Relevant bibliographies by topics / GENEXUS

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Academic literature on the topic 'GENEXUS'

Author: Grafiati
Published: 2 June 2025
Last updated: 22 June 2025

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Journal articles on the topic "GENEXUS"

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Sedova, Marina, Alexy Ongpin, Jennifer Burke, et al. "Abstract 764: Fully automated sample-to-report NGS workflow for comprehensive genomic profiling for myeloid neoplasms." Cancer Research 82, no. 12_Supplement (2022): 764. http://dx.doi.org/10.1158/1538-7445.am2022-764.

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Abstract Introduction: Myeloid malignancies are associated with a broad and diverse set of genomic alterations, including SNVs, insertions, deletions and gene fusions. Comprehensive characterization of genetic mutations in hematological disorders currently requires a variety of diagnostic tests and takes multiple days to complete. We developed a fully automated NGS Myeloid Assay that offers an easy to use sample-to-report workflow and the capability for processing up to 8 samples per day. Methods: The Genexus System is comprised of two software linked instruments, the Genexus Purification System and the Genexus Integrated Sequencer. The Genexus Purification System was used to isolate the DNA and RNA from blood or bone marrow samples from precharacterized myeloid samples representative of Acute Myeloid Leukemia (AML) and Myelodysplastic Syndrome (MDS) and from the blood of healthy donors. The Genexus Integrated Sequencer was used to dilute the nucleic acids to optimal concentration and to sequence the samples in replicates with Oncomine Myeloid Genexus v2 Assay. Six DNA and RNA samples were sequenced per run per day along with commercially available analytical controls and a No Template Control. The report was generated by the Genexus Software analysis pipeline optimized to detect different variant types with high sensitivity and specificity. Results: The purification workflows were tested with blood input of 50-400uL for DNA and 50-150uL for RNA. Genexus Purification System extracted and quantified nucleic acids showed input dependent yields. DNA and RNA yields obtained with 50uL sample inputs consistently met the 27.5ng DNA and 15ng RNA minimum requirements for Genexus Integrated Sequencer workflows. DNA libraries had >97% Uniformity of Amplicon Coverage and >95% Target Base Coverage at 350x. The percentage ratio of Mapped Reads for DNA and RNA libraries was approximately 80:20. Detected genetic variations included key hotspots in CEBPA, FLT3, IDH1/2, NPM1, NRAS, RUNX1, and U2AF1 genes that are prevalent in AML and MDS. Genexus Variant Calling results showed high reproducibility and high concordance to the Ion GeneStudio S5 sequencing platform (>95%). The analytical controls, AcroMetrix Oncology Hotspot Control, Seraseq Myeloid Mutation DNA Mix and Seraseq Myeloid Fusion RNA Mix, were sequenced with Sensitivity and PPV >95%. Conclusion: The Genexus System offers an automated sample-to-report workflow with minimal hands-on-time and run results in 30 hours which allows an easy to use solution for next day turnaround time. When used with the Oncomine Myeloid GX v2 Assay, it provides accurate and comprehensive information on diverse mutations including fusions that are relevant to the study of myeloid cancers. For research use only. Not for use in diagnostic procedures. Citation Format: Marina Sedova, Alexy Ongpin, Jennifer Burke, Collyn Seeger, Sarah Brozio, Janice Au-Young, Jiajie Huang, Thilanka Jayaweera, Iris Casuga, Milton Huynh, Fiona Hyland. Fully automated sample-to-report NGS workflow for comprehensive genomic profiling for myeloid neoplasms [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 764.
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Oliveira, Douglas Hamilton, and Vandré Felipe de Oliveira Nicolau. "Comunicação SMTP em aplicações Genexus – um comparativo entre a linguagem nativa e a não nativa." Revista Processando o Saber 03, no. 01 (2011): 82–99. https://doi.org/10.5281/zenodo.15571842.

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O artigo visa demonstrar a comunicação de aplicações GENEXUS com servidores de e-mails utilizando o protocolo SMTP que é responsável pelo envio de mensagens de correio eletrônico, para isso serão comentados duas formas de envio: a forma nativa do GENEXUS com a utilização de variáveis que, na verdade, são objetos instanciados de classes especificas do GENEXUS que tratam do protocolo SMTP e a outra forma usando linguagem externa não nativa que, no caso, será a linguagem da Microsoft C#.NET no framework 3.5. Para tanto, o artigo desenvolve um estudo de caso onde uma solução Genexus com recursos de envio de mensagens aplicado em um ERP acadêmico sofreu uma atualização sendo necessária a introdução de um web service que passou a gerenciar exclusivamente os processos de envio de mensagens.
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Reibán-Lucero, Franklin I., and Diego M. Cordero-Guzmán. "Catálogo de refactorización de código fuente para la herramienta CASE GeneXus." Polo del Conocimiento 4, no. 6 (2019): 173. http://dx.doi.org/10.23857/pc.v4i6.1005.

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<p style="text-align: justify;">La herramienta de ingeniería de software asistido por computador (CASE) GeneXus se utiliza para desarrollar software en base a la abstracción del conocimiento, permite modelar entidades del mundo real y definir sus características y comportamiento de forma declarativa pero también permite crear objetos basados en lógica procedural cuya construcción depende exclusivamente del desarrollador pues la herramienta no brinda asistencia de ningún tipo para el desarrollo, esto implica que no se verifique exhaustivamente la congruencia con el conocimiento que se captura en las entidades modeladas y que tampoco se optimicen los procesos implementados en los mencionados objetos basados en lógica procedural.</p>
 <p style="text-align: justify;">El objetivo de esta investigación fue crear un catálogo de refactorización de código fuente adaptando las mejores prácticas, de este ámbito, al desarrollo de software con la herramienta CASE GeneXus, de forma que se evite el deterioro causado por los ajustes de mantenimiento y la adición de nuevas funciones en una aplicación desarrollada con GeneXus. Esto se cumplió estableciendo un conjunto de reglas para optimizar las aplicaciones desarrolladas con GeneXus como un catálogo de refactorización de código fuente.</p>
 <p style="text-align: justify;">Los resultados obtenidos benefician especialmente a la comunidad de desarrolladores GeneXus, una comunidad basada en una cultura «Open Source» y en constante crecimiento. La relación entre la reducción del costo global de mantenimiento y la mejora de la inteligibilidad del código fuente de una aplicación desarrollada con GeneXus, es el beneficio más notorio, y, es también, el aspecto que se analiza mediante la discusión y conclusiones de este documento.</p>
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Zochowski, Kayla, Dinesh Cyanam, Geoffrey Lowman, et al. "Abstract 42: High-throughput next-generation sequencing research solutions for detection of oncology variants, gene fusion events, and key oncology endpoints." Cancer Research 82, no. 12_Supplement (2022): 42. http://dx.doi.org/10.1158/1538-7445.am2022-42.

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Abstract Introduction: The Ion Torrent Genexus System has redefined the genomic profiling paradigm as the first fully-integrated, next-generation sequencing (NGS) research platform to provide an automated sample-to-report workflow with results in a single day. With a purification instrument, an enhanced chip architecture, and downstream reporting, the Genexus System provides a convenient solution to enable oncology research. Here we highlight the oncology research applications and high-throughput NGS capabilities of the Genexus System with Oncomine Comprehensive Assay Plus (OCA Plus), an oncology research panel that can detect variants, fusions, and evaluate key oncology research endpoints. We demonstrate the ability of OCA Plus on Genexus to evaluate tumor mutational burden (TMB), microsatellite instability (MSI), loss of heterozygosity (LOH), and homologous recombination repair deficiency (HRD). Methods: The high-throughput capabilities of the Genexus System enable it to support large oncology research panels such as OCA Plus, which comprises over 13,000 amplicons. The extensive per sample coverage allows for comprehensive DNA and RNA genomic profiling of relevant cancer biomarkers in over 500 genes including detection of over 1,300 fusion isoforms. We utilized high-molecular weight and FFPE samples, reference controls, and orthogonally tested research samples to evaluate DNA variant calling, RNA fusion calling, and key oncology research endpoints, including MSI, LOH, TMB, and HRD. Results: Commercially sourced reference control and research samples were sequenced using OCA Plus on the Genexus System. Sequencing data metrics showed ≥24 million reads per sample, with four samples supported per run. The high-throughput capacity of the Genexus chip architecture results in >95% of amplicons achieving a minimum of 500X coverage with an average coverage uniformity of ≥95% when evaluated across all >13,000 amplicons. Variant calling was assessed using the AcroMetrix Oncology Hotspot Control which has 328 hotspot variants covered by OCA Plus. Variant calling performance showed a hotspot and de novo variant sensitivity and PPV >95%. MSI score and status were assessed using known MSI-High and microsatellite stable (MSS) research samples and FFPE samples of interest. Results show high concordance with data from OCA Plus on GeneStudio. Conclusions: The increased throughput of the Genexus System combined with minimal touchpoints and a rapid turnaround time enables comprehensive genomic profiling for research assays such as OCA Plus where an increased number of sequencing reads leads to greater sensitivity for detecting rare variants and low-level fusion transcripts. Further, accurate characterization of key oncology research endpoints, such as TMB, MSI, LOH, and HRD, allow the Genexus System to accelerate research in the field of oncology. Citation Format: Kayla Zochowski, Dinesh Cyanam, Geoffrey Lowman, Jennifer Kilzer, Sameh El-Difrawy, Yan Zhu, Tanaya Puranik, Alex Phan, Derek Wong, Edith Kwong, Coleen Nemes, Iris Casuga, Frances Chan, Eun Ji Kim, Jianjun Guo, Vinay Mittal, Emily Norris, Shrutii Sarda, Mohit Gupta, Fan Shen, Steven Roman, Gabriel Vargas, Ying Jin, Annie Kraltcheva, Paul Williams, Amneet Gulati, Justin Rigby, Christopher Hoff, Richard Meade, Elaine Wong-Ho, Andrew Wong, Jamsheed Ghadiri, David Garcia-Viramontes, Scott Myrand, Seth Sadis. High-throughput next-generation sequencing research solutions for detection of oncology variants, gene fusion events, and key oncology endpoints [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 42.
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Casuga, Iris, Frances Chan, Milton Huynh, et al. "Abstract 2944: Rapid and accurate variant calling of FFPE samples with the Genexus System." Cancer Research 82, no. 12_Supplement (2022): 2944. http://dx.doi.org/10.1158/1538-7445.am2022-2944.

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Abstract Next-Generation Sequencing technology has enhanced oncology research by enabling the detection of all cancer related variants into one assay for research and drug discovery programs. The Oncomine࣪ Comprehensive Assay v3, a pan-cancer panel, used with the Ion Torrent࣪ Genexus࣪ System allows for formalin-fixed paraffin embedded (FFPE) samples to be examined across 161 unique genes in an automated sample to result workflow in 30hrs. This study demonstrates ≥ 95% Sensitivity and PPV for detecting SNV, Indel, and Copy Number variants of clinical FFPE samples along with fusions. When tested using analytical controls, the Genexus System achieves ≥ 98% Sensitivity for hotspot variants, ≥ 95% for de novo variants, and 100% Sensitivity for fusion variants. The Ion Torrent࣪ Genexus࣪ System is fully automated and consists of two software linked instruments, the Ion Torrent࣪ Genexus࣪ Purification System and the Ion Torrent࣪ Genexus࣪ Integrated Sequencer. For this study, the purification system was used to sequentially extract and quantify DNA & RNA samples from human colon and lung FFPE tumor tissue. The purification instrument provides minimal hands-on-time, ease of use and compatibility with the integrated sequencer. It extracts and quantifies the nucleic acids, records the quantitation values and transfers the nucleic acids to an output plate. The plate is transferred from the purification instrument directly to the sequencer for sample dilution, library preparation, and sequencing using the Oncomine࣪ Comprehensive Assay v3 panel. Variant calling analysis of the DNA & RNA pairs is completed immediately following sequencing. Results show that the variants are detected reproducibly with ≥ 95% Sensitivity and PPV when compared to the Ion GeneStudio࣪ S5 System as an orthogonal method. All variants in the report were correct with p-values ≤ 10-5. Additionally, a subset of the extracted samples was evaluated using Sanger Sequencing to verify hotspot mutations found in samples sequenced on both the Genexus࣪ System and GeneStudio࣪ S5 System. Results show that all expected hotspot variants were detected. In summary, the Ion Torrent࣪ Genexus࣪ System is a reliable and fast turnaround solution for sample-to-variant calling results. When used with the Oncomine࣪ Comprehensive Assay v3 panel, the system provides accurate identification of tumor markers for oncology research. Citation Format: Iris Casuga, Frances Chan, Milton Huynh, Gregory R. Govoni, Kayla Zochowski, Thilanka Jayaweera, Janice Au-Young. Rapid and accurate variant calling of FFPE samples with the Genexus System [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 2944.
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Kreston, Sarah, Claire Gould, Kylie Blair, Leisa Jackson, Janice Riley, and Gary A. Pestano. "Abstract 5547: Evaluation of two clinically focused targeted NGS systems for liquid biopsy testing shows a high level of concordance in resulting actionable mutations." Cancer Research 83, no. 7_Supplement (2023): 5547. http://dx.doi.org/10.1158/1538-7445.am2023-5547.

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Abstract Introduction: The use of blood-based molecular diagnostics is increasingly becoming routine in clinical oncology practice. The purpose of this study was to evaluate variant resulting concordance for the four major somatic variant classes using two clinical next-generation sequencing (NGS) systems for conducting highly sensitive blood-based analyses. All donor specimens were de-identified remnants from patients previously diagnosed with advanced NSCLC. We utilized two independent panels, systems and bioinformatic pipelines that are focused on clinical testing for key actionable variants. The fifty-gene panel Oncomine Precision Assay (OPA) GX was performed on the Genexus Integrated Sequencer and the 52 gene GeneStrat NGS (GSNGS) test was run as a reference on the Ion GeneStudio S5 PRIME system. The four major classes of mutations evaluated included Single Nucleotide Variants (SNV), Insertions and Deletions (INDEL), copy number amplifications (CNAs) and gene fusions. Methods: For this study, de-identified reference GSNGS cell-free nucleic acid (cfNA) remnant specimens (n=33 variants) that passed all validated QC bioinformatics thresholds were blinded and tested on the Genexus. DNA concentration was measured by fluorometry, and specimens were diluted to an input of 6.6 ng to 53.4 ng for library preparation. The Genexus system is pre-programmed to process specimens to result generation. Variant calls for all mutation classes were conducted using the on-board bioinformatics pipelines, and results were compared to those generated by the GeneStrat NGS Test. We included specimens harboring somatic variant mutations in KRAS, NRAS, BRAF, EGFR, ERBB2, and FGFR; CNAs; EML4-ALK fusions; and MET exon 14 skipping. Results: All samples passed the OPA (Genexus) bioinformatic quality control criteria and mapped reads were highly consistent, demonstrating accuracy of calls between both the Ion Torrent platforms, informatic pipelines and panels. We observed 100% concordance in variant calls for SNVs, INDELs and fusions between the two platforms. There was one CNA variant observed on the S5 that was not called by the Genexus workflow, yielding overall concordance of 97% (32 of 33). Of note, 44 additional somatic variants (SNV and INDELs) and 1 additional fusion were detected using the Genexus workflow. This was due to the lower threshold for variant calling on this system. Conclusion: The high concordance of the independent workflows for the detection of nucleic acid variants in circulation demonstrates the capability of both systems to be used for testing of clinical specimens. Specifically, actionable variants in the four major mutation classes were successfully detected in the reference and test specimen set. As a part of clinical validation, orthogonal testing of variants will need to be conducted. Citation Format: Sarah Kreston, Claire Gould, Kylie Blair, Leisa Jackson, Janice Riley, Gary A. Pestano. Evaluation of two clinically focused targeted NGS systems for liquid biopsy testing shows a high level of concordance in resulting actionable mutations. [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 5547.
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Lowman, Geoffrey Marc, Dinesh Cyanam, Emily Norris, et al. "Abstract 232: Fully automated comprehensive genomic profiling for detection of cancer variants, gene fusions, and complex oncology endpoints." Cancer Research 83, no. 7_Supplement (2023): 232. http://dx.doi.org/10.1158/1538-7445.am2023-232.

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Abstract Introduction: We present the comprehensive genomic profiling performance of the Ion Torrent Genexus system using the Oncomine Comprehensive Assay Plus (OCA Plus), a 500+ gene targeted AmpliSeq-based oncology research panel that evaluates DNA variants (including copy number alterations), RNA fusions, and key oncology research endpoints including tumor mutational burden (TMB), microsatellite instability (MSI), and homologous recombination repair deficiency (HRD) via characterization of genomic instability by the newly introduced Genomic Instability Metric (GIM). Methods: The Ion Torrent Genexus System provides comprehensive genomic profiling via automated sample-to-report workflow with next day results. The Genexus System supports oncology research panels such as OCA Plus, which is comprised of over 13,000 amplicons, and enables low input requirements of just 20ng of FFPE DNA and RNA. This study utilized cell lines, reference controls, and orthogonally tested FFPE research samples to evaluate detection of DNA variants, copy number alterations, RNA fusions, and key research endpoints, including MSI, TMB, and HRD. The OCA Plus panel was also evaluated for the ability to detect arm-level copy number changes in orthogonally validated FFPE samples. Results: Commercial reference controls and FFPE research samples were sequenced using OCA Plus on the Genexus System to an average depth of ≥24 million reads per sample, with four DNA and RNA samples supported per run. SNV and MNV calling performance was assessed using the AcroMetrix Oncology Hotspot Control which has 377 variants covered by OCA Plus and delivered SNV sensitivity and PPV >99% and MNV sensitivity of >99% and PPV >95%. MSI status was assessed using orthogonally tested FFPE samples from various tumor tissues (stomach, endometrial, colorectal) and returned status concordance of 99.4% with sensitivity and PPV >99%. The TMB endpoint was tested using commercial controls and FFPE samples with a correlation of r2 > 0.90 to orthogonal measurements. RNA Fusion reference controls showed 100% positive correlation. Copy number gain detection shows sensitivity of 99% and PPV >95%, while homologous copy loss gives 100% PPV and sensitivity of >90%. We also demonstrate high concordance to orthogonal methods in detection of HER2 amplifications, and the ability to detect arm-level copy number alterations such as 1p/19q co-deletions in IDH1 positive glioma samples. Conclusion: The Genexus System combines minimal touch points and a rapid turnaround time to enable comprehensive genomic profiling for research assays such as OCA Plus for detection of rare variants and low-level fusion transcripts. Further, by providing accurate characterization of key oncology research endpoints, the Genexus System can accelerate research in oncology. For research use only. Not for use in diagnostic procedures. Citation Format: Geoffrey Marc Lowman, Dinesh Cyanam, Emily Norris, Michelle Toro, Coleen Nemes, Tanaya Puranik, Yan Zhu, Alex Phan, Derek Wong, Portia Bernado, Anelia Kralcheva, Srinivas Nallandhighal, Loni Pickle, April Bigley, Mohit Gupta, Ying Jin, Sameh El-Difrawy, Amir Marcovitz, Fatima Zare, Charles Scafe, Yu-Ting Tseng, Jianjun Guo, Vinay Mittal, Scott Myrand, Santhoshi Bandla, Paul Williams, Eugene Ingerman, Elaine Wong-Ho, Seth Sadis, Mark Andersen, Rob Bennett. Fully automated comprehensive genomic profiling for detection of cancer variants, gene fusions, and complex oncology endpoints [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 232.
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Low, Siew-Kee Kee, Ken Uchibori, Rie Hayashi, et al. "Evaluation of Genexus system that automates specimen-to-report for cancer genomic profiling within a day using liquid biopsy." Journal of Clinical Oncology 38, no. 15_suppl (2020): 3538. http://dx.doi.org/10.1200/jco.2020.38.15_suppl.3538.

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3538 Background: Genomic profiling of patients’ tumors using NGS system help in facilitating molecular-guided therapy. The turnaround time from specimen to report by the NGS system is important to deliver result timely for clinical decisions. The Genexus Integrated Sequencer automates all steps of the targeted NGS workflow starting from nucleic acid of formalin-fixed paraffin-embedded tissues or plasma that significantly reduce laborious procedures. Importantly, the whole specimen-to-report workflow delivers results in a single day. In this study, we evaluated detection rate of alteration using Oncomine Precision Assay (OPA) on Genexus system with cell-free DNA (cfDNA) from non-small cell lung cancer (NSCLC). Methods: Among the cfDNA from 48 plasma samples of NSCLC were evaluated, 19 were newly-diagnosed cases with EGFR mutations in cancer tissues and 29 cases were patients who experienced progression of disease after first line of EGFR, ALK or ROS1-targeted therapy. 13-20ng of input cfDNA were subjected to automated Genexus Integrated Sequencer for library construction using OPA panel, templating and sequencing. OPA panel covers actionable hotspot mutations, copy number gains or loss, fusion drivers. The concordance of mutation profiles between the tumor tissue and cfDNA and detection of a resistance mutation(s) during molecular-targeted therapy were evaluated. Results: The sequencing resulted in median overall reads of 8,698,358, median overall depth of 30,648 (range 15,069-48,707) and median molecular coverage of 1,595 (range 859-2,550). Among 48 samples examined, 44 were detected to carry at least one somatic mutation, giving the detection rate of 92%. A total of 17 of 19 newly diagnosed EGFR-positive patients were also detected to carry EGFR mutations. Importantly, these 17 patients carry the same mutation that was found in tissue samples implying complete concordance. In addition, we found novel resistance mutations in plasma of the patients who were under EGFR, ALK or ROS1 targeted therapies. Conclusions: Genexus Integrated Sequencer is a fully automated and highly accurate NGS system with a 1-day turnaround time that could assist clinicians to make more timely decision. Novel actionable, resistance mutations were detected using OPA panel that provide potential options for molecular-guided therapy and may help the better understanding of resistance mechanism of targeted therapy.
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Schageman, Jeoffrey. "Oncomine Dx Express CE-IVD liquid biopsy assay for non-small cell lung cancer: Performance review and analytical validation." Journal of Clinical Oncology 41, no. 16_suppl (2023): e21218-e21218. http://dx.doi.org/10.1200/jco.2023.41.16_suppl.e21218.

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e21218 Background: Clinical diagnostics assays for oncology are becoming more readily available due to the advancement and democratization of Next-Generation Sequencing (NGS). Additionally, liquid biopsy can be used in NGS to detect genetic variants in circulating tumor DNA and RNA. Liquid biopsy is a less invasive option compared to traditional biopsy methods for early detection and continuous monitoring of cancer treatment outcomes. Here, we discuss screening of over 3,500 non-small cell lung cancer (NSCLC) samples, and the analytical validation of the Oncomine Dx Express Test (ODxET) and Genexus Dx Integrated Sequencer for detection of clinically significant variants in liquid biopsy samples. Methods: Our team screened over 3,500 NSCLC liquid biopsy samples in search of high priority clinical variants. Variants selected for analytical validation studies included ERBB2 exon 20 insertion, EGFR exon 20 insertion, EGFR exon 19 deletion, EGFR T790M, KRAS G12C, BRAF V600E, and RNA fusion isoforms including ALK, NTRK1/2/3, RET, and ROS1 oncogenic drivers. Over 550 screened samples were found to be positive for these variants of interest. This screening was performed on the Genexus Dx Integrated Sequencer according to the user guide. Results: The Genexus Dx Integrated Sequencer automates library preparation, sequencing, analysis, and reporting QC metrics and variant calls. Sequencing run setup is quick and straightforward, taking less than 15 minutes to start a run and just over 24 hours to go from nucleic acid to report. Limit of detection (LoD) for DNA SNVs, insertions, and deletions at 5 ng DNA input level ranged from 0.65% to 1.82% allelic frequency (AF), depending on the variant. The higher DNA input of 30 ng resulted in a lower LoD range, from 0.31% to 0.42% AF. RNA fusion and splice variant LoD at 5 ng sample input ranged from 9.9 to 19.6 molecular counts. The higher 30 ng input resulted in a lower LoD range for RNA variants as well, ranging from 6.4 to 8.0 molecular counts. In the analytical accuracy study, the false positive rate was found to be 0.2% for SNVs, 0% for insertions/deletions, and 0% for fusion targets. In the analytical reproducibility study, the average with-in run repeatability call rate (No Calls excluded) was 99.64% for DNA variants and 98.75% for RNA variants. Conclusions: Here, we demonstrated that the ODxET workflow on Genexus Dx Integrated Sequencer is a fast and efficient tool for testing clinical NSCLC liquid biopsy samples with high sensitivity and specificity.
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Burke, Jennifer, Frances Chen, Jiajie Huang, Geoffrey Lowman, Timothy Looney, and Marina Sedova. "69 Automated TRB locus haplotype analysis by long-amplicon TCRB chain sequencing for potential immune-related adverse events biomarker research." Journal for ImmunoTherapy of Cancer 8, Suppl 3 (2020): A75. http://dx.doi.org/10.1136/jitc-2020-sitc2020.0069.

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BackgroundIdentifying potential predictive biomarkers for immune related adverse events (irAEs) following checkpoint blockade inhibition (CPI) remains an outstanding goal of immune-oncology translational research. Polymorphism with the T cell receptor variable gene (TRBV) has been proposed as a potential risk factor for irAEs owing to a potential link between TRBV polymorphism and chronic autoimmune disease. Efforts to interrogate the potential biomarker utility of TRBV polymorphism have been hampered by the repetitive nature of the TRB locus. Our research has demonstrated a method for inferring TRB locus haplotypes from long-amplicon TCRB chain sequencing data, which we used to identify major haplotype groups in from nucleic acid. Here we present our research for a potential automated method for haplotype group assignment from TCRB chain sequencing data.MethodsRearranged TCRB chains from 10 blood samples were amplified and sequenced from 25ng peripheral blood total RNA via the Oncomine™ TCRB-LR assay using the Genexus™ Integrated Sequencer. 12 samples were run per chip with 4 samples run in each lane. TCRB clonotyping and repertoire feature analysis was performed using Genexus™ analysis software. Automated haplotype group assignment was performed by generation and comparison of TRBV allele profiles to those presented previously.1 For context, TCR evenness, convergence, and haplotype group assignment were compared to values obtained following analysis of the same samples via the GeneStudio™ S5 platform and Ion Reporter™ 5.12 software.ResultsTCR Evenness and convergence values were highly correlated across replicates run on the Genexus™ Integrated Sequencer (Spearman correlation >0.95 and >0.70, respectively). Evenness at equivalent clone count and convergence at equivalent sequencing depth were not significantly different across platforms (Spearman correlation >0.88). Haplotype group assignments demonstrated 100% agreement across replicates on both platforms.ConclusionsOur research has demonstrated a potential automated and reproducible method for TRB haplotype group assignment via the Oncomine™ TCR-Beta LR Assay, GX run on the Genexus™ Integrated Sequencer. Future studies will be needed to evaluate the potential biomarker utility of TRB haplotyping for the prediction of irAEs.For research use only not for diagnostic procedures.ReferenceLooney T, Duose D, Lowman G, Linch E, Hajjar J, Topacio-Hall D, Xu M, Zheng J, Alshawa A, Tapia C, Stephen B, Wang L, Meric-Bernstam F, Miller L, Glavin A, Lin L, Gong J, Conroy J, Morrison C, Hyland F, Naing A. Haplotype Analysis of the T-Cell Receptor Beta (TCRB) Locus by Long-amplicon TCRB Repertoire Sequencing. J Immunother Precis Oncol 2019;2:137–143.
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Dissertations / Theses on the topic "GENEXUS"

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Dias, Paulo Roberto. "Sistema de informação baseado em regras de negócio utulizando a ferramenta Genexus." Florianópolis, SC, 2002. http://repositorio.ufsc.br/xmlui/handle/123456789/84263.

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Dissertação (mestrado) - Universidade Federal de Santa Catarina, Centro Tecnológico. Programa de Pós-Graduação em Engenharia de Produção.<br>Made available in DSpace on 2012-10-20T07:46:04Z (GMT). No. of bitstreams: 1 188390.pdf: 751925 bytes, checksum: 51f4abe55bc43485084a9e032df3a628 (MD5)<br>Neste trabalho, aborda-se a aplicac a o de Regras de Negocio de forma declarativa no desenvolvimento de Sistemas de Informacao. Descrevem-se os principais conceitos relacionados com o assunto, mais especificamente aqueles que despontam como modernas tecnologias para o tratamento do problema, como Negocios, Sistemas, Informac a o, Regras de Negocio, entre outros. O principal assunto se refere é abordagem no desenvolvimento de um Sistema de Informacao com Regras de Negocio, utilizando a ferramenta de desenvolvimento Genexus. Estabelecem-se critÍrios de comparac a o baseados em qualidade de software. Compara-se, utilizando estes critÍrios, um Sistema de Informac a o desenvolvido com a ferramenta GeneXus, com outro desenvolvido de maneira procedural em ambiente. Delphi. Aplica-se o sistema no setor textil de Blumenau. In this work, the application of Business Rules in a declarative way is approached in the development of Information Systems. It is described the main concepts related with the subject, more specifically those than they blunt as modern technologies for the treatment of the problem, as Businesses, Systems, Information, Business Rules, among others. The main subject refers to the approach in the development of a Information System with Business Rules, using the development tool GeneXus. It settles down comparison criteria, based on software quality. It is compared, using these criteria, a Information System developed with the tool GeneXus with developed of way procedural in Delphi environment. The system is applied in the textile sector of Blumenau.
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Quispe, Vilcatoma Pablo César. "Implementación de un proceso automático para el registro y cierre de reclamos en una entidad bancaria utilizando metodología RUP y la herramienta Genexus." Bachelor's thesis, Universidad Nacional Mayor de San Marcos, 2022. https://hdl.handle.net/20.500.12672/17951.

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Describe la implementación de un proceso automático para el registro y cierre de reclamos en una entidad bancaria, debido a que era un proceso que se trabajaba manualmente y ocasionaba que la atención a los clientes tome demasiado tiempo y se incurra en pérdidas para la institución. El objetivo principal del proyecto fue disminuir el tiempo de atención de los reclamos. La metodología de desarrollo de software utilizada fue el Proceso Racional Unificado o RUP, teniendo en cuenta sus fases de ciclo de vida: inicio, elaboración, construcción y transición. Las herramientas utilizadas para el desarrollo fueron Genexus, IDE Eclipse con lenguaje de programación Java y base de datos DB2/400. De acuerdo a los resultados obtenidos se concluye que la implementación del proceso automático para el registro y cierre de reclamos en la entidad bancaria mejoró los tiempos de atención a los clientes, permitiendo incrementar los ingresos económicos de la institución.
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Hein, Tracee. "Genesis." The Ohio State University, 1988. http://rave.ohiolink.edu/etdc/view?acc_num=osu1299787960.

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Brixey, Shawn Alan. "Vista genesis." Thesis, Massachusetts Institute of Technology, 1988. http://hdl.handle.net/1721.1/64859.

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Castillo, Andrew T. "CYBORG GENESIS." CSUSB ScholarWorks, 2014. https://scholarworks.lib.csusb.edu/etd/110.

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We are currently living in an artificial, increasingly complex created system of discourse heavily base on socially constructed systems of language and digital technologies. How we use these technologies to advance the human condition in terms of our very existence makes us inherently cyborg in nature. With the increase in digital technologies in every aspect of day –to-day existence from your morning coffee to higher education, we have become increasingly dependent on our cyborg identities. This thesis, then, serves as a project that looks to understand how we have come to this point and to what extent our newly found cyborg identities can serve as the catalyst for progress particularly in education and the further production and transmission of human knowledge.
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Petrauskaitė, Jurgita. "Duomenų bazių teisinė apsauga Prancūzijoje ir Lietuvoje." Master's thesis, Lithuanian Academic Libraries Network (LABT), 2006. http://vddb.library.lt/obj/LT-eLABa-0001:E.02~2005~D_20060317_135105-63293.

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Base de données est un recueil d’œuvres, de données ou d’autres éléments indépendants, disposés de manière systématique ou méthodique et individuellement accessibles par des moyens électroniques ou d’une autre manière. La protection organisée par la directive, par le Code de la propriété intellectuelle français et par la Loi des droits d’auteurs et des droits voisins lituanienne est double.
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Gardner, Bruce Knight. "The Genesis calendar : the synchronistic tradition in Genesis 11." Thesis, University of Aberdeen, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.322470.

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Six related problems in calendrical study are addressed. In Chapter 2, the West, inheritor of Rome, is seen as solar-calendrical, unfamiliar with Hebrew calendrics apart from the Church's specialised use of a luni-solar calendar for Paschal calculations. Ancient calendars were usually lunar-based, although most periodically synchronised with the seasons (luni-solar). These models are reviewed. In Chapter 3, ANE and Mediterranean calendars show improved international astronomy - historically, the province of priestly astronomers. Yet, in Chapter 4, the third problem is that Mishnaic and Talmudic evidence speaks of strict observance of New Moons and <I>ad hoc</I> intercalation. If mathematical schemes for the lunar month were in operation in the Hebrews' <I>milieu</I> by 380 BCE, why were they so far behind in rabbinical times? The solution is: they deliberately chose to rely on observation. This cannot exclude an earlier, more mathematical tradition (Segal, 1957). The fourth problem, in Chapter 5, is the 364-day solar calendar, associated with Jaubert (1953, 1957), supported by VanderKam (1979), and Davies (1983). By acknowledging the comparative calendrical realism in the <I>Mishmarot</I>, luni-solar and solar evidence is examined in the Primeval History where Creation and Flood evince synchronistic ideas. The fifth problem, in Chapter 6, is the 'Key of Enoch', the idea that Enoch's full age in Gen 5:23 represents 365<I> days</I>. It is shown that <I>Gen 11:10-26 contains a synchronistic calendar of 6 years and 84 years, </I>similar to that hypothesised by Glessmer (1996) for the <I>'Otot</I>. This covert scheme is called Genesis 11 Synchronistic Calendar. The sixth problem, in Chapter 7, is the pre-history of <I>Qumran's</I> synchronistic calendars, which the Genesis calendar illuminates. A failure to recognised the <I>covert calendrical genre</I> was caused by unfamiliarity with ancient calendrics, and a traditional reading of P's genealogies.
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Briggs, Barbara. "Kinetics in aqueous and microhetero-geneous systems." Thesis, University of Leicester, 1985. http://hdl.handle.net/2381/34028.

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Rate constants for chemical reactions in various aqueous and micro- heterogeneous systems have been measured and analysed. A large part of the thesis is concerned with interpreting kinetic trends in two water-in-oil microemulsions. Kinetic data for inorganic reactions involving low-spin iron (II) di-imine oorplexes and for reactions involving the organic substrates, 2,4-dinitrochlorobenzene, crystal violet and malachite green in microemulsions have been collected and used to identify different structural zones in these solvent systems. The kinetic data are interpreted in terms of a model in which reaction occurs at an interfuse. Reactions involving cis-bis(pyridine)tetracarbonylmolybdenum (0) in oil- in-water, water-in-oil microemulsions and organic solvent mixtures have been studied. Aquation reactions of iron (II) hexadentate Schiff base have been used to identify microheterogeneous phases in water-rich '2-butoxyethanol + water' mixtures. Solvent effects on initial and transition states are discussed for reactions of iron (II) glyoxal bis-N methylamine with hydroxide ions in 'methanol + water' mixtures and reactions of iron(II) 1,10-phenan- throline with hydroxide ions in 'isopropanol + water' mixtures. Transfer chemical potentials for single ions, in 'acetone + water' mixtures, have been estimated, using solubility data for salts in conjunction with the assumption that transfer chemical potentials for tetraphenylboronate and tetraphenylarsonium ions are equal. Effects of added salt on the neutral hydrolysis of phenyldichloro- acetate in aqueous solutions are examined in terms of solvent cosphere interactions between ions. The temperature dependence of rate constants for reactions of iron (II) 4-methyl, 1,10-phenanthroline have been examined. The results are discussed in terms of isobaric, isothermal and isochoric activation parameters. The meaning of the term 'isochoric' is clarified in this context.
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Jansson, Martin. "Multimodala containertransporter - ett transportsätt sui generis? : ett transportsätt sui generis?" Thesis, Linköping University, Department of Management and Economics, 2006. http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-6292.

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<p>Den första juli 2007 kommer en ny transporträttskonvention att träda i kraft. Konventionen förbereds av FN-organet UNCITRAL och avser behandla internationella transporter, där hela eller största delen av transporten sker till sjöss. De multimodala transporterna – alltså de där mer än ett transportsätt används i en transportkedja – ökar stadigt i omfattning och behovet av en harmonisering av internationella transporter är stort. Eftersom UNCITRAL:s konvention ämnar omfatta även till internationella sjötransporter anslutande landtransporter är ett av uppsatsens syften att undersöka hur omfattande denna multimodalitet är. En annat syfte med uppsatsen är att utreda huruvida multimodala transporter kan anses utgöra ett transportsätt sui generis. I uppsatsen kommer en fiktiv transport från New York till Oslo, via Rotterdam och Göteborg, att företas och analyseras. Inom ramen för exempeltransporten presenteras de regler som är aktuella om transporten företas idag och de regler som blir aktuella på transporten när UNCITRAL:s konvention trätt ikraft.</p>
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Külling, Samuel R. "Zur Datierung der "Genesis-P-Stücke" namentlich des Kapitels Genesis XVII /." Riehen : Schweiz : Immanuel-Verl, 1985. http://catalogue.bnf.fr/ark:/12148/cb349274329.

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Books on the topic "GENEXUS"

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Parker, Gary. Building blocks in life science: From genes & genesis to science & scripture. Master Books, 2011.

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Abakumov, E. V. Pochvy Samarskoĭ luki: Raznoobrazie, genezis, okhrana = Soils of Samarskaya Luka : Diversity, genesis and protection. Izdatelʹstvo Sankt-Peterburgskgo universiteta, 2008.

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Wenham, Gordon J. Genesis. Word Books, 1987.

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Ponessa, Joseph. Genesis. Emmaus Road Pub., 2009.

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Brueggemann, Walter. Genesis. Westminister John Knox Press, 2010.

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McKeown, James. Genesis. William B. Eerdmans Pub. Co., 2008.

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Ward, J. P. Genesis. Seren, 1996.

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Royer, Darline Kantola. Genesis. United Pentecostal Church International, 2012.

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Ponessa, Joseph. Genesis. Emmaus Road Pub., 2009.

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Wenham, Gordon J. Genesis. Word Books, 1987.

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Book chapters on the topic "GENEXUS"

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Kiel, Yishai. "The contours of Abrahamic identity: a Zoroastrian perspective." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-1.

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Wood, Philip. "Teaching early Islam: the gap between school and the internet in British schooling." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-10.

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Tolan, John. "Introduction." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-101.

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Mourad, Suleiman A. "The Shahada and the creation of an Islamic identity." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-11.

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Shanzer, Danuta. "The twilight of the ancient gods 1." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-2.

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MacRae, Duncan E. "Simon the god: imagining the other in second-century Christianity." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-3.

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Rapp, Claudia. "Contested ground in Gaza: the narrative of triumphalist Christianity." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-4.

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Nsiri, Mohamed-Arbi. "Between Jerome and Augustine of Hippo: some intellectual preoccupations of Late Antiquity." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-5.

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Herman, Marc. "What is “Islamic” about geonic depictions of the Oral Torah? 1." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-6.

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Benkheira, Mohammed Hocine. "Reevaluating the role of the Epigons (tabiʿun) in the formation of Islamic ritual and jurisprudence." In Geneses. Routledge, 2019. http://dx.doi.org/10.4324/9781351113311-7.

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Conference papers on the topic "GENEXUS"

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Yamnova, Irina, and Galina Chernousenko. "MICROMORPHOLOGICAL FEATURES OF SALT-AFFECTED SOILS FROM THE BAIKAL REGION OF RUSSIA." In 24th SGEM International Multidisciplinary Scientific GeoConference 2024. STEF92 Technology, 2024. https://doi.org/10.5593/sgem2024/3.1/s13.31.

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Micromorphological features of salt-affected soils in the Cis-Baikal and Trans-Baikal regions (south of East Siberia, Russia) are considered. When studying morphogenesis of these soils, pedofeatures of soluble salts and gypsum serve as indicators of modern and former stages of soil formation. Comparative-geographical, micromorphological, and chemical methods have been applied to study soil salinization. Chemical analyses attest to the presence of gypsum and soluble salts in solonchaks of both regions. However, they do not allow us to judge the direction of modern soil salinization processes. Micromorphological method makes it possible to specify the genesis of salt pedofeatures. When comparing microfabrics of solonchaks in the Cis-Baikal and Trans-Baikal regions, the features attesting to their different geneses have been identified. Thus, in the solonchak from the Priolkhonye area (Cis-Baikal region), gypsum pedofeatures were formed during previous stages of soil formation and are now subjected to destruction. At the same time, the accumulation of soluble salts is still active in this soil. Analysis of the microstructure of the soil profile of the meadow-marsh saline soil of Transbaikalia showed the presence of both processes currently underway - both gypsum formation and salt accumulation in the soil profile.
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Tian, F., H. H. Shi, and M. T. Yan. "The incremental application development of GeneXus." In International Conference on Computer Science and Technology. WIT Press, 2014. http://dx.doi.org/10.2495/iccst140151.

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Mattos, Mauro Marcelo, Simone Erbs da Costa, Luciana Pereira de Araujo, Shaiane Mafra Casa, and Eric Boeing. "Mobile Application to Support Community Health Workers Using GeneXus Smart Devices." In 2015 9th International Conference on Innovative Mobile and Internet Services in Ubiquitous Computing (IMIS). IEEE, 2015. http://dx.doi.org/10.1109/imis.2015.14.

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Gu, Jian, Ru Cao, Jeff Schageman, et al. "Abstract 213: Demonstration of the genexus integrated sequencing system with the oncomine precision assay." In Proceedings: AACR Annual Meeting 2020; April 27-28, 2020 and June 22-24, 2020; Philadelphia, PA. American Association for Cancer Research, 2020. http://dx.doi.org/10.1158/1538-7445.am2020-213.

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Casuga, Iris, Jason Gioia, Janice Au-Young, Frances Chan, Milton Huynh, and Michael Crowe. "Abstract 2282: Rapid and accurate variant calling of FFPE samples with the genexus system." In Proceedings: AACR Annual Meeting 2021; April 10-15, 2021 and May 17-21, 2021; Philadelphia, PA. American Association for Cancer Research, 2021. http://dx.doi.org/10.1158/1538-7445.am2021-2282.

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Gioia, Jason, Iris R. Casuga, Frances Chan, et al. "Abstract 1330: Scalable single-day workflows for variant calling with the Genexus Integrated Sequencer." In Proceedings: AACR Annual Meeting 2020; April 27-28, 2020 and June 22-24, 2020; Philadelphia, PA. American Association for Cancer Research, 2020. http://dx.doi.org/10.1158/1538-7445.am2020-1330.

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Slowey, Edward P. "The Zn-Pb and barite deposits at Keel, County Longford." In Geology and Genesis of Mineral Deposits in Ireland. Irish Association for Economic Geology, 1986. http://dx.doi.org/10.61153/adik7499.

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Russell, Michael J. "Extension and convection: a genetic model for the Irish Carboniferous base-metal and barite deposits." In Geology and Genesis of Mineral Deposits in Ireland. Irish Association for Economic Geology, 1986. http://dx.doi.org/10.61153/npgf1132.

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Morris, John H., Geoffrey M. Steed, and David G. Wilbur. "The Lisglassan-Tullybuck deposit, County Monaghan: Sb-As-Au vein mineralization in Lower Palaeozoic greywackes." In Geology and Genesis of Mineral Deposits in Ireland. Irish Association for Economic Geology, 1986. http://dx.doi.org/10.61153/uqzv2170.

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Plant, Jane A. "Models for granites and their mineralizing systems in the British and Irish Caledonides." In Geology and Genesis of Mineral Deposits in Ireland. Irish Association for Economic Geology, 1986. http://dx.doi.org/10.61153/xyqn2761.

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Reports on the topic "GENEXUS"

1

Céspedes Ynsfran, Marcelo David. Hospital digital: implementación piloto de interoperabilidad de sistemas en el Instituto Nacional del Cáncer (INCAN). Inter-American Development Bank, 2024. http://dx.doi.org/10.18235/0012937.

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En el año 2020, durante la pandemia de COVID-19, el proyecto "Hospital Digital" de Genexus Consulting fue seleccionado entre 500 propuestas en la convocatoria del Banco Interamericano de Desarrollo (BID) para promover soluciones innovadoras y tecnológicas en el campo de la salud en Paraguay. Este proyecto buscaba implementar una plataforma de intercambio de información de salud en el Instituto Nacional del Cáncer (INCAN) para mejorar la atención a los pacientes a través de la interoperabilidad entre sistemas de información. En julio de 2023, comenzó la implementación piloto en el INCAN, marcando el inicio de una transformación digital en la atención a pacientes con cáncer. A pesar de los desafíos, la plataforma ha permitido el intercambio seguro de datos médicos, mejorando la coordinación y continuidad de la atención. En abril de 2023, el proyecto fue entregado exitosamente, cumpliendo con los plazos establecidos. Se espera que la plataforma se replique en otras instituciones de salud en Paraguay y la región, alineándose con los objetivos del BID de mejorar el acceso a servicios de salud y reducir las desigualdades.
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Eichengreen, Barry. Sui Generis EMU. National Bureau of Economic Research, 2008. http://dx.doi.org/10.3386/w13740.

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Marshak, David. Genesys Meeting Center 3.0. Patricia Seybold Group, 2005. http://dx.doi.org/10.1571/pr4-4-05cc.

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Peng, Melinda S., James Hansen, and Tim Li. Predicting Tropical Cyclone Genesis. Defense Technical Information Center, 2009. http://dx.doi.org/10.21236/ada531304.

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Peng, Melinda S., James Hansen, and Tim Li. Predicting Tropical Cyclone Genesis. Defense Technical Information Center, 2010. http://dx.doi.org/10.21236/ada541869.

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Nguyen Brooks, Mai H. Endothelial Genes. Defense Technical Information Center, 2005. http://dx.doi.org/10.21236/ada439227.

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Taylor, L. M., D. P. Flanagan, and W. C. Mills-Curran. GENESIS finite element mesh file format. Office of Scientific and Technical Information (OSTI), 1986. http://dx.doi.org/10.2172/5609863.

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Brankovic, Mico. Kosovo's Crisis: Genesis of a Problem. Defense Technical Information Center, 2013. http://dx.doi.org/10.21236/ada589042.

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Sjaardema, G. GREPOS: A GENESIS database repositioning program. Office of Scientific and Technical Information (OSTI), 1990. http://dx.doi.org/10.2172/6991904.

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Emmerson, Carl, Richard Disney, and Gemma Tetlow. How generous are public sector pensions? The IFS, 2007. http://dx.doi.org/10.1920/co.ifs.2024.1010.

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