127 research outputs found
isomiRdb: microRNA expression at isoform resolution
A significant fraction of mature miRNA transcripts
carries sequence and/or length variations, termed
isomiRs. IsomiRs are differentially abundant in cell
types, tissues, body fluids or patients’ samples.
Not surprisingly, multiple studies describe a physiological
and pathophysiological role. Despite their
importance, systematically collected and annotated
isomiR information available in databases remains
limited. We thus developed isomiRdb, a comprehensive
resource that compiles miRNA expression data
at isomiR resolution from various sources. We processed
42 499 human miRNA-seq datasets (5.9×1011
sequencing reads) and consistently analyzed them
usingmiRMaster and sRNAbench. Our database provides
online access to the 90 483 most abundant
isomiRs (>1 RPM in at least 1% of the samples)
from 52 tissues and 188 cell types. Additionally, the
full set of over 3 million detected isomiRs is available
for download. Our resource can be queried
at the sample, miRNA or isomiR level so users
can quickly answer common questions about the
presence/absence of a particular miRNA/isomiR in
tissues of interest. Further, the database facilitates
to identify whether a potentially interesting new isoform
has been detected before and its frequency. In
addition to expression tables, isomiRdb can generate
multiple interactive visualisations including violin
plots and heatmaps. isomiRdb is free to use and
publicly available at: https://www.ccb.uni-saarland.
de/isomirdb.Saarland Universit
MirGeneDB 2.1: toward a complete sampling of all major animal phyla
B.F. is supported by the Tromso forskningsstiftelse (TFS) [20 SG BF `MIRevolution']; Strategic Research Area (SFO) program of the Swedish Research Council (to V.R.) through Stockholm University (to B.F., W.K., E.M.-S. and M.R.F.); M.R.F. is additionally supported by ERC [758397 `miRCell']; South-Eastern Norway Regional Health Authority support is acknowledged [2018014 to E.H.]; P.J. Chabot is supported by the Junior Scholars Program (Dartmouth College); V.O.'s research funding was awarded to Dr Mary J. O'Connell (Associate Professor) from the School of Life Sciences University of Nottingham; M.H. is supported by the Spanish Government [AGL2017-88702C2-2-R]; University of Granada [A-BIO-481-UGR18, FEDER 18]; K.J.P. has been supported by the National Science Foundation; NASA Ames; Dartmouth College.We describe an update of MirGeneDB, the manually
curated microRNA gene database. Adhering to
uniform and consistent criteria for microRNA
annotation and nomenclature, we substantially
expanded MirGeneDB with 30 additional species
representing previously missing metazoan phyla
such as sponges, jellyfish, rotifers and flatworms.
MirGeneDB 2.1 now consists of 75 species spanning
over ∼800 million years of animal evolution, and
contains a total number of 16 670 microRNAs from
1549 families. Over 6000 microRNAs were added in
this update using ∼550 datasets with ∼7.5 billion
sequencing reads. By adding new phylogenetically
important species, especially those relevant for
the study of whole genome duplication events,
and through updating evolutionary nodes of origin
for many families and genes, we were able to
substantially refine our nomenclature system. All changes are traceable in the specifically developed
MirGeneDB version tracker. The performance of
read-pages is improved and microRNA expression
matrices for all tissues and species are now also
downloadable. Altogether, this update represents
a significant step toward a complete sampling of
all major metazoan phyla, and a widely needed
foundation for comparative microRNA genomics and
transcriptomics studies. MirGeneDB 2.1 is part of
RNAcentral and Elixir Norway, publicly and freely
available at http://www.mirgenedb.org/.Tromso forskningsstiftelse (TFS) 20_SG_BFStrategic Research Area (SFO) program of the Swedish Research Council through Stockholm UniversityEuropean Research Council (ERC)
European Commission 758397South-Eastern Norway Regional Health Authority 2018014Junior Scholars Program (Dartmouth College)School of Life Sciences University of NottinghamSpanish GovernmentEuropean Commission AGL2017-88702-C2-2-RUniversity of Granada A-BIO-481-UGR18
FEDER 18National Science Foundation (NSF)National Aeronautics & Space Administration (NASA)Dartmouth Colleg
Descripción y análisis del sistema de suministro de material medico-quirúrgico en el Complejo Hospitalario Dr. Arnulfo Arias Madrid año 1993
Cualquier profesional que desempeñe funciones de administración en alguna institución o establecimiento de salud debe afrontar, en el transcurso de su misión, una serie de dificultades y decisiones relacionadas con los Insumos que se necesitan para lograr cumplir con el propósito fundamental de brindar servicios de salud a la población.
Como toda organización que produce servicios, los hospitales tienen que consumir recursos financieros y materiales sin los cuales la labor del recurso humano se hace casi imposible. El gerente (sea médico, técnico o profesional de la administración) es el llamado a garantizar esos Insumos y darle el uso más eficiente posible.
El medio político, económico y social que rodea al funcionamiento institucional panameño, y por lo tanto las entidades de salud es inestable e Incierto.
Ante ello sus gerentes tienen un gran compromiso y deben recurrir a todas las herramientas que la Salud Pública provee para enfrentar el reto de hacer uso racional de los recursos materiales y financieros que los asegurados le confieren
Desplegament d'un cluster Kubernetes altament disponible en Google Cloud Platform
[ES] El cloud computing, es un modelo tecnológico que se está implementando en la mayoría de empresas en los últimos años. Sus ventajas son obvias, ya sea porque se usa
Software como servicio (SaaS), Plataforma como servicio (PaaS) o Infraestructura como servicio (IaaS). Ello supone para las empresas un ahorro de costes, espacios seguros, fácil accesibilidad y una personalización del servicio según los requisitos del cliente. El objeto de este trabajo es estudiar qué facilidades, herramientas y comodidades ofrece Google Cloud Platform a la hora de desplegar un clúster de Kubernetes altamente disponible, con el objetivo de que pueda ser comparado con sus competidores y ayudar a las empresas a seleccionar un servicio u otro según sus requisitos.[EN] Cloud computing is a technological model that has been implemented in most companies in recent years. Its advantages are obvious, whether it is Software as a Service (SaaS), Platform as a Service (PaaS) or Infrastructure as a Service (IaaS). This offers companies cost savings, secure spaces, easy accessibility and customisation of the service according to the client's requirements.The aim of this paper is to study what facilities, tools and conveniences Google Cloud Platform offers when deploying a highly available Kubernetes cluster, so that it can be compared with its competitors and help companies to select one service or another according to their requirements.Gaspar Aparicio, E. (2022). Despliegue de un cluster Kubernetes altamente disponible en Google Cloud Platform. Universitat Politècnica de València. http://hdl.handle.net/10251/18856
Balanced scorecard y competitividad en el sector gráfico, el caso: Corporación Gráfica Huascaran, 2013- 2014
Implementa un modelo de gestión basado en la herramienta de Balanced Scorecard para una empresa Pyme del sector gráfico, empresa en la que el problema planteado es resolver si es posible establecer indicadores estratégicos que puedan medir la gestión. Como hipótesis se establece si la implantación de un Balanced Scorecard en una empresa Pyme del sector gráfico permite la medición integral de la estrategia de dicha organización, en adición al uso de indicadores financieros tradicionales.Tesi
Study on Electro-mechanical Stability of REBCO Tape Lap Joints for Segmented Fabrication of High-Temperature Superconducting Fusion Magnets
Tohoku University橋爪秀利課
Transcriptomic analysis of the tick midgut and salivary gland responses upon repeated blood-feeding on a vertebrate host
Ticks are blood-feeding arthropods that use the components of their salivary
glands to counter the host’s hemostatic, inflammatory, and immune responses.
The tick midgut also plays a crucial role in hematophagy. It is responsible for
managing blood meals (storage and digestion) and protecting against host
immunity and pathogen infections. Previous transcriptomic studies revealed
the complexity of tick sialomes (salivary gland transcriptomes) and mialomes
(midgut transcriptomes) which encode for protease inhibitors, lipocalins
(histamine-binding proteins), disintegrins, enzymes, and several other tickspecific
proteins. Several studies have demonstrated that mammalian hosts
acquire tick resistance against repeated tick bites. Consequently, there is an
urgent need to uncover how tick sialomes and mialomes respond to resistant
hosts, as they may serve to develop novel tick control strategies and
applications. Here, we mimicked natural repeated tick bites in a laboratory
setting and analyzed gene expression dynamics in the salivary glands and
midguts of adult female ticks. Rabbits were subjected to a primary (feeding on a
naive host) and a secondary infestation of the same host (we re-exposed the
hosts but to other ticks). We used single salivary glands and midguts dissected
from individual siblings adult pathogen-free female Ixodes ricinus to reduce
genetic variability between individual ticks. The comprehensive analysis of 88
obtained RNA-seq data sets allows us to provide high-quality annotated
sialomes and mialomes from individual ticks. Comparisons between fed/
unfed, timepoints, and exposures yielded as many as 3000 putative
differentially expressed genes (DEG). Interestingly, when classifying the exposure DEGs by means of a clustering approach we observed that the
majority of these genes show increased expression at early feeding timepoints
in the mid-gut of re-exposed ticks. The existence of clearly defined
groups of genes with highly similar responses to re-exposure suggests the
existence of molecular swiches. In silico functional analysis shows that these
early feeding reexposure response genes form a dense interaction network at
protein level being related to virtually all aspects of gene expression regulation
and glycosylation. The processed data is available through an easy-to-use
database-associated webpage (https://arn.ugr.es/IxoriDB/) that can serve as a
valuable resource for tick research.Grant Agency of the Czech Republic 19-382 07247SERD Funds 384 CZ.02.1.01/0.0/0.0/16_019/0000759Programa Operativo FEDER de Andalucia A-BIO-481-UGR18European Union within ESIF in frame of Operational Programme Research, Development and Education CZ.02.2.69/0.0/0.0/20_079/001780
IsoSeek for unbiased and UMI-informed sequencing of miRNAs from low input samples at single-nucleotide resolution
Besides canonical microRNAs (miRNAs), sequence-based variations called iso-miRs
have biological relevance and diagnostic potential; however, accurate
calling of these post-transcriptional modifications is challenging, especially for
low input samples. Here, we present IsoSeek, a sequencing protocol that
reduces ligation and PCR amplification bias and improves the accuracy of miRNA
detection in low input samples. We describe steps for using randomized adapters
combined with unique molecular identifiers (UMI), library quantification, and
sequencing, followed by detailed procedures for data processing and analysis.Multiple grants awarded to D.M.P. including NWO Perspectief Cancer-ID, TKI-Health Holland AQrate, and Cancer Center Amsterdam Foundatio
miEAA 2023: updates, new functional microRNA sets and improved enrichment visualizations
MicroRNAs (miRNAs) are small non-coding RNAs
that play a critical role in regulating diverse biological processes. Extracting functional insights from a
list of miRNAs is challenging, as each miRNA can
potentially interact with hundreds of genes. To address this challenge, we developed miEAA, a flexible and comprehensive miRNA enrichment analysis
tool based on direct and indirect miRNA annotation.
The latest release of miEAA includes a data warehouse of 19 miRNA repositories, covering 10 different organisms and 139 399 functional categories. We
have added information on the cellular context of
miRNAs, isomiRs, and high-confidence miRNAs to
improve the accuracy of the results. We have also
improved the representation of aggregated results,
including interactive Upset plots to aid users in understanding the interaction among enriched terms or
categories. Finally, we demonstrate the functionality
of miEAA in the context of ageing and highlight the
importance of carefully considering the miRNA input
list. MiEAA is free to use and publicly available at
https://www.ccb.uni-saarland.de/mieaa/
Genome-Wide Analysis of microRNA Expression Profile in Roots and Leaves of Three Wheat Cultivars under Water and Drought Conditions
Wheat is one of the most important food sources on Earth. MicroRNAs (miRNAs) play
important roles in wheat productivity. To identify wheat miRNAs as well as their expression profiles
under drought condition, we constructed and sequenced small RNA (sRNA) libraries from the leaves
and roots of three wheat cultivars (Kukri, RAC875 and Excalibur) under water and drought conditions.
A total of 636 known miRNAs and 294 novel miRNAs were identified, of which 34 miRNAs were
tissue- or cultivar-specific. Among these, 314 were significantly regulated under drought conditions.
miRNAs that were drought-regulated in all cultivars displayed notably higher expression than those
that responded in a cultivar-specific manner. Cultivar-specific drought response miRNAs were
mainly detected in roots and showed significantly different drought regulations between cultivars.
By using wheat degradome library, 6619 target genes were identified. Many target genes were
strongly enriched for protein domains, such as MEKHLA, that play roles in drought response.
Targeting analysis showed that drought-downregulated miRNAs targeted more genes than droughtupregulated miRNAs. Furthermore, such genes had more important functions. Additionally, the
genes targeted by drought-downregulated miRNAs had multiple interactions with each other, while
the genes targeted by drought-upregulated miRNAs had no interactions. Our data provide valuable
information on wheat miRNA expression profiles and potential functions in different tissues, cultivars
and drought conditions
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