloxía e Bioloxía Animal, Centro de Investigación Mariña, Universidade de Vigo, Vigo, Spain. 3 Department of Biogeochemistry and Microbial Ecology, National Museum of Natural Sciences (MNCN-CSIC), Madrid, Spain….

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Metagenomic next-gene sequencing for respiratory infections

Introduction Respiratory tract infections are common and occur frequently. Rapid and accurate microbial detection is essential for timely and appropriate treatment. Traditional microbial detection methods have some limitations such as dependence on morphology, long duration, low sensitivity, and high variability.1,2 Metagenomic next-generation sequencing (mNGS) is a new detection technology characterized…

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A chromosome-level genome assembly for the Silkie chicken resolves complete sequences for key chicken metabolic, reproductive, and immunity genes

Friedman-Einat, M. & Seroussi, E. Avian leptin: bird’s-eye view of the evolution of vertebrate energy-balance control. Trends Endocrinol. Metab. 30, 819–832 (2019). Article  CAS  PubMed  Google Scholar  International Chicken Genome Sequencing C. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432, 695–716 (2004)….

Continue Reading A chromosome-level genome assembly for the Silkie chicken resolves complete sequences for key chicken metabolic, reproductive, and immunity genes

Identification and validation of key miRNAs for colon cancer

Introduction With nearly 2 million new cases and 1 million deaths worldwide in 2020, colorectal cancer is the third-most common cancer and the second leading cause of cancer-related deaths.1 According to data from the US Surveillance, Epidemiology and End Results program and the National Program of Cancer Registries program, the…

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Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Batinovic, S. et al. Bacteriophages in natural and artificial environments. Pathogens 8, 100. doi.org/10.3390/pathogens8030100 (2019). Article  PubMed  PubMed Central  Google Scholar  Mushegian, A. R. Are there 10^31 virus particles on earth, or more, or fewer?. J. Bacteriol. 202(9), 2020. doi.org/10.1128/JB.00052-20 (2020). Article  Google Scholar  Kutter, E. & Sulakvelidze, A. Bacteriophages:…

Continue Reading Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Borrelia puertoricensis in opossums (Didelphis marsupialis) from Colombia | Parasites & Vectors

Oppler Z, Keeffe K, McCoy K, Brisson D. Evolutionary genetics of Borrelia. Curr Issues Mol Biol. 2021;42:97–112. doi.org/10.21775/cimb.042.097.2. Article  PubMed  Google Scholar  Margos G, Fingerle V, Cutler S, Gofton A, Stevenson B, Estrada-Peña A. Controversies in bacterial taxonomy: the example of the genus Borrelia. Ticks Tick Borne Dis. 2020;11:101335. doi.org/10.1016/j.ttbdis.2019.101335….

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“MethylKit” package for WGBS data

“MethylKit” package for WGBS data 0 Hi I am working with WGBS data, There I am using MethylKit package for DMC analysis. Differential DNA methylation is usually calculated by comparing the proportion of methylated Cs in a test sample relative to a control. In simple comparisons between such pairs of…

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Unveiling the RNA-mediated allosteric activation discloses functional hotspots in CRISPR-Cas13a

doi: 10.1093/nar/gkad1127. Online ahead of print. Affiliations Expand Affiliations 1 Department of Bioengineering, University of California Riverside, Riverside, CA , 92521, USA. 2 Department of Biochemistry and Biophysics, University of Rochester School of Medicine and Dentistry, Rochester, NY, USA. 3 Center for RNA Biology, University of Rochester School of Medicine and…

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New design strategies for ultra-specific CRISPR-Cas13a-based RNA detection with single-nucleotide mismatch sensitivity

doi: 10.1093/nar/gkad1132. Online ahead of print. Affiliations Expand Affiliations 1 Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, Rochester, NY, USA. 2 Center for RNA Biology, School of Medicine and Dentistry, University of Rochester, Rochester, NY, USA. 3 Department of Biomedical Genetics, School of Medicine…

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Two mitochondrial HMG-box proteins, Cim1 and Abf2, antagonistically regulate mtDNA copy number in Saccharomyces cerevisiae | Nucleic Acids Research

Abstract The mitochondrial genome, mtDNA, is present in multiple copies in cells and encodes essential subunits of oxidative phosphorylation complexes. mtDNA levels have to change in response to metabolic demands and copy number alterations are implicated in various diseases. The mitochondrial HMG-box proteins Abf2 in yeast and TFAM in mammals…

Continue Reading Two mitochondrial HMG-box proteins, Cim1 and Abf2, antagonistically regulate mtDNA copy number in Saccharomyces cerevisiae | Nucleic Acids Research

ESRP1 controls biogenesis and function of a large abundant multiexon circRNA

doi: 10.1093/nar/gkad1138. Online ahead of print. Dawei Liu  1 , B Kate Dredge  1 , Andrew G Bert  1 , Katherine A Pillman  1   2 , John Toubia  1   3 , Wenting Guo  4 , Boris J A Dyakov  5   6 , Melodie M Migault  1 , Vanessa M Conn  1   7 , Simon J…

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Population-specific distribution of TPMT deficiency variants

Introduction Thiopurine S-methyltransferase (TPMT) is a cytoplasmic enzyme that catalyzes the S-methylation of purine analogs, including azathioprine, 6-mercaptopurine (6-MP), and thioguanine.1 The metabolism of these drugs results in two types of metabolites: S-methylmercaptopurine and S-methylthioguanine, which are generally described as inactive metabolites, and S-methyl-thioinosine monophosphate, an inhibitor of de novo…

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Pairwise Alignment, Multiple Alignment, and BLAST

Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410 CrossRef  CAS  PubMed  Google Scholar  Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database…

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Exome-wide benchmark of difficult-to-sequence regions using short-read next-generation dna sequencing

doi: 10.1093/nar/gkad1140. Online ahead of print. Atsushi Hijikata  1 , Mikita Suyama  2 , Shingo Kikugawa  3 , Ryo Matoba  3 , Takuya Naruto  4 , Yumi Enomoto  4 , Kenji Kurosawa  4   5 , Naoki Harada  6 , Kumiko Yanagi  7 , Tadashi Kaname  7 , Keisuke Miyako  8 , Masaki Takazawa  8 , Hideo Sasai  8   9 , Junichi…

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Transformer-based tool recommendation system in Galaxy | BMC Bioinformatics

Kumar A, Rasche H, Grüning B, Backofen R. Tool recommender system in Galaxy using deep learning. GigaScience. 2021. doi.org/10.1093/gigascience/giaa152. Article  PubMed  PubMed Central  Google Scholar  The galaxy community: the galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update. Nucleic Acids Res 50(W1):W345-W35104 2022. (2022). doi.org/10.1093/nar/gkac247 Gil Y, Ratnakar…

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Chromosome-scale genome of the human blood fluke Schistosoma mekongi and its implications for public health | Infectious Diseases of Poverty

Barnett R. Schistosomiasis. (1474–547X (Electronic)). Steinmann P, Keiser J, Bos R, Tanner M, Utzinger J. Schistosomiasis and water resources development: systematic review, meta-analysis, and estimates of people at risk. Lancet Infect Dis. 2006;6(7):411–25. Article  PubMed  Google Scholar  Uthailak N, Adisakwattana P, Thiangtrongjit T, Limpanont Y, Chusongsang P, Chusongsang Y, et…

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Sequence-Based Classification and Identification | SpringerLink

Adékambi T, Drancourt M, Raoult D (2009) The rpoB gene as a tool for clinical microbiologists. Trends Microbiol 17:37–45 CrossRef  PubMed  Google Scholar  Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410 CrossRef  CAS  PubMed  Google Scholar  Arahal DR,…

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Anopheles gambiae on remote islands in the Indian Ocean: origins and prospects for malaria elimination by genetic modification of extant populations

Irish, S. R., Kyalo, D., Snow, R. W. & Coetzee, M. Updated list of Anopheles species (Diptera: Culicidae) by country in the Afrotropical Region and associated islands. Zootaxa 4747(3), 401–449. doi.org/10.1646/zootaxa.4747.3.1 (2020). Article  Google Scholar  Jacques, B. Les moustiques de l’archipel Comores. Série Entomologie Médicale et Parasitologie 15(2), 153–170 (1977)….

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The Efg1-Bud22 dimer associates with the U14 snoRNP contacting the 5′ rRNA domain of an early 90S pre-ribosomal particle

doi: 10.1093/nar/gkad1109. Online ahead of print. Affiliations Expand Affiliation 1 Biochemie-Zentrum der Universität Heidelberg (BZH), Im Neuenheimer Feld 328, 69120 Heidelberg, Germany. Item in Clipboard Olga Beine-Golovchuk et al. Nucleic Acids Res. 2023. Show details Display options Display options Format AbstractPubMedPMID doi: 10.1093/nar/gkad1109. Online ahead of print. Affiliation 1 Biochemie-Zentrum der Universität…

Continue Reading The Efg1-Bud22 dimer associates with the U14 snoRNP contacting the 5′ rRNA domain of an early 90S pre-ribosomal particle

Molecular complexity of diffuse large B-cell lymphoma: a molecular perspective and therapeutic implications

Agarwal P, Kabir FM, DeInnocentes P, Bird RC (2012) Tumor suppressor gene p16/INK4A/CDKN2A and its role in cell cycle exit, differentiation, and determination of cell fate. Tumor Suppressor Genes 3(10):27882 Google Scholar  Alaggio R, Amador C, Anagnostopoulos I, Attygalle AD, Araujo IBO, Berti E et al (2022) The 5th edition…

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Draft genome sequencing of halotolerant bacterium Salinicola sp. DM10 unravels plant growth-promoting potentials

Afridi MS, Amna S et al (2019) Induction of tolerance to salinity in wheat genotypes by plant growth promoting endophytes: Involvement of ACC deaminase and antioxidant enzymes. Plnat Physiol Biochem 139:569–577. doi.org/10.1016/j.plaphy.2019.03.041 Article  CAS  Google Scholar  Ali S, Charles TC, Glick BR (2014) Amelioration of high salinity stress damage by…

Continue Reading Draft genome sequencing of halotolerant bacterium Salinicola sp. DM10 unravels plant growth-promoting potentials

Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis

Soltis, D. E. et al. Polyploidy and angiosperm diversification. Am. J. Bot. 96, 336–348 (2009). Article  PubMed  Google Scholar  Van de Peer, Y., Mizrachi, E. & Marchal, K. The evolutionary significance of polyploidy. Nat. Rev. Genet. 18, 411–424 (2017). Article  PubMed  Google Scholar  Amborella Genome Project et al. The Amborella…

Continue Reading Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis

New Method Removes Background Noise from CITE-Seq Data

CITE-seq, short for cellular indexing of transcriptomes and epitopes, employs RNA sequencing to simultaneously measure cell surface protein and transcriptomic data in a single cell readout. Image Credit: Design_Cells/Shutterstock.com The concurrent study of cells provides unprecedented insights into novel cell types, disease states, or other conditions. While CITE-seq addresses the…

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CRISPR/Cas12a trans-cleavage triggered by cleavage ligation of dumbbell DNA for specific detection of human 8-oxoguanine DNA glycosylase activity

Poetsch AR (2020) The genomics of oxidative DNA damage, repair, and resulting mutagenesis. Comput Struct Biotechnol J 18:207–219. doi.org/10.1016/j.csbj.2019.12.013 Article  CAS  PubMed  PubMed Central  Google Scholar  Ba X, Aguilera-Aguirre L, Rashid QT, Bacsi A, Radak Z, Sur S, Hosoki K, Hegde ML, Boldogh I (2014) The role of 8-oxoguanine DNA…

Continue Reading CRISPR/Cas12a trans-cleavage triggered by cleavage ligation of dumbbell DNA for specific detection of human 8-oxoguanine DNA glycosylase activity

Exploring the interplay between PARP1 and circRNA biogenesis and function

Review Wiley Interdiscip Rev RNA . 2023 Nov 13:e1823. doi: 10.1002/wrna.1823. Online ahead of print. Affiliations Expand Affiliations 1 Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, Kentucky, USA. 2 Department of Epigenetics, Van Andel Research Institute, Grand Rapids, Michigan, USA. Item in Clipboard Review Hejer Dhahri et al….

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Inhibition of providencia vermicola FabD

Introduction Microbial resistance has become a problem in the contemporary medical environment due to the inadequate development of new antibiotics and the asinine prescription of antibiotics in both developed and developing nations. Antimicrobial resistance (AMR), which affects wealthy and developing nations, is a global concern.1 AMR is a problem for…

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Predicting circRNA-disease association using heterogeneous network and meta-path

[1] H. L. Sanger, G. Klotz, D. Riesner, H. J. Gross, A. K. Kleinschmidt, Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures, Proc. Natl. Acad. Sci. USA, 73 (1976), 3852–3856. doi.org/10.1073/pnas.73.11.3852 doi: 10.1073/pnas.73.11.3852 …

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Researchers identify key factors involved in DNA repair mechanism

Researchers from Tokyo Metropolitan University have identified key factors in the mechanism behind DNA repair in our bodies. For the first time, they showed that the “proofreading” portion of the DNA replicating enzyme polymerase epsilon ensured safe termination of replication at damaged portions of the DNA strand, ultimately saving DNA…

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CRISPR Revisited: Quantum Biology and AI Merge Make Genome Editing Processes Revolutionary; and (It): Morphology & Genome Editing Machines

A group of scientists at Oak Ridge National Laboratory have developed new techniques for editing microbial genomes, including use of CRISPR Cas9 technology based on quantum biology and understandable artificial intelligence, in hopes of enabling more precise genetic modifications in microbes and expanding the renewable energy and chemical manufacturing opportunities….

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When will RNA get its AlphaFold moment? | Nucleic Acids Research

Abstract The protein structure prediction problem has been solved for many types of proteins by AlphaFold. Recently, there has been considerable excitement to build off the success of AlphaFold and predict the 3D structures of RNAs. RNA prediction methods use a variety of techniques, from physics-based to machine learning approaches….

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Genome interpretation in a federated learning context allows the multi-center exome-based risk prediction of Crohn’s disease patients

Goodwin, S., McPherson, J. D. & Richard McCombie, W. Coming of age: Ten years of next-generation sequencing technologies. Nat. Rev. Genet. 17(6), 333–351 (2016). Article  CAS  PubMed  PubMed Central  Google Scholar  Van Dijk, E. L., Auger, H., Jaszczyszyn, Y. & Thermes, C. Ten years of next-generation sequencing technology. Trends Genet….

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Study explores limits of DNA structure and function, may expand use of modified DNA in medicine

Credit: Nucleic Acids Research (2023). DOI: 10.1093/nar/gkad893 A team led by Professor Michal Hocek at IOCB Prague has explored the limits of the structure and function of DNA and successfully pushed forward known boundaries. Their latest research has just been published in Nucleic Acids Research. They prove that even heavily…

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Scientists use quantum biology, AI to sharpen genome editing tool

Graphical abstract. Credit: Nucleic Acids Research (2023). DOI: 10.1093/nar/gkad736 Scientists at Oak Ridge National Laboratory have used their expertise in quantum biology, artificial intelligence and bioengineering to improve how CRISPR Cas9 genome editing tools work on organisms like microbes that can be modified to produce renewable fuels and chemicals. CRISPR…

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LAMP assay coupled with a CRISPR/Cas12a system for the rapid and ultrasensitive detection of porcine circovirus-like virus in the field

Shulman LM, Davidson I. Viruses with circular single-stranded DNA genomes are everywhere! Annual Rev Virolog. 2017;4(1):159–80. doi.org/10.1146/annurev-virology-101416-041953. Article  CAS  Google Scholar  Yang K, Zhang M, Liu Q, Cao Y, Zhang W, Liang Y, Song X, Ji K, Shao Y, Qi K, Tu J. Epidemiology and evolution of emerging porcine circovirus-like…

Continue Reading LAMP assay coupled with a CRISPR/Cas12a system for the rapid and ultrasensitive detection of porcine circovirus-like virus in the field

Scientists develop open archive of plant images and related phenotypic traits

Graphical abstract. Credit: Nucleic Acids Research (2023). DOI: 10.1093/nar/gkad975 Plant images contain a wealth of information that reflects key phenotypic characteristics such as color, shape, growth, and health status of plants. High-throughput plant phenotypic collection technology has been widely applied in plant phenomics, generating numerous images and image-based traits (i-traits)…

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Rapid in situ RNA imaging based on Cas12a thrusting strand displacement reaction | Nucleic Acids Research

Abstract RNA In situ imaging through DNA self-assembly is advantaged in illustrating its structures and functions with high-resolution, while the limited reaction efficiency and time-consuming operation hinder its clinical application. Here, we first proposed a new strand displacement reaction (SDR) model (Cas12a thrusting SDR, CtSDR), in which Cas12a could overcome…

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Phage therapy minimally affects the water microbiota in an Atlantic salmon (Salmo salar) rearing system while still preventing infection

Shreiner, A. B., Kao, J. Y. & Young, V. B. The gut microbiome in health and in disease. Curr. Opin. Gastroenterol. 31, 69–75. doi.org/10.1097/Mog.0000000000000139 (2015). Article  CAS  PubMed  PubMed Central  Google Scholar  Selber-Hnatiw, S. et al. Human gut microbiota: Toward an ecology of disease. Front. Microbiol. 8, 1265. doi.org/10.3389/fmicb.2017.017E5 (2017)….

Continue Reading Phage therapy minimally affects the water microbiota in an Atlantic salmon (Salmo salar) rearing system while still preventing infection

Characterization of the genomic alterations in poorly differentiated thyroid cancer

Cancer Genome Atlas Research, N. Integrated genomic characterization of papillary thyroid carcinoma. Cell 159, 676–690. doi.org/10.1016/j.cell.2014.09.050 (2014). Sherman, S. I. Thyroid carcinoma. Lancet 361, 501–511. doi.org/10.1016/s0140-6736(03)12488-9 (2003). Article  PubMed  Google Scholar  Tong, J. et al. Poorly differentiated thyroid carcinoma: a clinician’s perspective. Eur. Thyroid J. 11, doi.org/10.1530/ETJ-22-0021 (2022). Asioli, S….

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The Hidden Mechanisms Behind Rapid Tumor Evolution: AR Amplification on Extrachromosomal DNA I Prostate Cancer

Read the Full Video Transcript Andrea Miyahira: Hi everyone, I’m Andrea Miyahira at the Prostate Cancer Foundation. Presenting today is Dr. Scott Dehm, a professor at the University of Minnesota on his recent paper, “Co-evolution of AR gene copy number and structural complexity in endocrine therapy resistant prostate cancer,” published…

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Researchers develop curated and integrated biomarker knowledgebase for animals

Graphical Abstract. Credit: Nucleic Acids Research (2023). DOI: 10.1093/nar/gkad873 Biological markers, commonly referred to markers or biomarkers, serve as quantifiable and measurable indicators of certain biological states in normal and pathogenic processes, as well as potential pharmacologic responses to therapeutics. They serve as the foundation for diagnostic analysis, the identification…

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Insights into expression patterns and immunotherapy response prediction

[1] D. Schadendorf, D. E. Fisher, C. Garbe, J. E. Gershenwald, J. Grob, A. Halpern, et al., Melanoma, Nat. Rev. Dis. Primers, 1 (2015), 15003. doi.org/10.1038/nrdp.2015.3 doi: 10.1038/nrdp.2015.3 [2] A. M. M. Eggermont, A. Spatz, C….

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GenBank 2024 Update – PubMed

doi: 10.1093/nar/gkad903. Online ahead of print. Affiliations Expand Affiliation 1 National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA. Item in Clipboard Eric W Sayers et al. Nucleic Acids Res. 2023. Show details Display options Display options Format AbstractPubMedPMID…

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Increased binding of anti-dsDNA antibodies to short oligonucleotides modified with topoisomerase I reveals a potential new enzyme function independent from DNA relaxation | BMC Research Notes

Lee MP, Brown SD, Chen A, Hsieh TS. DNA topoisomerase I is essential in Drosophila melanogaster. Proc Natl Acad Sci U S A. 1993;90(14):6656–60. doi.org/10.1073/pnas.90.14.6656. [published Online First: Epub Date]|. Article  CAS  PubMed  PubMed Central  Google Scholar  Morham SG, Kluckman KD, Voulomanos N, Smithies O. Targeted disruption of the mouse…

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Genetic diversity and phylogenetic analyses of Asian lineage Zika virus whole genome sequences derived from Culex quinquefasciatus mosquitoes and urine of patients during the 2020 epidemic in Thailand

Hayes, E. B. Zika virus outside Africa. Emerg. Infect. Dis. 15(9), 1347–1350. doi.org/10.3201/eid1509.090442 (2009). Article  PubMed  PubMed Central  Google Scholar  Faye, O. et al. Molecular evolution of Zika virus during its emergence in the 20th century. PLoS Negl. Trop. Dis. 8(1), e2636. doi.org/10.1371/journal.pntd.0002636 (2014). Article  CAS  PubMed  PubMed Central  Google…

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Mycobacterium tuberculosis Sub Lineage 4.2.2/SIT149 as DR

Introduction Antimicrobial resistance is a hidden global pandemic that shattered over 4.9 million people in 2019 alone, and the burden is highest, mainly in low-resource settings.1 Drug-resistant tuberculosis (DR-TB) caused by Mycobacterium tuberculosis (Mtb) complex (MTBC), which is resistant to one or more anti-TB drugs, is a leading global public…

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Unmapped short reads from whole-genome sequencing indicate potential infectious pathogens in german black Pied cattle | Veterinary Research

Stratton M (2008) Genome resequencing and genetic variation. Nat Biotechnol 26:65–66. doi.org/10.1038/nbt0108-65 Article  PubMed  Google Scholar  Shendure J, Ji H (2008) Next-generation DNA sequencing. Nat Biotechnol 26:1135–1145. doi.org/10.1038/nbt1486 Article  PubMed  Google Scholar  Li H, Durbin R (2010) Fast and accurate long-read alignment with Burrows-Wheeler transform. Bioinformatics 26:589–595. doi.org/10.1093/bioinformatics/btp698 Article  PubMed …

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Microbiome variations among age classes and diets of captive Asian elephants (Elephas maximus) in Thailand using full-length 16S rRNA nanopore sequencing

Phuangkum, P., Lair, R. C. & Angkawanith, T. Elephant Care Manual for Mahouts and Camp Managers (FAO Regional Office for Asia and the Pacific, 2005). Google Scholar  Sukumar, R. The Asian Elephant: Ecology and Management (Cambridge University Press, 1992). Google Scholar  Bansiddhi, P., Brown, J. L., Thitaram, C., Punyapornwithaya, V….

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Genomic Characteristics of Carbapenem-Resistant Klebsiella pneumoniae

Introduction Klebsiella pneumoniae (K. pneumoniae), which belongs to the family Enterobacteriaceae, is a common nosocomial pathogen that causes a variety of human infections, including bloodstream infection, respiratory tract infection, urinary tract infection, and abdominal infection.1,2 Carbapenems are generally considered to be a last choice for the treatment of multi-drug resistant…

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Crohn’s Disease treatment after failure of anti-TNF therapy

Introduction Crohn’s Disease (CD) is a typical group of inflammatory bowel disease, a chronic intestinal disease with an unclear cause that fluctuates between clinical remission and relapse. The disease may affect the entirety of the gastrointestinal tract, frequently manifesting as segmental, asymmetric, and transmural lesions. 21–47% of patients present with…

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Sci-Hub | PheGWAS: A new dimension to visualize GWAS across multiple phenotypes. Bioinformatics

Sci-Hub | PheGWAS: A new dimension to visualize GWAS across multiple phenotypes. Bioinformatics | 10.1093/bioinformatics/btz944 ◂ ↓ save George, G., Gan, S., Huang, Y., Appleby, P., Nar, A. S., Venkatesan, R., … Doney, A. S. F. (2019). PheGWAS: A new dimension to visualize GWAS across multiple phenotypes. Bioinformatics. doi:10.1093/bioinformatics/btz944  10.1093/bioinformatics/btz944…

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Integration of phenotypic, qPCR and genome sequencing methodologies for the detection of antimicrobial resistance and virulence in clinical isolates of a tertiary hospital, India

Azimi A, Peymani A, Pour PK (2018) Phenotypic and molecular detection of metallo-β-lactamase-producing Pseudomonas aeruginosa isolates from patients with burns in Tehran. Iran Rev Soc Bras Med Tro 51:610–615. doi.org/10.1590/0037-8682-0174-2017 Article  Google Scholar  Aziz RK, Bartels D, Best AA et al (2008) The RAST server: rapid annotations using subsystems technology….

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Investigation of LGALS2 expression in the TCGA database reveals its clinical relevance in breast cancer immunotherapy and drug resistance

Bray, F., Laversanne, M., Weiderpass, E. & Soerjomataram, I. The ever-increasing importance of cancer as a leading cause of premature death worldwide. Cancer 127, 3029–3030. doi.org/10.1002/cncr.33587 (2021). Article  PubMed  Google Scholar  Xia, C. et al. Cancer statistics in China and United States, 2022: Profiles, trends, and determinants. Chin. Med. J….

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Bacterial networks in Atlantic salmon with Piscirickettsiosis

Verschuere, L., Rombaut, G., Sorgeloos, P. & Verstraete, W. Probiotic bacteria as biological control agents in aquaculture. Microbiol. Mol. Biol. Rev. 64(4), 655–671 (2000). Article  CAS  PubMed  PubMed Central  Google Scholar  Gomez, G. D. & Balczar, J. L. A review on the interactions between gut microbiota and innate immunity of…

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Diabetic Foot Ulcer and the Bacterial Colony of the Skin

Introduction Diabetes is a growing public health problem with increasing prevalence and mortality that threatens the health of people globally.1 In 2021, the global prevalence of diabetes in adults aged 20 to 79 years was estimated at 537 million, mainly caused by type 2 diabetes, and the number is expected…

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A Comparative Analysis of Mitochondrial Genome Mutation Spectra in Human Populations

Brown W.M., George M., Wilson A.C. 1979. Rapid evolution of animal mitochondrial DNA. Proc. Natl. Acad. Sci. U. S. A. 76, 1967–1971. Article  CAS  PubMed  PubMed Central  Google Scholar  Giles R.E., Blanc H., Cann H.M., Wallace D.C. 1980. Maternal inheritance of human mitochondrial DNA. Proc. Natl. Acad. Sci. U. S….

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The recovery of the microbial community after plaque removal depends on periodontal health status

Jin, L. & Group, E. Initiator paper. Interprofessional education and multidisciplinary teamwork for prevention and effective management of periodontal disease. J. Int. Acad. Periodontol. 17, 74–79 (2015). PubMed  Google Scholar  Kassebaum, N. J. et al. Global burden of severe periodontitis in 1990–2010: a systematic review and meta-regression. J. Dent. Res….

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Functional analysis of differentially expressed circular RNAs in sheep subcutaneous fat | BMC Genomics

Chikwanha, O. C., P. Vahmani, V. Muchenje, M. E. R. Dugan and C. Mapiye (2018). Nutritional enhancement of sheep meat fatty acid profile for human health and wellbeing. Food research international (Ottawa, Ont.) 104: 25–38. doi.org/10.1016/j.foodres.2017.05.005. Khan R, Raza SHA, Schreurs N, Xiaoyu W, Hongbao W, Ullah I, et al….

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Virulence Characteristics of Salmonella Enteritidis

Introduction As an important zoonosis pathogen, Salmonella is widely distributed in nature and one of the four major pathogens causing global diarrhea diseases.1 Salmonella has six subspecies and 2659 serotypes, among which Salmonella Enteritidis (S. Enteritidis) are the most common serotypes causing Salmonella outbreaks.1 S. Enteritidis has a wide variety…

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Integrative single-nucleus multi-omics analysis prioritizes candidate cis and trans regulatory networks and their target genes in Alzheimer’s disease brains | Cell & Bioscience

Lo MT, Kauppi K, Fan CC, Sanyal N, Reas ET, Sundar VS, Lee WC, Desikan RS, McEvoy LK, Chen CH, Alzheimer’s Disease Genetics, C. Identification of genetic heterogeneity of Alzheimer’s disease across age. Neurobiol Aging. 2019;84(243):e241-243. doi.org/10.1016/j.neurobiolaging.2019.02.022. Article  Google Scholar  Nacmias B, Bagnoli S, Piaceri I, Sorbi S. Genetic heterogeneity…

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RNA sequencing and gene expression analysis in a Mouse model

Introduction Chronic obstructive pulmonary disease (COPD) is a condition that is characterized by persistent respiratory symptoms and airflow limitations that are not fully reversible. The severe complications of the disease may adversely affect its morbidity and mortality.1 According to World Health Organization (WHO) statistics, over 3 million people per year…

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RNAseq based variant dataset in a black poplar association panel | BMC Research Notes

Dickmann DI, Kuzovkina J. Poplars and willows of the world, with emphasis on silviculturally important species. In: Isebrands JG, Richardson J, editors. Poplars and willows: trees for society and the environment. Wallingford: CABI; 2014. Google Scholar  Imbert E, Lefèvre F. Dispersal and gene flow of Populus nigra (Salicaceae) along a…

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Wide diagnostic and genotypic spectrum in patients with suspected mitochondrial disease | Orphanet Journal of Rare Diseases

Macken WL, Vandrovcova J, Hanna MG, Pitceathly RDS. Applying genomic and transcriptomic advances to mitochondrial medicine. Nat Rev Neurol. 2021;17(4):215–30. doi.org/10.1038/s41582-021-00455-2 Article  PubMed  Google Scholar  Gorman GS, Chinnery PF, DiMauro S, Hirano M, Koga Y, McFarland R, et al. Mitochondrial diseases. Nat Rev Dis Primers. 2016;2(1). doi.org/10.1038/nrdp.2016.80 Barcia G, Assouline…

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Whole transcriptome analysis in offspring whose fathers were exposed to a developmental insult: a novel avian model

Werboff, J. & Gottlier, J. S. Drug in pregnancy: Behavioral teratology. Obstet. Gynecol. Surv. 18, 420–423 (1963). Article  Google Scholar  Yanai, J. G. The effect of alcohol consumed by parent mice on the susceptibility to audiogenic seizure and the open-field behavior of their offspring. Behav. Genet. 3, 418 (1973). Google…

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Expression of a recombinant endolysin from bacteriophage CAP 10-3 with lytic activity against Cutibacterium acnes

Dessinioti, C. & Katsambas, A. Propionibacterium acnes and antimicrobial resistance in acne. Clin. Dermatol. 35, 163–167. doi.org/10.1016/J.clindermatol.2016.10.008 (2017). Article  PubMed  Google Scholar  Fitz-Gibbon, S. et al. Propionibacterium acnes strain populations in the human skin microbiome associated with acne. J. Invest. Dermatol. 133, 2152–2160. doi.org/10.1038/jid.2013.21 (2013). Article  CAS  PubMed  PubMed Central …

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Monomeric streptavidin phage display allows efficient immobilization of bacteriophages on magnetic particles for the capture, separation, and detection of bacteria

Zhou, Y., Marar, A., Kner, P. & Ramasamy, R. P. Charge-directed immobilization of bacteriophage on nanostructured electrode for whole-cell electrochemical biosensors. Anal. Chem. doi.org/10.1021/acs.analchem.6b03751 (2017). Article  PubMed  PubMed Central  Google Scholar  Bhardwaj, N., Bhardwaj, S. K., Mehta, J., Mohanta, G. C. & Deep, A. Bacteriophage immobilized graphene electrodes for impedimetric…

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Genome-Based Prediction of Bacterial Antibiotic Resistance

Abdelbary M, Basset P, Blanc D et al (2017) In: Tibayrenc M (ed) Genetics and evolution of infectious diseases: the evolution and dynamics of methicillin-resistant Staphylococcus aureus, 2nd edn. Elsevier, pp 553–572. ISBN: 9780127999425 CrossRef  Google Scholar  Allard MW, Stevens EL, Brown EW (2019) All for one and one for…

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Recent Advances in Metagenomic Approaches, Applications, and Challenge

Coughlan LM, Cotter PD, Hill C, Alvarez-Ordóñez A (2015) Biotechnological applications of functional metagenomics in the food and pharmaceutical industries. Front Microbiol 6:1–22. doi.org/10.3389/fmicb.2015.00672 Article  Google Scholar  Mirete S, Morgante V, González-Pastor JE (2016) Functional metagenomics of extreme environments. Curr Opin Biotechnol 38:143–149. doi.org/10.1016/j.copbio.2016.01.017 Article  CAS  PubMed  Google Scholar  Behzad…

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The Protein Structure Prediction Revolution and Its Implications for Medicine: 2023 Albert Lasker Basic Medical Research Award | Health Informatics | JAMA

The 2023 Albert Lasker Basic Medical Research Award has been presented to Demis Hassabis, PhD, and John Jumper, PhD, for the invention of AlphaFold, a revolutionary technology for predicting the 3-dimensional structure of proteins. Protein folding is one of the most important and complex organizing forces within the human cell,…

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First isolation of Rickettsia amblyommatis from Amblyomma mixtum in Colombia | Parasites & Vectors

Fang R, Blanton LS, Walker DH. Rickettsiae as emerging infectious agents. Clin Lab Med. 2017;37:383–400. doi.org/10.1016/j.cll.2017.01.009. Article  PubMed  Google Scholar  Verhoeve VI, Fauntleroy TD, Risteen RG, Driscoll TP, Gillespie JJ. Cryptic genes for interbacterial antagonism distinguish Rickettsia species infecting blacklegged ticks from other Rickettsia pathogens. Front Cell Infect Microbiol. 2022;12:880813….

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Orthogonal Validation: A Means To Strengthen Gene Editing and Gene Modulation Research

From RNA interference (RNAi) to CRISPR, there are several methods that researchers can use to manipulate gene function, each with its own strengths and weaknesses. Orthogonal validation – the synergistic use of different methods – makes genetic perturbation studies more robust. Utilizing complementary methods, including RNAi and CRISPR-knockout, -interference and…

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Total Flavonoids of Rhizoma Drynariae Treat Osteoarthritis

Introduction Osteoarthritis (OA) is a common degenerative joint disease characterized by chronic pain and ambulation limitation, affecting about 250 million people worldwide.1 With increased aging population, the OA incidence rapidly increases and OA has become a major cause of disability.2,3 The morbidity of OA is closely related to articular cartilage,…

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Revealing mechanism of Methazolamide for treatment of ankylosing spondylitis based on network pharmacology and GSEA

Braun, J. & Sieper, J. Ankylosing spondylitis. Lancet 369, 1379–1390. doi.org/10.1016/S0140-6736(07)60635-7 (2007). Article  PubMed  Google Scholar  Lai, S. W., Kuo, Y. H. & Liao, K. F. Incidence of inflammatory bowel disease in patients with ankylosing spondylitis. Ann. Rheum. Dis. 80, e144. doi.org/10.1136/annrheumdis-2019-216362 (2021). Article  PubMed  Google Scholar  Bukowski, B. R….

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Extensive natural Agrobacterium-induced transformation in the genus Camellia

Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410. doi.org/10.1016/S0022-2836(05)80360-2 Article  CAS  PubMed  Google Scholar  Cai Y, Meng J, Cui Y, Tian M, Shi Z, Wang J (2022) Transcriptome and targeted hormone metabolome reveal the molecular mechanisms of flower…

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Bioconductor – Linnorm

DOI: 10.18129/B9.bioc.Linnorm   This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see Linnorm. Linear model and normality based normalization and transformation method (Linnorm) Bioconductor version: 3.16 Linnorm is an algorithm for normalizing and transforming RNA-seq, single cell RNA-seq, ChIP-seq count data or any large…

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Paired ATAC- and RNA-seq offer insight into the impact of HIV on alveolar macrophages: a pilot study

Fitzpatrick, M. E., Kunisaki, K. M. & Morris, A. Pulmonary disease in HIV-infected adults in the era of antiretroviral therapy. AIDS 32, 277–292. doi.org/10.1097/qad.0000000000001712 (2018). Article  PubMed  Google Scholar  Brown, J. & Lipman, M. Community-acquired pneumonia in HIV-Infected individuals. Curr. Infect. Dis. Rep. 16, 397. doi.org/10.1007/s11908-014-0397-x (2014). Article  PubMed  PubMed…

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Effects of oxygen availability on mycobenthic communities of marine coastal sediments

LaRowe, D. E. et al. The fate of organic carbon in marine sediments—New insights from recent data and analysis. Earth-Sci. Rev. 204, ARTN 103146. doi.org/10.1016/j.earscirev.2020.103146 (2020). Article  CAS  Google Scholar  Orsi, W. D. et al. Carbon assimilating fungi from surface ocean to subseafloor revealed by coupled phylogenetic and stable isotope…

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The genetic variability of grapevine Pinot gris virus (GPGV) in Australia | Virology Journal

Giampetruzzi A, Roumi V, Roberto R, Malossini U, Yoshikawa N, La Notte P, et al. A new grapevine virus discovered by deep sequencing of virus-and viroid-derived small RNAs in Cv Pinot gris. Virus Res. 2012;163(1):262–8. doi.org/10.1016/j.virusres.2011.10.010. Article  CAS  PubMed  Google Scholar  Bertazzon N, Forte V, Filippin L, Causin R, Maixner…

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Integrated bioinformatics analysis of noncoding RNAs with tumor immune microenvironment in gastric cancer

Sung, H. et al. Global Cancer Statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J. Clin. 71, 209–249. doi.org/10.3322/caac.21660 (2021). Article  PubMed  Google Scholar  Siegel, R. L., Miller, K. D., Fuchs, H. E. & Jemal, A. Cancer statistics, 2022. CA A…

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RNA-sequencing and bioinformatics analysis | COPD

Introduction COPD, a common preventable and treatable disease characterized by persistent airflow limitation and respiratory symptoms, is associated with exposure to harmful environments. COPD is currently the third leading cause of death globally. The high incidence and mortality of COPD, which seriously threaten human health, represent a public health problem…

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Selenobaculum gbiensis gen. nov. sp. nov., a new bacterium isolated from the gut microbiota of a patient with Crohn’s disease

Wu, H. J. & Wu, E. The role of gut microbiota in immune homeostasis and autoimmunity. Gut Microbes 3, 4–14. doi.org/10.4161/gmic.19320 (2012). Article  PubMed  PubMed Central  Google Scholar  Zheng, D., Liwinski, T. & Elinav, E. Interaction between microbiota and immunity in health and disease. Cell Res. 30, 492–506. doi.org/10.1038/s41422-020-0332-7 (2020)….

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Integrated unbiased multiomics defines disease-independent placental clusters in common obstetrical syndromes | BMC Medicine

Barker DJ. The origins of the developmental origins theory. J Intern Med. 2007;261:412–7. Article  CAS  PubMed  Google Scholar  Barker DJ, Gluckman PD, Godfrey KM, Harding JE, Owens JA, Robinson JS. Fetal nutrition and cardiovascular disease in adult life. Lancet. 1993;341:938–41. Article  CAS  PubMed  Google Scholar  Cain MA, Salemi JL, Tanner…

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Unraveling virulence determinants in extended-spectrum beta-lactamase-producing Escherichia coli from East Africa using whole-genome sequencing | BMC Infectious Diseases

Mboowa G, Sserwadda I, Bulafu D, Chaplain D, Wewedru I, Seni J, et al. Transmission Dynamics of Antimicrobial Resistance at a National Referral Hospital in Uganda. Am J Trop Med Hyg. 2021;105(2):498–506. Article  CAS  PubMed  PubMed Central  Google Scholar  Rossolini GM, Arena F, Pecile P. Pollini SJCoip. Update on the…

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Isolation of Spirosoma foliorum sp. nov. from the fallen leaf of Acer palmatum by a novel cultivation technique

Locey, K. J. & Lennon, J. T. Scaling laws predict global microbial diversity. PNAS 113, 5970–5975. doi.org/10.1073/pnas.1521291113 (2016). Article  ADS  CAS  PubMed  PubMed Central  Google Scholar  Hahn, M. W., Koll, U. & Schmidt, J. The Structure and Function of Aquatic Microbial Communities (Springer International Publishing, 2019). Rosenberg, E., DeLong, E….

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