Tag: LIU
Human fetal cerebellar cell atlas informs medulloblastoma origin and oncogenesis
Wang, J., Garancher, A., Ramaswamy, V. & Wechsler-Reya, R. J. Medulloblastoma: from molecular subgroups to molecular targeted therapies. Annu. Rev. Neurosci. 41, 207–232 (2018). Article CAS PubMed Google Scholar Cavalli, F. M. G. et al. Intertumoral heterogeneity within medulloblastoma subgroups. Cancer Cell 31, 737–754.e736 (2017). Article CAS PubMed PubMed Central …
The circRNA expression profile of colorectal inflammatory cancer transformation revealed potential predictive biomarkers
Cite this Article How to cite Lu L, Liu Y, Zhang G, Xu Y, Hu D, Ji G, Xu H, . The circRNA expression profile of colorectal inflammatory cancer transformation revealed potential predictive biomarkers. Aging (Albany NY). 2022 Nov 29; . doi.org/10.18632/aging.204406 [Epub ahead of print] Copy or Download citation:…
Unexpected absence of ribosomal protein genes from metagenome-assembled genomes
Hug LA, Baker BJ, Anantharaman K, Brown CT, Probst AJ, Castelle CJ, et al. A new view of the tree of life. Nat Microbiol. 2016;1:16048. Article PubMed Google Scholar Castelle CJ, Wrighton KC, Thomas BC, Hug LA, Brown CT, Wilkins MJ, et al. Genomic expansion of domain archaea highlights roles…
An anti-CD98 antibody displaying pH-dependent Fc-mediated tumour-specific activity against multiple cancers in CD98-humanized mice
Mastroberardino, L. et al. Amino-acid transport by heterodimers of 4F2hc/CD98 and members of a permease family. Nature 395, 288–291 (1998). Article CAS PubMed Google Scholar Nakamura, E. et al. 4F2 (CD98) heavy chain is associated covalently with an amino acid transporter and controls intracellular trafficking and membrane topology of 4F2…
Dementia with Lewy bodies post-mortem brains reveal differentially methylated CpG sites with biomarker potential
Weisman, D. & McKeith, I. Dementia with Lewy Bodies. Semin. Neurol. 27, 042–047 (2007). Article Google Scholar Foguem, C. & Manckoundia, P. Lewy Body Disease: Clinical and Pathological “Overlap Syndrome” Between Synucleinopathies (Parkinson Disease) and Tauopathies (Alzheimer Disease). Curr. Neurol. Neurosci. Rep. 2018 18:5 18, 1–9 (2018). CAS Google Scholar …
Assessing spermatozoal small ribonucleic acids and their relationship to blastocyst development in idiopathic infertile males
Vander, B. M. & Wyns, C. Fertility and infertility: Definition and epidemiology. Clin. Biochem. 62, (2018). Sun, H. et al. Global, regional, and national prevalence and disability-adjusted life-years for infertility in 195 countries and territories, 1990–2017: Results from a global burden of disease study, 2017. Aging 11, 10952 (2019). Article …
Ancient origin and constrained evolution of the division and cell wall gene cluster in Bacteria
Miyakawa, T., Matsuzawa, H., Matsuhashi, M. & Sugino, Y. Cell wall peptidoglycan mutants of Escherichia coli K-12: existence of two clusters of genes, mra and mrb, for cell wall peptidoglycan biosynthesis. J. Bacteriol. 112, 950–958 (1972). Article CAS PubMed PubMed Central Google Scholar Ayala, J. A., Garrido, T., De Pedro,…
Exploring structure, microbiota, and metagenome functions of epigean and hypogean black deposits by microscopic, molecular and bioinformatic approaches
Spiro, T. G., Bargar, J. R., Sposito, G. & Tebo, B. M. Bacteriogenic manganese oxides. Acc. Chem. Res. 43, 2–9. doi.org/10.1021/ar800232a (2010). Article CAS PubMed Google Scholar Roitz, J. S., Flegal, A. R. & Bruland, K. W. The biogeochemical cycling of manganese in San Francisco Bay: Temporal and spatial variations…
Plasmidome in mcr-1 harboring carbapenem-resistant enterobacterales isolates from human in Thailand
Kumarasamy, K. K. et al. Emergence of a new antibiotic resistance mechanism in India Pakistan, and the UK: A molecular, biological, and epidemiological study. Lancet Infect. Dis. 10, 597–602 (2010). Article CAS PubMed PubMed Central Google Scholar Munoz-Price, L. S. et al. Clinical epidemiology of the global expansion of Klebsiella…
Mobile resistome of microbial communities and antimicrobial residues from drinking water supply systems in Rio de Janeiro, Brazil
Ilyas, M. et al. Environmental and health impacts of industrial wastewater effluents in Pakistan: A review. Rev. Environ. Health 34, 171–186 (2019). MathSciNet PubMed CAS Google Scholar Roy, M. A. et al. A Metagenomic approach to evaluating surface water quality in Haiti. Int. J. Environ. Res. Public Health 15, 2211…
Study identifies novel inhibitors against SARS-CoV-2 main protease
In a recent study posted to the bioRxiv* server, researchers at the University of Arizona screened ~11 million severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) main protease (MPro)-inhibiting small compounds in the ZINC15 database using a structure-based in-silico screening method. Study: Novel inhibitors against COVID-19 main protease suppressed viral infection. Image…
Vaccine Generates Immune Response Against Breast Cancer in Trial
Researchers in a new study describe the development of an experimental vaccine that could be used to prevent or treat an aggressive form of breast cancer, safely generating an immune response against an important driver of breast cancer growth. “Because this was not a randomized clinical trial, the results should…
ParseCNV2: efficient sequencing tool for copy number variation genome-wide association studies
Wang K, Li M, Hadley D, Liu R, Glessner J, Grant SF, et al. PennCNV: an integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Res. 2007;17:1665–74. Article CAS PubMed PubMed Central Google Scholar Chang CC, Chow CC, Tellier LC, Vattikuti S,…
The Next Generation of COVID-19 Vaccines and Boosters
The US Food and Drug Administration (FDA) emergency use authorization (EUA) for the first vaccines combating COVID-19 was a milestone in the 2020 pandemic. Due to this provision, Pfizer-BioNTech’s BNT162b2 (Comirnaty), Moderna’s mRNA-1273 (Spikevax), and Johnson & Johnson/Janssen’s COVID-19 vaccine (Ad26.COV2.S) received EUAs for COVID-19 prevention in December 2020, February…
Isolation of a Host-Confined Phage Metagenome Allows the Detection of Phages Both Capable and Incapable of Plaque Formation
doi: 10.1007/978-1-0716-2795-2_14. Affiliations Expand Affiliations 1 Institute of Microbiology and Genetics, Georg August University Göttingen, Göttingen, Germany. ines.friedrich@uni-goettingen.de. 2 Institute of Microbiology and Genetics, Georg August University Göttingen, Göttingen, Germany. rhertel@gwdg.de. 3 Institute of Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, Germany. rhertel@gwdg.de. Item in Clipboard Ines Friedrich et al. Methods Mol Biol. 2023….
731 Type VI A Cas13a In Cas13a direct repeat region of crRNA is composed of 5 6
7.3.1Type VI-A (Cas13a)In Cas13a, direct repeat region of crRNA is composed of 5–6 bp stem using Watsonand Crick base pairing with an unpaired 2 nt bulge (AA or AC) present at 30end ofstem, while loop region of stem contains 7–9 nt depending upon homologs ofCas13a. In addition, an 8–12 nt…
Shared mechanisms and crosstalk of COVID-19 and osteoporosis via vitamin D
Zhou, P. et al. A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature 579(7798), 270–273. doi.org/10.1038/s41586-020-2012-7 (2020). Article ADS CAS PubMed PubMed Central Google Scholar Lipsitch, M., Swerdlow, D. L. & Finelli, L. Defining the epidemiology of Covid-19—Studies needed. N. Engl. J. Med. 382(13), 1194–1196. doi.org/10.1056/NEJMp2002125…
IPO Raises $175M for Prime, Developer of “Search and Replace” Gene Editing Platform
Prime Medicine, the developer of a “search and replace” gene editing platform, has launched an upsized initial public offering (IPO) that raised $175 million in gross proceeds—about $24 million more than projected just last week. Prime finished its first day of trading at $15.37—nearly 10% below its IPO price of…
Simultaneous ultrasensitive ADP and ATP quantification based on CRISPR/Cas12a integrated ZIF-90@Ag3AuS2@Fe3O4 nanocomposites
doi: 10.1016/j.bios.2022.114784. Online ahead of print. Affiliations Expand Affiliations 1 Key Laboratory of Marine Environmental Corrosion and Bio-fouling, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China; University of the Chinese Academy of Sciences, Beijing, 100039, China; Open Studio for Marine Corrosion and Protection, Pilot National Laboratory for Marine…
Contrasting levels of hybridization across the two contact zones between two hedgehog species revealed by genome-wide SNP data
Ai H, Fang X, Yang B, Huang Z, Chen H, Mao L et al. (2015) Adaptation and possible ancient interspecies introgression in pigs identified by whole-genome sequencing. Nat Genet 47:217–225 CAS PubMed Article Google Scholar Alexander DH, Lange K (2011) Enhancements to the ADMIXTURE algorithm for individual ancestry estimation. BMC…
Optimization of sgRNA expression strategy to generate multiplex gene-edited pigs
[1] Fan ZY, Liu ZG, Xu K, Wu TW, Ruan JX, Zheng XM, et al. 2022. Long-term, multidomain analyses to identify the breed and allelic effects in MSTN-edited pigs to overcome lameness and sustainably improve nutritional meat production. Science China Life Sciences, 65(2): 362−375. doi:…
The comprehensive detection of miRNA and circRNA in the regulation of intramuscular and subcutaneous adipose tissue of Laiwu pig
Zhou, G. et al. Global comparison of gene expression profiles between intramuscular and subcutaneous adipocytes of neonatal landrace pig using microarray. Meat. Sci. 86(2), 440–450 (2010). CAS PubMed Article Google Scholar Alfaia, C. M. et al. Current feeding strategies to improve pork intramuscular fat content and its nutritional quality. Adv….
Emerging role of STING signalling in CNS injury: inflammation, autophagy, necroptosis, ferroptosis and pyroptosis | Journal of Neuroinflammation
Langlois JA, Rutland-Brown W, Wald MM. The epidemiology and impact of traumatic brain injury: a brief overview. J Head Trauma Rehabil. 2006;21:375–8. doi.org/10.1097/00001199-200609000-00001. Article PubMed Google Scholar Cao HQ, Dong ED. An update on spinal cord injury research. Neurosci Bull. 2013;29:94–102. doi.org/10.1007/s12264-012-1277-8. Article PubMed Google Scholar O’Donnell MJ, Xavier D,…
A causal association of ANKRD37 with human hippocampal volume
Lisman J, Buzsáki G, Eichenbaum H, Nadel L, Ranganath C, Redish AD. Viewpoints: how the hippocampus contributes to memory, navigation and cognition. Nat Neurosci. 2017;20:1434–47. CAS PubMed PubMed Central Article Google Scholar Kim EJ, Pellman B, Kim JJ. Stress effects on the hippocampus: a critical review. Learn Mem. 2015;22:411–6. PubMed …
Identification of unique DNA methylation sites in Kabuki syndrome using whole genome bisulfite sequencing and targeted hybridization capture followed by enzymatic methylation sequencing
Niikawa N, Matsuura N, Fukushima Y, Ohsawa T, Kajii T. Kabuki make-up syndrome: a syndrome of mentalretardation, unusual facies, large and protruding ears, and postnatal growth deficiency. J Pediatrics. 1981;99:565–9. CAS Article Google Scholar Kuroki Y, Suzuki Y, Chyo H, Hata A, Matsui I. A new malformation syndrome of long…
Population-level variation in enhancer expression identifies disease mechanisms in the human brain
Schizophrenia Working Group of the Psychiatric Genomics Consortium. Biological insights from 108 schizophrenia-associated genetic loci. Nature 511, 421–427 (2014). PubMed Central Article CAS Google Scholar Visscher, P. M. et al. 10 years of GWAS discovery: biology, function, and translation. Am. J. Hum. Genet. 101, 5–22 (2017). CAS PubMed PubMed Central …
Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora
Choo, L. M., Niissalo, M. A., Leong, P. K. F. & Khew, G. S. The complete plastome sequence of Gordonia penangensis Ridl. supports the transfer of Asian Gordonia into Polyspora (Theaceae). Phytotaxa 458, 159–166 (2020). Nguyet, H. N. L. et al. An updated checklist of Theaceae and a new species…
Modelling urea cycle disorders using iPSCs
Gebhardt, R. & Matz-Soja, M. Liver zonation: Novel aspects of its regulation and its impact on homeostasis. World J. Gastroenterol. 20, 8491–8504 (2014). PubMed PubMed Central Article Google Scholar Summar, M. L. et al. The incidence of urea cycle disorders. Mol. Genet Metab. 110, 179–180 (2013). CAS PubMed PubMed Central …
Engineered LwaCas13a with enhanced collateral activity for nucleic acid detection
doi: 10.1038/s41589-022-01135-y. Online ahead of print. Jie Yang # 1 , Yang Song # 2 3 , Xiangyu Deng 4 , Jeffrey A Vanegas 1 , Zheng You 1 , Yuxuan Zhang 2 3 , Zhengyan Weng 2 3 , Lori Avery 5 , Kevin D Dieckhaus 6 , Advaith Peddi 4 , Yang Gao 7 , Yi Zhang 8…
Single-cell multi-omics of human clonal hematopoiesis reveals that DNMT3A R882 mutations perturb early progenitor states through selective hypomethylation
Martincorena, I. et al. Somatic mutant clones colonize the human esophagus with age. Science 362, 911–917 (2018). CAS PubMed PubMed Central Google Scholar Yizhak, K. et al. RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues. Science 364, eaaw0726 (2019). CAS PubMed PubMed Central Google Scholar Yokoyama, A….
Plastomes of limestone karst gesneriad genera Petrocodon and Primulina, and the comparative plastid phylogenomics of Gesneriaceae
Features of the newly sequenced Petrocodon and Primulina plastomes Sizes of the nine newly sequenced plastomes of Petrocodon and Primulina range from 152,323 bp in Pr. medica (D.Fang ex W.T.Wang) Yin Z.Wang to 153,786 bp in Pr. cordata Mich.Möller & A.Weber (Tables 1, S1). These nine plastomes display the typical quadripartite structure…
Hidden paths to endless forms most wonderful: ecology latently shapes evolution of multicellular development in predatory bacteria
Carroll, S. B. Endless Forms Most Beautiful: The New Science of Evo Devo and the Making of the Animal Kingdom (Quercus, 2005). Dobzhansky, T. & Spassky, B. Genetics of natural populations. XI. Manifestation of genetic variants in Drosophila pseudoobscura in different environments. Genetics 29, 270–290 (1944). CAS PubMed PubMed Central …
Metagenomic Next-Generation Sequencing in the Diagnosis of Infectious
Introduction Infection due to myelosuppression after chemotherapy for malignancies is a common complication and cause of treatment-related death.1,2 In clinical practice, the traditional identification of pathogens relies heavily on laboratory capacity to detect common pathogenic microorganisms with discrete methods, such as assays for pathogen-specific antibodies, nucleic acids and antigens, and…
FBXW7 and Its Downstream NOTCH Pathway Could be Potential Indicators of Organ-Free Metastasis in Colorectal Cancer
doi: 10.3389/fonc.2021.783564. eCollection 2021. Dongzheng Li 1 , Shiye Jiang 1 , Xin Zhou 1 , Chengshuai Si 1 , Peng Shao 1 , Qian Jiang 1 , Liuqing Zhu 2 , Lu Shen 2 , Qi Meng 2 , Jiani C Yin 2 , Yang Shao 2 3 , Yueming Sun 4 , Liu Yang 1 Affiliations Expand Affiliations 1…
Effects of macrophages on the proliferation and cardiac differentiation of human induced pluripotent stem cells
%PDF-1.4 % 1 0 obj > endobj 2 0 obj >stream 2022-07-17T07:34:20 Adobe InDesign 15.0 (Windows) 2022-07-18T08:10:34+02:00 2022-07-18T08:10:34+02:00 Adobe PDF Library 15.0; modified using iText® 5.3.5 ©2000-2012 1T3XT BVBA (SPRINGER SBM; licensed version) Macrophage;iPSCs;Cardiac differentiation;Inflammation False application/pdf doi.org/10.1186/s12964-022-00916-1 BioMed Central Cell Communication and Signaling, doi.org/10.1186/s12964-022-00916-1 Macrophage iPSCs Cardiac differentiation Inflammation…
Bioinformatics Analysis of the Key Genes and Pathways in Multiple Myel
Introduction Multiple myeloma is a B-cell malignancy characterized by the malignant proliferation of clonal plasma cells in bone marrow,1 It is the second most common hematological malignancy after lymphoma.2 The age-standardised rate (ASR) of multiple myeloma incidence was 1·78 (95% UI 1·69-1·87) per 100 000 people globally and mortality was…
KGDCMI: A New Approach for Predicting circRNA-miRNA Interactions From Multi-Source Information Extraction and Deep Learning
doi: 10.3389/fgene.2022.958096. eCollection 2022. Affiliations Expand Affiliations 1 School of Information Engineering, Xijing University, Xi’an, China. 2 College of Grassland and Environment Sciences, Xinjiang Agricultural University, Urumqi, China. 3 School of Computer Science, Northwestern Polytechnical University, Xi’an, China. Item in Clipboard Xin-Fei Wang et al. Front Genet. 2022. Show details Display…
Evolution of stickleback spines through independent cis-regulatory changes at HOXDB
Darwin, C. On the Origin of Species by Means of Natural Selection (John Murray, 1859). Owen, R. On the Archetype and Homologies of the Vertebrate Skeleton (Richard and John E. Taylor, 1848). Stern, D. L. & Orgogozo, V. Is genetic evolution predictable? Science 323, 746–751 (2009). CAS PubMed PubMed Central …
Cellosaurus cell line LoVo (CVCL_0399)
Publications PubMed=1260746Drewinko B., Romsdahl M.M., Yang L.Y., Ahearn M.J., Trujillo J.M.Establishment of a human carcinoembryonic antigen-producing colon adenocarcinoma cell line.Cancer Res. 36:467-475(1976) PubMed=7104989; DOI=10.1016/0165-4608(82)90076-0Chen T.-R., Hay R.J., Macy M.L.Karyotype consistency in human colorectal carcinoma cell lines established in vitro.Cancer Genet. Cytogenet. 6:93-117(1982) PubMed=3335022Alley M.C., Scudiero D.A., Monks A., Hursey M.L.,…
CLINICAL CHARACTERISTICS AND PROGNOSTIC FACTORS IN PRIMARY BREAST DIFFUSE LARGE B-CELL LYMPHOMA
Keywords Diffuse large B-cell lymphoma, Breast, Prognostic factors, Relapse, Central nervous system References [1] C. Wiseman, and K.T. Liao, Primary lymphoma of the breast. Cancer 29 (1972) 1705-12.www.ncbi.nlm.nih.gov/pubmed/4555557 [2] P.J. Hosein, J.C. Maragulia, M.P. Salzberg, O.W. Press, T.M. Habermann, J.M. Vose, M. Bast, R.H. Advani, R. Tibshirani, A.M. Evens, N….
Simultaneously induced mutations in eIF4E genes by CRISPR/Cas9 enhance PVY resistance in tobacco
Pasin, F., Daròs, J.-A. & Tzanetakis, I. E. Proteome expansion in the Potyviridae evolutionary radiation. FEMS Microbiol. Rev. 46, 011. doi.org/10.1093/femsre/fuac011 (2022). Article Google Scholar Karasev, A. V. & Gray, S. M. Continuous and emerging challenges of Potato virus Y in potato. Annu. Rev. Phytopathol. 51, 571–586 (2013). CAS PubMed …
Differential enrichment of H3K9me3 in intrahepatic cholangiocarcinoma | BMC Medical Genomics
Sia D, Tovar V, Moeini A, Llovet JM. Intrahepatic cholangiocarcinoma: pathogenesis and rationale for molecular therapies. Oncogene. 2013;32(41):4861–70. CAS Article Google Scholar Sungwan P, Lert-Itthiporn W, Silsirivanit A, Klinhom-On N, Okada S, Wongkham S, Seubwai W. Bioinformatics analysis identified CDC20 as a potential drug target for cholangiocarcinoma. PeerJ. 2021;9:e11067. Article …
Unveiling new perspective of phylogeography, genetic diversity, and population dynamics of Southeast Asian and Pacific chickens
Food and Agriculture Organization. The state of the world’s animal genetic resources for food and agriculture (Rome, 2007). Lawler, A. Dawn of the chicken revealed in Southeast Asia. Science 368, 1411 (2020). ADS CAS PubMed Article Google Scholar Sykes, N. A social perspective on the introduction of exotic animals: the…
Acute phase of ischemia-reperfusion in rats
Introduction Stroke is one of the leading causes of death and disability worldwide, which causes substantial economic and social burdens.1 Ischemic stroke is caused by insufficient blood and oxygen supply to the brain,2 accounting for about 85% of the casualties of stroke patients.3 The concept of treatment for ischemic injury…
Long non-coding RNA SNHG6 couples cholesterol sensing with mTORC1 activation in hepatocellular carcinoma
Chu, B. B. et al. Cholesterol transport through lysosome-peroxisome membrane contacts. Cell 161, 291–306 (2015). CAS Article Google Scholar Luo, J., Yang, H. & Song, B. L. Mechanisms and regulation of cholesterol homeostasis. Nat. Rev. Mol. Cell Biol. 21, 225–245 (2020). CAS Article Google Scholar Luo, J., Jiang, L., Yang,…
Aging | New research: Volume 14, Issue 15
image: Volume 14, Issue 15 view more Credit: Aging (abbreviated as “Aging (Albany NY)” by Medline/PubMed and “Aging-US” by Web of Science) BUFFALO, NY- August 15, 2022 – Aging (abbreviated as “Aging (Albany NY)” by Medline/PubMed and “Aging-US” by Web of Science) published a new issue of the latest research on aging in Volume…
Scientific Software Development Infrastructure – LiU PDF Documents Library
Scientific SoftwareDevelopment InfrastructureRossen ApostolovKTH/[email protected] A use case:GROMACS GROMACS Project started 1995 in Groningen, most of the core developersare now in Sweden Highly tuned code for molecular dynamics, minimization, normalmode analysis; post-processing tools ( 100) Open source & Free software: L-GPL 3000-5000 users world wide, through [email protected] 300kactive CPUs, Apr. 2012…
A novel causative functional mutation in GATA6 gene is responsible for familial dilated cardiomyopathy as supported by in silico functional analysis
Pérez-Serra, A. et al. Genetic basis of dilated cardiomyopathy. Int. J. Cardiol. 224, 461–472 (2016). PubMed Article Google Scholar Petropoulou, E. et al. Digenic inheritance of mutations in the cardiac troponin (TNNT2) and cardiac beta myosin heavy chain (MYH7) as the cause of severe dilated cardiomyopathy. Eur. J. Med. Genet….
Postdoctoral Research Fellow /Associate – Epigenomics/Bioinformatics in Cincinnati, OH for Cincinnati Children’s Hospital Medical Center
Details Posted: 11-Aug-22 Location: Cincinnati, Ohio Salary: Open Categories: Academic / Research Description Computational postdoctoral positions in bioinformatics and epigenomics (computational/experimental) are available at Dr.Yaping Liu’s lab in the Division of Human Genetics. One of the research directions in Dr. Liu’s group is to study single-cell multi-omics data to understand…
Multidrug resistance microbial therapy | VMRR
Introduction Antimicrobials are the most important and useful therapeutic discovery in the history of medicine. It allows living beings to survive the microbial disease, enhances invasive surgical procedures, ensures animal health, and protects the food chain since 1928 after the discovery of penicillin. However, the indiscriminate use of antibiotics and…
Bronchoalveolar Lavage Fluid for Metagenomic Sequencing
Introduction Severe pneumonia is one of the most common causes of infectious diseases among patients in the intensive care unit (ICU), and this can lead to various complications and high mortality.1–3 Timely and accurate pathogen diagnoses are crucial for appropriate antimicrobial therapy and improved clinical outcomes. However, the low detection…
HIC2 controls developmental hemoglobin switching by repressing BCL11A transcription
Orkin, S. H. Globin gene regulation and switching: circa 1990. Cell 63, 665–672 (1990). Sankaran, V. G. & Orkin, S. H. The switch from fetal to adult hemoglobin. Cold Spring Harb. Perspect. Med. 3, a011643 (2013). PubMed PubMed Central Article CAS Google Scholar Huang, P. et al. Comparative analysis of…
Interfering B cell receptor signaling via SHP-1/p-Lyn axis shows therapeutic potential in diffuse large B-cell lymphoma | Molecular Medicine
Alizadeh AA, Eisen MB, Davis RE, Ma C, Lossos IS, Rosenwald A, et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature. 2000;403(6769):503–11. CAS PubMed Article Google Scholar Camicia R, Winkler HC, Hassa PO. Novel drug targets for personalized precision medicine in relapsed/refractory diffuse large…
New dual-plasmid editing system for DNA-based information rewriting in vivo
DNA-based information is a new interdisciplinary field linking information technology and biotechnology. The field hopes to meet the enormous need for long-term data storage by using DNA as an information storage medium. Despite DNA’s promise of strong stability, high storage density and low maintenance cost, however, researchers face problems accurately…
Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer
Sampson, J. N. et al. Analysis of heritability and shared heritability based on genome-wide association studies for thirteen cancer types. J. Natl Cancer Inst. 107, djv279 (2015). PubMed PubMed Central Article CAS Google Scholar Bosse, Y. & Amos, C. I. A decade of GWAS results in lung cancer. Cancer Epidemiol….
A Highly Robust Silicon Nano-pillar Chip for Electroporation Chip for Delivering Molecules to HeLa Cells – HKUST SPD
Bibliographic Details Author Zhao, Xu Liu, Haixiang Wang, Xiaoyi Zhao, Cong Izhar Tang, Benzhong Lee, Yi-kuen Issue Date 2020 Source 15th IEEE International Conference on Nano/Micro Engineered and Molecular System, NEMS 2020 / IEEE. New York, NY, USA : IEEE, 2020, p. 230-233, Article no.: 9265581 Abstract Electroporation (EP) is…
AURKA is a prognostic potential therapeutic target in skin cutaneous melanoma modulating the tumor microenvironment, apoptosis, and hypoxia
Aran D, Hu Z, Butte AJ (2017) xCell: digitally portraying the tissue cellular heterogeneity landscape. Genome Biol 18(1):220. doi.org/10.1186/s13059-017-1349-1 CAS Article PubMed PubMed Central Google Scholar Bajor DL, Mick R, Riese MJ, Huang AC, Sullivan B, Richman LP, Torigian DA, George SM, Stelekati E, Chen F, Melenhorst JJ, Lacey SF,…
Yale Scientists Zero In on Genetic Causes of Parkinson’s Disease
New research by Yale researchers offers important clues into the genetic causes of Parkinson’s disease, a severe and incurable motor disorder. Although the development of Parkinson’s disease has been closely linked to variants of at least 20 different genes, scientists are still investigating exactly how they cause the severe and…
Development of a novel core genome MLST scheme for tracing multidrug resistant Staphylococcus capitis
Cui, B., Smooker, P. M., Rouch, D. A., Daley, A. J. & Deighton, M. A. Differences between two clinical Staphylococcus capitis subspecies as revealed by biofilm, antibiotic resistance, and pulsed-field gel electrophoresis profiling. J. Clin. Microbiol. 51, 9–14 (2013). CAS PubMed PubMed Central Article Google Scholar Tevell, S., Hellmark, B.,…
Two New Studies Close In on the Genetic Underpinnings of Parkinson’s Disease
Variants of at least 20 different genes have been closely linked to the development of Parkinson’s disease, but scientists are still investigating how exactly they cause the severe and incurable motor disorder that afflicts about 1 million people in the U.S. alone. New research by Yale researchers offers important clues….
SMAD4 rs10502913 | COPD
1Department of Pulmonary and Critical Care Medicine, Sinopharm Tongmei General Hospital, Datong, People’s Republic of China; 2China-Japan Friendship Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, People’s Republic of China; 3Department of Emergency, Chinese PLA General Hospital -Fourth Medical Center, Beijing, People’s Republic of China; 4School…
The combined effects of Map3k1 mutation and dioxin on differentiation of keratinocytes derived from mouse embryonic stem cells
Byrne, C., Tainsky, M. & Fuchs, E. Programming gene expression in developing epidermis. Development 120, 2369–2383 (1994). CAS PubMed Article Google Scholar Pispa, J. & Thesleff, I. Mechanisms of ectodermal organogenesis. Dev. Biol. 262, 195–205 (2003). CAS PubMed Article Google Scholar Eckert, R. L., Crish, J. F. & Robinson, N….
Burning Rock Receives CE Mark
SHANGHAI, June 1, 2022 /PRNewswire/ — Burning Rock Biotech Limited (NASDAQ: BNR, the “Company” or “Burning Rock”) announced that it has received CE marking for its OverC™ Multi-Cancer Detection Blood Test manufactured in both the US and China facilities (Identification Number: DE/CA20/01-IVD-Luxuslebenswelt-523/22, DE/CA20/01-IVD-Luxuslebenswelt-524/22). OverC™ Multi-Cancer Detection Blood Test is a…
Genetic characterization of two G8P[8] rotavirus strains isolated in Guangzhou, China, in 2020/21: evidence of genome reassortment | BMC Infectious Diseases
Mokomane M, Kasvosve I, Melo Ed, Pernica JM, Goldfarb DM. The global problem of childhood diarrhoeal diseases: emerging strategies in prevention and management. Ther Adv Infect Dis. 2018;5(1):29–43. PubMed Google Scholar Organization WH. Rotavirus vaccines: WHO position paper–July 2021. Weekly Epidemiol Rec. 2021;96(28):301–219. Google Scholar Bucardo F, Reyes Y, Svensson…
A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses
Zaremba-Niedzwiedzka, K. et al. Asgard archaea illuminate the origin of eukaryotic cellular complexity. Nature 541, 353–358 (2017). CAS PubMed Article Google Scholar Williams, T. A., Cox, C. J., Foster, P. G., Szöllősi, G. J. & Embley, T. M. Phylogenomics provides robust support for a two-domains tree of life. Nat. Ecol….
Three families of Asgard archaeal viruses identified in metagenome-assembled genomes
Liu, Y. et al. Expanded diversity of Asgard archaea and their relationships with eukaryotes. Nature 593, 553–557 (2021). CAS PubMed Google Scholar Dombrowski, N., Teske, A. P. & Baker, B. J. Expansive microbial metabolic versatility and biodiversity in dynamic Guaymas Basin hydrothermal sediments. Nat. Commun. 9, 4999 (2018). PubMed PubMed…
Joint analysis of functionally related genes yields further candidates associated with Tetralogy of Fallot
Bailliard F, Anderson RH. Tetralogy of Fallot. Orphanet J Rare Dis. 2009;4:2. Article Google Scholar Jin SC, Homsy J, Zaidi S, Lu Q, Morton S, DePalma SR, et al. Contribution of rare inherited and de novo variants in 2,871 congenital heart disease probands. Nat Genet. 2017;49:1593–601. CAS Article Google Scholar …
Tramadol Therapy and CYP2D6 Genotype – Medical Genetics Summaries
Introduction Tramadol (brand names ConZip, Ultram, UltramER, Odolo) is an analgesic used to treat moderate to severe pain. It is used for a variety of pain conditions, including post-operative pain, cancer pain, and musculoskeletal pain. Tramadol is a centrally acting opioid analgesic with mu-opioid binding activity as well as weak…
Beam Therapeutics Stock: A Leader in Gene Editing Tech?
Don’t invest in stories. Don’t invest in a company before they have meaningful revenues. Don’t invest in drug developers that have a great deal of regulatory risk. These are all rules we need to break if we want exposure to a technology that allows mankind to start playing with the…
KEGG ENZYME: 1.14.19.32
Entry EC 1.14.19.32 Enzyme Name palmitoyl-CoA 14-(E/Z)-desaturase Class Oxidoreductases;Acting on paired donors, with incorporation or reduction of molecular oxygen;With oxidation of a pair of donors resulting in the reduction of O2 to two molecules of waterBRITE hierarchy Sysname palmitoyl-CoA,ferrocytochrome b5:oxygen oxidoreductase (14,15 cis/trans-dehydrogenating) Reaction(IUBMB) (1) palmitoyl-CoA + 2 ferrocytochrome b5 + O2…
CRISPR-Cas technology a new era in genomic engineering
Review doi: 10.1016/j.btre.2022.e00731. eCollection 2022 Jun. Affiliations Expand Affiliation 1 Department of Agriculture and Natural Resources, College of Agriculture, Science, and Technology, Delaware State University, Dover, DE 19901, United States of America. Free PMC article Item in Clipboard Review Ali Parsaeimehr et al. Biotechnol Rep (Amst). 2022. Free PMC article Show…
Maintaining manganese in tumor to activate cGAS-STING pathway evokes a robust abscopal anti-tumor effect.
Affiliation Wang C(1), Sun Z(1), Zhao C(1), Zhang Z(1), Wang H(1), Liu Y(1), Guo Y(1), Zhang B(1), Gu L(2), Yu Y(2), Hu Y(3), Wu J(4).Author information: (1)State Key Laboratory of Pharmaceutical Biotechnology, Medical School of Nanjing University, School of Life Sciences, Nanjing University, Nanjing 210093, PR China. (2)State…
SMARCE1 deficiency generates a targetable mSWI/SNF dependency in clear cell meningioma
Clapier, C. R., Iwasa, J., Cairns, B. R. & Peterson, C. L. Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes. Nat. Rev. Mol. Cell Biol. 18, 407–422 (2017). CAS PubMed PubMed Central Article Google Scholar Mashtalir, N. et al. Modular organization and assembly of SWI/SNF family chromatin remodeling complexes….
Researchers use nanotechnology to destroy and prevent relapse of solid tumor cancers
Generation and characterization of DCNV-rAd-Ag. a, Generation of DCNVs derived from adenovirus-infected mature dendritic cells. (1) The genes of tumor-specific antigen were genetically engineered into the adenovirus vector. (2) Recombinant adenovirus infected the immature DC2.4 cells to express the modified antigen on the cell surface and stimulate it. (3) Differentiation,…
Frontiers | Serum and Serum Exosomal CircRNAs hsa_circ_0001492, hsa_circ_0001439, and hsa_circ_0000896 as Diagnostic Biomarkers for Lung Adenocarcinoma
Introduction Lung cancer is associated with high morbidity and mortality and continues to be a major public health problem worldwide (1). Lung adenocarcinoma (LUAD) is the most common histological type of lung cancer. While the 5-year survival rates of patients with lung cancer are still <15%, rates are closer to…
Phylogenomics and species delimitation of the economically important Black Basses (Micropterus)
Arlinghaus, R. et al. Governing the recreational dimension of global fisheries. Proc. Nat. Acad. Sci. USA 116, 5209–5213 (2019). CAS PubMed PubMed Central Article Google Scholar Cowx, I. G. & Gerdeaux, D. The effects of fisheries management practises on freshwater ecosystems. Fish. Manag. Ecol. 11, 145–151 (2004). Article Google Scholar …
Combining SNP-to-gene linking strategies to identify disease genes and assess disease omnigenicity
Visscher, P. M. et al. 10 years of GWAS discovery: biology, function, and translation. Am. J. Hum. Genet. 101, 5–22 (2017). CAS PubMed PubMed Central Google Scholar Buniello, A. et al. The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019. Nucleic Acids Res. 47,…
Bioconductor – sSNAPPY (development version)
DOI: 10.18129/B9.bioc.sSNAPPY This is the development version of sSNAPPY; for the stable release version, see sSNAPPY. Single Sample directioNAl Pathway Perturbation analYsis Bioconductor version: Development (3.16) A single sample pathway pertrubation testing methods for RNA-seq data. The method propagate changes in gene expression down gene-set topologies to compute…
Frontiers | A Mutated Nme1Cas9 Is a Functional Alternative RNase to Both LwaCas13a and RfxCas13d in the Yeast S. cerevisiae
Introduction The clustered regularly interspaced short palindromic repeats (CRISPR)–CRISPR-associated (Cas) protein systems naturally exist in prokaryotes. They are RNA-mediated defense mechanisms to protect bacteria and archaea from invading nucleic acids (Barrangou et al., 2007). CRISPR–Cas systems are classified into two classes (1 and 2). Class 2 CRISPR–Cas require a single…
Roles of circRNAs | CMAR
Introduction Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer, with an increasing global incidence, and a leading cause of cancer-related mortality.1 Although hepatitis B and C virus infections, cirrhosis, alcohol intake, and non-alcoholic fatty liver disease (NAFLD) are the main risk factors contributing to HCC.1,2 Approximately…
Specific High-Sensitivity Enzymatic Molecular Detection System Termed RPA-Based CRISPR-Cas13a for Duck Tembusu Virus Diagnostics
journal contribution posted on 19.05.2022, 07:04 by Dalin He, Gang Liu, Jing Yang, Xiaoning Jiang, Hongzhi Wang, Yaru Fan, Shangyu Gong, Feng Wei, Youxiang Diao, Yi Tang In China, drastic losses in the economy have been caused by the Tembusu virus (TMUV), the causative agent of the egg-drop syndrome, to…
In vivo hypermutation and continuous evolution
Arnold, F. H. Design by directed evolution. Acc. Chem. Res. 31, 125–131 (1998). Google Scholar Packer, M. S. & Liu, D. R. Methods for the directed evolution of proteins. Nat. Rev. Genet. 16, 379–394 (2015). Google Scholar Drake, J. W., Charlesworth, B., Charlesworth, D. & Crow, J. F. Rates of…
Crispr/Cas12a-Based Fluorescence Biosensor for Detection of Exosomal Mir-21 Derived from Lung Cancer by Yulin Zhang, Zhe Lu, wei Ni, Nian Liu, Dan Jin, Tingxian Li, Kun Li, Yuling Zhang, Qunfeng Yao, Guo-Jun Zhang :: SSRN
30 Pages Posted: 17 May 2022 See all articles by Yulin Zhang Hubei University of Chinese Medicine Hubei University of Chinese Medicine Hubei Provincial Hospital of Traditional Chinese Medicine Hubei Provincial Hospital of Traditional Chinese Medicine Hubei University of Chinese Medicine…
Single-cell eQTL models reveal dynamic T cell state dependence of disease loci – Nature – Alert Breaking News
Wei, K. et al. Notch signalling drives synovial fibroblast identity and arthritis pathology. Nature 582, 259–264 (2020). ADS CAS PubMed PubMed Central Article Google Scholar Cembrowski, M. S. & Menon, V. Continuous variation within cell types of the nervous system. Trends Neurosci. 41, 337–348 (2018). CAS PubMed Article Google Scholar Maurano, M. T. et al. Systematic localization of…
MND1 Expression as a Predictor of Breast Cancer Survival
Introduction Breast cancer (BC) is the most commonly diagnosed cancer in women, and it is the main cause of cancer mortality in women around the world.1 Although standard treatments for breast cancer, including surgery, radiotherapy, chemotherapy, endocrine therapy, targeted therapy, and immunotherapy, have greatly improved during the last few decades.2,3…
Single-Cell Transcriptome Resource From Human Cell Atlas Team Yields Immune, Disease Insights
NEW YORK – A large international team came up with single-cell and single-nucleus transcriptomic resources to characterize the diverse cell types found in the human body, along with related gene expression and splicing features that offer clues to processes at play within and across tissues and organs. In a series…
Frontiers | Divergence With Gene Flow and Contrasting Population Size Blur the Species Boundary in Cycas Sect. Asiorientales, as Inferred From Morphology and RAD-Seq Data
Introduction Incipient species are critical for evolutionary biologists to study speciation, but they also challenge taxonomy due to gene flow or ancestral polymorphism. The former and contrasting population size lead to larger intraspecific than interspecific variations, a phenomenon called the species-definition anomaly zone (Jiao and Yang, 2021). The latter results…
Recent developments in miRNA based recombinant protein expression in CHO
Aguiar TQ, Santos SB, Martins IM, Domingues L, Oliveira C (2019) Production and bioengineering of recombinant pharmaceuticals. Proteins: sustainable source, processing and applications. Elsevier, Amsterdam, pp 259–293 Chapter Google Scholar Amadi IM, Agrawal V, Christianson T, Bardliving C, Shamlou P, LeBowitz JH (2020) Inhibition of endogenous miR-23a/miR-377 in CHO cells…
Clostridium sporogenes uses reductive Stickland metabolism in the gut to generate ATP and produce circulating metabolites
Van Treuren, W. & Dodd, D. Microbial contribution to the human metabolome: implications for health and disease. Annu. Rev. Pathol. 15, 345–369 (2020). PubMed Article CAS Google Scholar Russell, W. R. et al. Major phenylpropanoid-derived metabolites in the human gut can arise from microbial fermentation of protein. Mol. Nutr. Food…
Batch-effect detection, correction and characterisation in Illumina HumanMethylation450 and MethylationEPIC BeadChip array data | Clinical Epigenetics
Experimental design and processing steps For the EpiSCOPE study [20], DHA supplementation and gender were balanced as much as possible across the 12 450K BeadChips on each glass slide, with these factors also randomly distributed over the 6 rows and 2 columns of 31 slides (Additional file 1: Fig. S1). Blood…
Frontiers | COMMD2 Upregulation Mediated by an ncRNA Axis Correlates With an Unfavorable Prognosis and Tumor Immune Infiltration in Liver Hepatocellular Carcinoma
Introduction Liver hepatocellular carcinoma (LIHC) is the most common type of primary cancer in the liver and third leading cause of cancer-related mortality worldwide (1). Although substantial improvements have been made in LIHC therapy, particularly in molecular targeted therapy and immunotherapy (2, 3), the 5-year survival rate of LIHC is…
Circulating cell-free mtDNA release is associated with the activation of cGAS-STING pathway and inflammation in mitochondrial diseases
Craven L, Alston C, Taylor R, Turnbull D (2017) Recent advances in mitochondrial disease. Annu Rev Genomics Hum Genet 18:257–275. doi.org/10.1146/annurev-genom-091416-035426 CAS Article PubMed Google Scholar El-Hattab AW, Adesina AM, Jones J, Scaglia F (2015) MELAS syndrome: clinical manifestations, pathogenesis, and treatment options. Mol Genet Metab 116(1–2):4–12. doi.org/10.1016/j.ymgme.2015.06.004 CAS Article …
Endometriosis-related functional modules and hub genes
Introduction Endometriosis (EMS) is a chronic gynecological disease defined as implantation and periodic growth of the endometrial glands and stroma outside the uterine cavity, causing chronic pelvic pain, severe dysmenorrhea, and infertility in 10% reproductive-age women, among which the infertility rate is approximately 30–50%.1,2 Surgical excision is commonly used for…
Crispr/Cas13a Induced Exponential Amplification for Highly Sensitive and Specific Detection of Circular Rna by Pengfei Song, Pengbo Zhang, Ke Qin, Fengxia Su, Kejian Gao, Xin Liu, Zhengping Li :: SSRN
19 Pages Posted: 23 Mar 2022 See all articles by Pengfei Song University of Science and Technology Beijing University of Science and Technology Beijing University of Science and Technology Beijing University of Science and Technology Beijing University of Science and Technology…
Whole-genome analysis of coxsackievirus B3 reflects its genetic diversity in China and worldwide | Virology Journal
Song Y, Zhang Y, Han Z, Xu W, Xiao J, Wang X, et al. Genetic recombination in fast-spreading coxsackievirus A6 variants: a potential role in evolution and pathogenicity. Virus Evol. 2020;6:2. doi.org/10.1093/ve/veaa048. Article Google Scholar Chen J, Han Z, Wu H, Xu W, Yu D, Zhang Y. A large-scale outbreak…
KEGG MODULE: M00567
MODULE: M00567 Help Entry M00567 Pathway Module Name Methanogenesis, CO2 => methane Definition (K00200+K00201+K00202+K00203-K11261+(K00205,K11260,K00204)) K00672 K01499 (K00319,K13942) K00320 (K00577+K00578+K00579+K00580+K00581-K00582-K00583+K00584) (K00399+K00401+K00402) (K22480+K22481+K22482,K03388+K03389+K03390,K08264+K08265,K03388+K03389+K03390+K14127+(K14126+K14128,K22516+K00125)) Diagram Orthology 4Fe-4S ferredoxin formylmethanofuran–tetrahydromethanopterin N-formyltransferase [EC:2.3.1.101] [RN:R03390] methenyltetrahydromethanopterin cyclohydrolase [EC:3.5.4.27] [RN:R03464] methylenetetrahydromethanopterin dehydrogenase [EC:1.5.99.9] [RN:R04456] 5,10-methenyltetrahydromethanopterin hydrogenase [EC:1.12.98.2] [RN:R04455] coenzyme F420-dependent N5,N10-methenyltetrahydromethanopterin reductase [EC:1.5.99.11] [RN:R04464] Ortholog tableTaxonomyModule table…
CRISPRi for specific inhibition of miRNA clusters and miRNAs with high sequence homology
Bartel, D. P. MicroRNAs: Target recognition and regulatory functions. Cell 136, 215–233 (2009). CAS Article Google Scholar Bassett, A. R. et al. Understanding functional miRNA–target interactions in vivo by site-specific genome engineering. Nat. Commun. 5, 4640 (2014). ADS CAS Article Google Scholar Moore, M. J. et al. miRNA–target chimeras reveal…
Generation of iPSCs from mouse fibroblasts with a single gene, Oct4, and small molecules
Li, Zhang, Yin, Yang, Du, Hou, Ge, Liu, Zhang, Zhang, Wu, Li, Liu, Wu, Song, Zhao, Shi, Deng (2011) Generation of iPSCs from mouse fibroblasts with a single gene, Oct4, and small molecules Cell Res 21(1) 196-204 Full text Abstract The introduction of four transcription factors Oct4,…
Does Norepinephrine Metabolite DOPEGAL Turn Tau Toxic?
08 Apr 2022 What makes tau toxic? In the March 24 Nature Structural & Molecular Biology, researchers led by Keqiang Ye at Shenzhen Institute of Advanced Technology, China, suggest a new culprit, a norepinephrine metabolite known as DOPEGAL, which is produced only in the locus coeruleus (LC). The authors found…
circRNA rtcisE2F regulates the self-renewal o
image: rt-circRNA rtcisE2F is originated from two adjacent genes CYP2C18 and CYP2C19, involves in the binding between m6A E2F6/E2F3 mRNAs and m6A readers IGF2BP2/YTHDF2, and finally promotes the stability of E2F6/E2F3 mRNAs. E2F6 and E2F3 drive the activation of Wnt/β-catenin signaling and the self-renewal of liver TICs. view more Credit: ©Science…
