Relevant bibliographies by topics / Analyse RNAseq

Contents

  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Analyse RNAseq'

Author: Grafiati
Published: 2 November 2024
Last updated: 31 July 2025

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Journal articles on the topic "Analyse RNAseq"

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Cribbs, Adam P., Sebastian Luna-Valero, Charlotte George, et al. "CGAT-core: a python framework for building scalable, reproducible computational biology workflows." F1000Research 8 (April 4, 2019): 377. http://dx.doi.org/10.12688/f1000research.18674.1.

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In the genomics era computational biologists regularly need to process, analyse and integrate large and complex biomedical datasets. Analysis inevitably involves multiple dependent steps, resulting in complex pipelines or workflows, often with several branches. Large data volumes mean that processing needs to be quick and efficient and scientific rigour requires that analysis be consistent and fully reproducible. We have developed CGAT-core, a python package for the rapid construction of complex computational workflows. CGAT-core seamlessly handles parallelisation across high performance compu
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Cribbs, Adam P., Sebastian Luna-Valero, Charlotte George, et al. "CGAT-core: a python framework for building scalable, reproducible computational biology workflows." F1000Research 8 (July 16, 2019): 377. http://dx.doi.org/10.12688/f1000research.18674.2.

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In the genomics era computational biologists regularly need to process, analyse and integrate large and complex biomedical datasets. Analysis inevitably involves multiple dependent steps, resulting in complex pipelines or workflows, often with several branches. Large data volumes mean that processing needs to be quick and efficient and scientific rigour requires that analysis be consistent and fully reproducible. We have developed CGAT-core, a python package for the rapid construction of complex computational workflows. CGAT-core seamlessly handles parallelisation across high performance compu
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Portet, Anaïs, Eve Toulza, Ana Lokmer, et al. "Experimental Infection of the Biomphalaria glabrata Vector Snail by Schistosoma mansoni Parasites Drives Snail Microbiota Dysbiosis." Microorganisms 9, no. 5 (2021): 1084. http://dx.doi.org/10.3390/microorganisms9051084.

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Host-parasite interaction can result in a strong alteration of the host-associated microbiota. This dysbiosis can affect the fitness of the host; can modify pathogen interaction and the outcome of diseases. Biomphalaria glabrata is the snail intermediate host of the trematode Schistosoma mansoni, the agent of human schistosomiasis, causing hundreds of thousands of deaths every year. Here, we present the first study of the snail bacterial microbiota in response to Schistosoma infection. We examined the interplay between B. glabrata, S. mansoni and host microbiota. Snails were infected and the m
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Allen, S. J. W., S. H. Krawczyk, L. R. McGee, N. Bischofberger, A. S. Mulato, and J. M. Cherrington. "Inhibition of HIV-1 RNase H Activity by Nucleotide Dimers and Monomers." Antiviral Chemistry and Chemotherapy 7, no. 1 (1996): 37–45. http://dx.doi.org/10.1177/095632029600700107.

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Nucleotide dimers and monomers were shown to inhibit human immunodeficiency virus type 1 (HIV) RNase H activity. Several effective inhibitors were identified and placed into three general groups based on biochemical characterization of their inhibition, The first group (group A) inhibited HIV RNase H and the closely related feline immunodeficiency virus (FIV) RNase H, but did not inhibit less related retroviral or cellular RNases H or HIV reverse transcriptase (RT). The second group (group B) inhibited the RNase H activity of several retroviruses as well as the reverse transcriptase function o
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Orlandi, Elisa, Elisa De Tomi, Rachele Campagnari, et al. "Human Melanoma Cells Differentially Express RNASEL/RNase-L and miR-146a-5p under Sex Hormonal Stimulation." Current Issues in Molecular Biology 44, no. 10 (2022): 4790–802. http://dx.doi.org/10.3390/cimb44100326.

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Polymorphisms in the ribonuclease L (RNASEL) coding gene and hsa-miR-146a-5p (miR-146a) have been associated with melanoma in a sex-specific manner. We hypothesized that RNASEL and miR-146a expression could be influenced by sex hormones playing a role in the female advantages observed in melanoma incidence and survival. Thus, we explored the effects of testosterone and 17β-estradiol on RNASEL and miR-146a expression in LM-20 and A375 melanoma cell lines. Direct targeting of miR-146a to the 3’ untranslated region (3′UTR) of RNASEL was examined using a luciferase reporter system. Our results ind
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Ahrenfeldt, Johanne, Ditte S. Christensen, Andreas B. Østergaard, Judit Kisistók, Mateo Sokač, and Nicolai J. Birkbak. "The ratio of adaptive to innate immune cells differs between genders and associates with improved prognosis and response to immunotherapy." PLOS ONE 18, no. 2 (2023): e0281375. http://dx.doi.org/10.1371/journal.pone.0281375.

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Immunotherapy has revolutionised cancer treatment. However, not all cancer patients benefit, and current stratification strategies based primarily on PD1 status and mutation burden are far from perfect. We hypothesised that high activation of an innate response relative to the adaptive response may prevent proper tumour neoantigen identification and decrease the specific anticancer response, both in the presence and absence of immunotherapy. To investigate this, we obtained transcriptomic data from three large publicly available cancer datasets, the Cancer Genome Atlas (TCGA), the Hartwig Medi
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Oczkowicz, Maria, Małgorzata Świątkiewicz, Katarzyna Ropka-Molik, Artur Gurgul, and Kacper Żukowski. "Effects of Different Sources of Fat in the Diet of Pigs on the Liver Transcriptome Estimated by RNA-Seq." Annals of Animal Science 16, no. 4 (2016): 1073–90. http://dx.doi.org/10.1515/aoas-2016-0033.

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Abstract In this study, we have attempted to analyse the impact of dietary fats on the liver transcriptome in pigs. Four nutritional groups were created. The animals’ diets differed among groups in terms of the presence of corn dried distillers’ grains with solubles (DDGS) (group I - no DDGS, groups II, III, IV - 20% DDGS) as well as the type of fat (rapeseed oil - groups I and II, beef tallow - group III, coconut oil - group IV) used. Using the RNA-Seq method we identified 39 differentially expressed genes (DEGs) as a result of Cuffdiff analysis of the differences among all groups. Analysis o
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Penttinen, Jenni, Dwi Ari Pujianto, Petra Sipilä, Ilpo Huhtaniemi, and Matti Poutanen. "Discovery in Silico and Characterization in Vitro of Novel Genes Exclusively Expressed in the Mouse Epididymis." Molecular Endocrinology 17, no. 11 (2003): 2138–51. http://dx.doi.org/10.1210/me.2003-0008.

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Abstract Epididymal proteins interact with sperm during their passage through the epididymis and thus contribute to the maturation and fertilizing capacity of the spermatozoa. In the present study we have discovered five novel epididymis-specific genes through in silico analysis of expressed sequence tags (ESTs) at the UniGene library collection. The strategy used is a powerful way to discover novel epididymis-specific genes. The full-length cDNA sequences were determined, and computational tools were used to characterize the genomic structures and to predict putative functions for the encoded
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Malvisi, Michela, Nico Curti, Daniel Remondini, et al. "Combinatorial Discriminant Analysis Applied to RNAseq Data Reveals a Set of 10 Transcripts as Signatures of Exposure of Cattle to Mycobacterium avium subsp. paratuberculosis." Animals 10, no. 2 (2020): 253. http://dx.doi.org/10.3390/ani10020253.

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Paratuberculosis or Johne’s disease in cattle is a chronic granulomatous gastroenteritis caused by infection with Mycobacterium avium subspecies paratuberculosis (MAP). Paratuberculosis is not treatable; therefore, the early identification and isolation of infected animals is a key point to reduce its incidence. In this paper, we analyse RNAseq experimental data of 5 ELISA-negative cattle exposed to MAP in a positive herd, compared to 5 negative-unexposed controls. The purpose was to find a small set of differentially expressed genes able to discriminate between exposed animals in a preclinica
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Ramanauskas, Karolis, and Boris Igić. "The evolutionary history of plant T2/S-type ribonucleases." PeerJ 5 (September 11, 2017): e3790. http://dx.doi.org/10.7717/peerj.3790.

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A growing number of T2/S-RNases are being discovered in plant genomes. Members of this protein family have a variety of known functions, but the vast majority are still uncharacterized. We present data and analyses of phylogenetic relationships among T2/S-RNases, and pay special attention to the group that contains the female component of the most widespread system of self-incompatibility in flowering plants. The returned emphasis on the initially identified component of this mechanism yields important conjectures about its evolutionary context. First, we find that the clade involved in self-r
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Dissertations / Theses on the topic "Analyse RNAseq"

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Benoit-Pilven, Clara. "Analyse de l’épissage alternatif dans les données RNAseq : développement et comparaison d’outils bioinformatiques." Thesis, Lyon, 2016. http://www.theses.fr/2016LYSE1280/document.

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L'épissage alternatif est un processus biologique qui génère la diversité du protéome malgré le nombre limité de gène. Ce mécanisme régule à la fois les gènes de manières qualitatives (isoformes exprimées) mais aussi quantitatives (niveau d'expression). Avec le développement des technologies de séquençage à haut débit, il est maintenant possible d'étudier à large échelle les aspects quantitatif et qualitatif du transcriptome avec une même expérience (RNA-seq). Durant ma thèse, j'ai développé une nouvelle méthode d'analyse de l'épissage alternatif dans les données RNA-seq. J'ai également partic
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Meunier, Léa. "Analyse de signatures transcriptomiques et épigénétiques des carcinomes hépatocellulaires." Thesis, Université de Paris (2019-....), 2020. http://www.theses.fr/2020UNIP7082.

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Élucider les processus transcriptionnels et épigénétiques dérégulés dans les cancers est fondamental pour mieux comprendre les voies biologiques impliquées et proposer une thérapie adaptée au phénotype moléculaire de chaque tumeur. Les approches classiques de classification non supervisée définissent des groupes moléculaires principaux pour chaque type tumoral. Cependant, ces méthodes, appliquées à des tumeurs complexes comme le carcinome hépatocellulaire (CHC), le 3ème cancer le plus mortel au monde, définissent des groupes qui restent relativement hétérogènes et ne reflètent qu’imparfaitemen
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Riquier, Sébastien. "Dans les abysses du transcriptome : découverte de nouveaux biomarqueurs de cellules souches mésenchymateuses par analyse approfondie du RNAseq." Thesis, Montpellier, 2019. http://www.theses.fr/2019MONTT004.

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Le développement du séquençage ARN, ou RNAseq, a permis l'essor de la recherche intensive de biomarqueurs dans de nombreux domaines de la biologie. L’information complète du transcriptome contenue dans les données de sorties, permet à un bioinformaticien assidu de dépasser les connaissances actuelles et d’accéder, grâce à des pipelines informatiques avancés, à d’innombrables signatures d’intérêts inédites. Dans cette thèse nous mettons en avant que ces marqueurs potentiels, essentiellement explorés pour répondre à des problématiques clinique en conditions pathologiques, peuvent être utilisés p
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Gonzalez, Claudia. "Étude des mécanismes immunitaires impliqués dans le contrôle de l'infection par le virus Nipah." Electronic Thesis or Diss., Lyon, École normale supérieure, 2024. http://www.theses.fr/2024ENSL0035.

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Le virus Nipah (NiV) est un paramyxovirus hautement pathogène pour les humains faisant partie de la liste prioritaire pour la recherche et le développement de l’OMS. Les chauves-souris Pteropus sont le réservoir naturel asymptomatique du NiV et nous nous sommes intéressés aux mécanismes leur permettant de contrôler l’infection. Pour cela, nous avons réalisé une analyse transcriptomique comparative entre des cellules de chauves-souris et des cellules humaines. Nous avons tout d’abord observé des profils immunitaires innés distincts à l’état basal. Les cellules de chauves-souris présentent des n
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Gössringer, Markus. "In-vivo-Analysen zur Funktion bakterieller RNase-P-Proteine in Bacillus subtilis." [S.l. : s.n.], 2004. http://archiv.ub.uni-marburg.de/diss/z2004/0529/.

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Ahmed, Firdous. "Identification of potential biomarkers in lung cancer as possible diagnostic agents using bioinformatics and molecular approaches." University of the Western Cape, 2015. http://hdl.handle.net/11394/4862.

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>Magister Scientiae - MSc<br>Lung cancer remains the leading cause of cancer deaths worldwide, with the majority of cases attributed to non-small cell lung carcinomas. At the time of diagnosis, a large percentage of patients present with advanced stage of disease, ultimately resulting in a poor prognosis. The identification circulatory markers, overexpressed by the tumour tissue, could facilitate the discovery of an early, specific, non-invasive diagnostic tool as well as improving prognosis and treatment protocols. The aim was to analyse gene expression data from both microarray and RNA seque
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Mary, Catherine. "Utilisation séquentielle des sites accepteurs d'épissage lors de l'expression du provirus HIV-1 : analyse par cartographie à la RNAse." Lyon 1, 1994. http://www.theses.fr/1994LYO1T236.

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Ahmed, Fathima Zuba. "Unravelling genes responsible for successful anthocyanin production in Nicotiana benthamiana." Thesis, Queensland University of Technology, 2022. https://eprints.qut.edu.au/230763/1/Fathima%20Zuba_Ahmed_Thesis.pdf.

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This thesis utilised two approaches, forward genetics and comparative transcriptomic analysis, to investigate the contrasting response to anthocyanin production observed in two distinct Nicotiana benthamiana ecotypes, LAB and QLD. The thesis is a step forward in utilising N. benthamiana as a candidate in forward genetics, currently limited due to its large complex genome and polyploid nature. The study utilised a cross-population between LAB and QLD to investigate the nature of inheritance of the contrasting parental phenotypes in its progeny. Additionally, expression profiles of anthocyanin b
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Marchant, Axelle. "Le processus de domiciliation des punaises hématophages vectrices de la maladie de Chagas : apport de l’étude du transcriptome chimiosensoriel." Thesis, Université Paris-Saclay (ComUE), 2016. http://www.theses.fr/2016SACLS008/document.

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En Amérique Latine, les punaises hématophages Triatominae transmettent à l’homme le parasite Trypanosoma cruzi, responsable de la maladie de Chagas touchant actuellement 5 millions de personnes. Même si les programmes d’éradication chimique des vecteurs sont efficaces, la maladie persiste du fait de la recolonisation des habitations humaines par des vecteurs provenant d’habitats naturels. Ainsi, certaines espèces présentent une capacité d’adaptation aux anthroposystèmes (processus de domiciliation), alors que d’autres espèces apparentées ne l’ont pas. Comprendre cette capacité d’adaptation est
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Loe-mie, Yann. "Contribution bioinformatique à l' analyse du transcriptome humain." Thesis, Aix-Marseille, 2012. http://www.theses.fr/2012AIXM4002/document.

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Dans la première partie j'ai analysé des jeux de données de RNA-seq de transcriptome de petits ARNs disponibles dans les bases de données publiques. J'y ai observé 2 points intrigants : - une grande partie des lectures (bien que courtes) ne peux pas être alignée sur le génome de référence sans discordance et cette fraction non-alignable est parfois majoritaire. - de nombreuses lectures ont des tailles autours de 15-18nt qui ne correspondent à aucun type de petits ARNs connues, cette fraction est également majoritaires dans certains cas. Ces expériences sont souvent conçues pour la détection de
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Books on the topic "Analyse RNAseq"

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1925-, Cherayil J. D., ed. Transfer RNAs and other soluble RNAs. CRC Press, 1990.

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Rederstorff, Mathieu. Small non-coding RNAs: Methods and protocols. Humana Press, 2015.

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Kirch, Hans-Hubert. Strukturelle und funktionelle Analyse der Regulation zweier S-RNAse Gene aus Solanum tuberosum L. in transgenen Pflanzen. 1993.

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Scharnhorst, Christina. Analyse kerngenomkodierter messenger RNAs für chloroplastidäre Proteine der Erbse (Pisum sativum L.). 1987.

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Conrad, Frank. Neue Möglichkeiten der enzymatischen Synthese von modifizierten RNAs zur Analyse von Ribozym Reaktionen. 1995.

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Rederstorff, Mathieu. Small Non-Coding RNAs: Methods and Protocols. Springer, 2022.

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Rederstorff, Mathieu. Small Non-Coding RNAs: Methods and Protocols. Springer New York, 2016.

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Rederstorff, Mathieu. Small Non-Coding RNAs: Methods and Protocols. Springer, 2021.

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Nellen, Wolfgang, and Christian Hammann. Small RNAs : : Analysis and Regulatory Functions. Springer London, Limited, 2007.

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(Editor), Wolfgang Nellen, and Christian Hammann (Editor), eds. Small RNAs:: Analysis and Regulatory Functions (Nucleic Acids and Molecular Biology). Springer, 2005.

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Book chapters on the topic "Analyse RNAseq"

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Cagnin, Stefano, Enrico Alessio, Raphael Severino Bonadio, and Gabriele Sales. "Single-Cell RNAseq Analysis of lncRNAs." In Long Non-Coding RNAs in Cancer. Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1581-2_5.

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Agnelli, Luca, Stefania Bortoluzzi, and Giancarlo Pruneri. "Bioinformatic Pipelines to Analyze lncRNAs RNAseq Data." In Long Non-Coding RNAs in Cancer. Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1581-2_4.

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Croce, Olivier, and Eric Röttinger. "Creating a User-Friendly and Open-Access Gene Expression Database for Comparing Embryonic Development and Regeneration in Nematostella vectensis." In Methods in Molecular Biology. Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2172-1_35.

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AbstractThe sea anemone Nematostella vectensis has emerged as a powerful research model to understand at the gene regulatory network level, to what extend regeneration recapitulates embryonic development. Such comparison involves massive transcriptomic analysis, a routine approach for identifying differential gene expression. Here we present a workflow to build a user-friendly, mineable, and open-access database providing access to the scientific community to various RNAseq datasets.
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Sharma, Preeti, B. Sharan Sharma, and Ramtej J. Verma. "A Guide to RNAseq Data Analysis Using Bioinformatics Approaches." In Advances in Bioinformatics. Springer Singapore, 2021. http://dx.doi.org/10.1007/978-981-33-6191-1_12.

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Hallier, Marc, Svetlana Chabelskaya, and Brice Felden. "Experimental Analyses of RNA-Based Regulations in Bacteria." In Regulatory RNAs. Springer Berlin Heidelberg, 2011. http://dx.doi.org/10.1007/978-3-662-45801-3_14.

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Majerczyk, Charlotte D. "Global Expression Analysis of Quorum Sensing-Controlled Genes by RNAseq." In Methods in Molecular Biology. Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7309-5_14.

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Skreka, Konstantinia, Michael Karbiener, Marek Zywicki, Alexander Hüttenhofer, Marcel Scheideler, and Mathieu Rederstorff. "Expression Profiling of ncRNAs Employing RNP Libraries and Custom LNA/DNA Microarray Analysis." In Regulatory RNAs. Springer Berlin Heidelberg, 2011. http://dx.doi.org/10.1007/978-3-662-45801-3_9.

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Ender, Anna, Peter F. Stadler, Mario Mörl, and Sven Findeiß. "RNA Design Principles for Riboswitches that Regulate RNase P-Mediated tRNA Processing." In Riboregulator Design and Analysis. Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2421-0_11.

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Ender, Anna, Peter F. Stadler, Mario Mörl, and Sven Findeiß. "RNA Design Principles for Riboswitches that Regulate RNase P-Mediated tRNA Processing." In Riboregulator Design and Analysis. Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2421-0_11.

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Boerner, Susan, and Karen M. McGinnis. "Computational Analysis of LncRNA from cDNA Sequences." In Long Non-Coding RNAs. Springer New York, 2016. http://dx.doi.org/10.1007/978-1-4939-3378-5_20.

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Conference papers on the topic "Analyse RNAseq"

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Lunev, E. A., E. A. Volovikov, S. V. Popov, T. V. Egorova, and M. V. Bardina. "INVERTED TERMINAL REPEATS OF THE ADENO-ASSOCIATED VIRUS DEMONSTRATE PROMOTER ACTIVITY IN GABAERGIC NEURONS IN VITRO." In XI МЕЖДУНАРОДНАЯ КОНФЕРЕНЦИЯ МОЛОДЫХ УЧЕНЫХ: БИОИНФОРМАТИКОВ, БИОТЕХНОЛОГОВ, БИОФИЗИКОВ, ВИРУСОЛОГОВ, МОЛЕКУЛЯРНЫХ БИОЛОГОВ И СПЕЦИАЛИСТОВ ФУНДАМЕНТАЛЬНОЙ МЕДИЦИНЫ. IPC NSU, 2024. https://doi.org/10.25205/978-5-4437-1691-6-86.

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Oba-Shinjo, Sueli M., Lais C. Cardoso, Roseli da Silva, Antonio M. Lerario, Miyuki Uno, and Suely S. K. Marie. "Abstract 66: CD99 functional analysis in glioblastoma by RNAseq." In Proceedings: AACR 106th Annual Meeting 2015; April 18-22, 2015; Philadelphia, PA. American Association for Cancer Research, 2015. http://dx.doi.org/10.1158/1538-7445.am2015-66.

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Legeai, Fabrice, Susete Alves-Carvalho, Kévin Gazengel, Anthony Bretaudeau, Stéphanie Robin, and Stéphanie Daval. "AskoR, A R Package for Easy RNASeq Data Analysis." In The 1st International Electronic Conference on Entomology. MDPI, 2021. http://dx.doi.org/10.3390/iece-10646.

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Kosarev, I. A., N. A. Timofeeva, A. A. Kuznetsova, and N. A. Kuznetsov. "CLEAVAGE OF RNA WITHIN MODEL R-LOOPS BY RIBONUCLEASE H1 E. COLI." In XI МЕЖДУНАРОДНАЯ КОНФЕРЕНЦИЯ МОЛОДЫХ УЧЕНЫХ: БИОИНФОРМАТИКОВ, БИОТЕХНОЛОГОВ, БИОФИЗИКОВ, ВИРУСОЛОГОВ, МОЛЕКУЛЯРНЫХ БИОЛОГОВ И СПЕЦИАЛИСТОВ ФУНДАМЕНТАЛЬНОЙ МЕДИЦИНЫ. IPC NSU, 2024. https://doi.org/10.25205/978-5-4437-1691-6-247.

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In this study, the kinetic analysis of the interaction of RNase H1 from E. coli with model R-loops of different structures under steady-state conditions was performed. It has been shown that the rate of hydrolysis of the RNA-primer in the model R-loops under the action of RNase H1 is significantly affected by the size of the heteroduplex moiety. The hydrolysis of the RNA-primer in the model R-loops under the action of RNase H1 in the presence of RNA polymerase was also studied. It was shown that in the presence of RNA polymerase, the hydrolysis of the RNA primer in the model R-loops under the
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Bhuvaneshwar, Krithika, Coleman I. Smith, Alexander H. Kroemer, Aiwu Ruth He, and Yuriy Gusev. "Abstract 548: RNAseq analysis of infiltrating immune cells in liver cancer." In Proceedings: AACR Annual Meeting 2017; April 1-5, 2017; Washington, DC. American Association for Cancer Research, 2017. http://dx.doi.org/10.1158/1538-7445.am2017-548.

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Bloom, Ryan, Raman Talwar, Jeff Hiken, and Jon Armstrong. "Abstract 1999: Cofactor Paragon: a novel tool to analyze the tumor microenvironment using RNAseq." In Proceedings: AACR Annual Meeting 2017; April 1-5, 2017; Washington, DC. American Association for Cancer Research, 2017. http://dx.doi.org/10.1158/1538-7445.am2017-1999.

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"Genome-wide association and RNAseq analyses of sunflower resistance to Sclerotinia basal stalk rot." In IS-MPMI Congress. IS-MPMI, 2023. http://dx.doi.org/10.1094/ismpmi-2023-51.

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Khademioureh, Sara, Irina Dinu, and Sergio Peignier. "GSHAPA: Gene Set Analysis for Single-Cell RNAseq Using Random Forest and SHAP Values." In SAC '25: 40th ACM/SIGAPP Symposium on Applied Computing. ACM, 2025. https://doi.org/10.1145/3672608.3707901.

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Ryan, Michael C., and John N. Weinstein. "Abstract 1796: Analysis of TCGA RNASeq data using SpliceSeq provides a survey of alternative splicing in cancer." In Proceedings: AACR 104th Annual Meeting 2013; Apr 6-10, 2013; Washington, DC. American Association for Cancer Research, 2013. http://dx.doi.org/10.1158/1538-7445.am2013-1796.

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Toccacieli, Ali, and Manuela Petti. "Identification of Cancer Biomarkers for Multi-class Diagnostics through Network Analysis of RNAseq Data of Tumor-Educated Platelets." In 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2022. http://dx.doi.org/10.1109/bibm55620.2022.9995086.

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Reports on the topic "Analyse RNAseq"

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Lers, Amnon, E. Lomaniec, S. Burd, A. Khalchitski, L. Canetti, and Pamela J. Green. Analysis of Senescence Inducible Ribonuclease in Tomato: Gene Regulation and Function. United States Department of Agriculture, 2000. http://dx.doi.org/10.32747/2000.7570563.bard.

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Natural leaf senescence has a negative influence on yield. Postharvest induced senescence contributes to the losses of quality in flowers, foliage, and vegetables. Strategies designed to control the senescence process in crop plants could therefore have great applied significance. Senescence is regulated by differential gene expression yet, functional characterization of the genes specifically induced and study of their expression control, is still in its infancy. Study of senescence-specific genes is required to allow identification of regulatory elements participating in senescence-induced e
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Schuster, Gadi, and David Stern. Integrated Studies of Chloroplast Ribonucleases. United States Department of Agriculture, 2011. http://dx.doi.org/10.32747/2011.7697125.bard.

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Gene regulation at the RNA level encompasses multiple mechanisms in prokaryotes and eukaryotes, including splicing, editing, endo- and exonucleolytic cleavage, and various phenomena related to small or interfering RNAs. Ribonucleases are key players in nearly all of these post-transcriptional mechanisms, as the catalytic agents. This proposal continued BARD-funded research into ribonuclease activities in the chloroplast, where RNase mutation or deficiency can cause metabolic defects and is often associated with plant chlorosis, embryo or seedling lethality, and/or failure to tolerate nutrient
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Lers, Amnon, and Pamela J. Green. LX Senescence-Induced Ribonuclease in Tomato: Function and Regulation. United States Department of Agriculture, 2003. http://dx.doi.org/10.32747/2003.7586455.bard.

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Natural leaf senescence, which occurs even when growth conditions are near optimal, has a negative influence on yield. Postharvest induced senescence contributes to the losses of quality in flowers, foliage, and vegetables. Strategies designed to control the senescence process in crop plants could therefore have great applied significance. However, the successful design of such strategies requires a better insight into the senescence machinery and control in higher plants. A main feature of senescence is the hydrolysis of macromolecules by hydrolases of various types such as ribonucleases (RNa
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Eyal, Yoram, and Sheila McCormick. Molecular Mechanisms of Pollen-Pistil Interactions in Interspecific Crossing Barriers in the Tomato Family. United States Department of Agriculture, 2000. http://dx.doi.org/10.32747/2000.7573076.bard.

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During the evolutionary process of speciation in plants, naturally occurring barriers to reproduction have developed that affect the transfer of genes within and between related species. These barriers can occur at several different levels beginning with pollination-barriers and ending with hybrid-breakdown. The interaction between pollen and pistils presents one of the major barriers to intra- and inter-specific crosses and is the focus of this research project. Our long-term goal in this research proposal was defined to resolve questions on recognition and communication during pollen-pistil
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Lers, Amnon, and Pamela J. Green. Analysis of Small RNAs Associated with Plant Senescence. United States Department of Agriculture, 2013. http://dx.doi.org/10.32747/2013.7593393.bard.

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Senescence is an agriculturally significant process due to its negative impact to crop yield and postharvest quality. The genetic regulatory systems controlling senescence induction and progress respond to both developmental and environmental stress signals and involve numerous gene expression changes. Knowledge about the key molecular factors which control senescence is very limited. MicroRNAs (miRNAs) are a class of small RNAs which typically function by guiding cleavage of target messenger RNAs. They have been shown to play major roles in a variety of plant processes including development,
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Glazer, Itamar, Alice Churchill, Galina Gindin, and Michael Samish. Genomic and Organismal Studies to Elucidate the Mechanisms of Infectivity of Entomopathogenic Fungi to Ticks. United States Department of Agriculture, 2013. http://dx.doi.org/10.32747/2013.7593382.bard.

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The overall goal of this research was to elucidate the factors affecting early development of Metarhizium spp. (previously named M. anisopliae) on ticks or tick cuticle extracts and the molecular basis of these early infection processes. The original objectives were: 1. Characterize the pre-penetration events (adhesion, germination and appressorium formation) of spores of M. anisopliae strains with high or low virulence during tick infection. 2. Create GFP-expressing strains of M. anisopliae tick pathogens having high and low virulence to compare their progress of infection by microscopy. 3. U
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Ori, Naomi, and Mark Estelle. Specific mediators of auxin activity during tomato leaf and fruit development. United States Department of Agriculture, 2012. http://dx.doi.org/10.32747/2012.7597921.bard.

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The plant hormone auxin is involved in numerous developmental processes, including leaf and fruit development. The tomato (Solanumlycopersicum) gene ENTIRE (E) encodes an auxin-response inhibitor from the Aux/IAA family. While most loss-offunction mutations in Aux/IAA genes are similar to the wild type due to genetic redundancy, entire (e) mutants show specific effects on leaf and fruit development. e mutants have simple leaves, in contrast to the compound leaves of wild type tomatoes. In addition, e plants produce parthenocarpic fruits, in which fruit set occurs independently of fertilization
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Lindsay, Denise, J. Mylroie, Kurt Gust, Elijah Cowan, and Richard Lance. Investigation of environmental messenger RNA (e-mRNA) for detection of genes sensitive to PFOS exposure in zebrafish (Danio rerio). Engineer Research and Development Center (U.S.), 2025. https://doi.org/10.21079/11681/49841.

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Environmental RNA (eRNA) is gaining ground as an environmental monitoring and assessment tool. Whereas environmental DNA is mainly utilized for species detection, and sometimes population size estimation, eRNA potentially provides additional scales or classes of inference. eRNA’s comparatively more rapid signal decay rates provide narrower temporal windows for species presence, while detection of messenger RNAs or other cell regulatory RNAs in environmental samples could provide evidence of genomic responses to environmental stressors. We tested select environmental messenger RNAs (e-mRNAs) of
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Zhong, xiaoling. Diagnostic Significance of Noncoding RNAs in Kawasaki Disease: A Systematic Review and Meta-Analysis. INPLASY - International Platform of Registered Systematic Review and Meta-analysis Protocols, 2022. http://dx.doi.org/10.37766/inplasy2022.10.0035.

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Xu, Jianhao, Fang Cao, Yongwei Hu, and Zaichang Chen. Circulating long noncoding RNAs as potential biomarkers for stomach cancer: A systematic review and meta-analysis. INPLASY - International Platform of Registered Systematic Review and Meta-analysis Protocols, 2021. http://dx.doi.org/10.37766/inplasy2021.2.0079.

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