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Journal articles on the topic 'Analisi dati omici'

Author: Grafiati

Published: 9 March 2023

Last updated: 31 July 2025

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1

Lobato-Delgado, Barbara, Torres Blanca María Priego, and Morillo Daniel Sanchez. "Combining Molecular, Imaging, and Clinical Data Analysis for Predicting Cancer Prognosis." Cancers 14, no. 13 (2022): 3215. https://doi.org/10.3390/cancers14133215.

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ISIMOV, A. M., G. B. ADMANOVA, A. T. SARZHIGITOVA, N. K. KEMALOVA та B. BAKYTZHANKYZY. "PYTHON КАК ИНСТРУМЕНТ ДЛЯ РЕКОНСТРУКЦИИ И АНАЛИЗА МЕТАБОЛИЧЕСКОЙ МОДЕЛИ В МАСШТАБЕ ГЕНОМА". МИКРОБИОЛОГИЯ ЖӘНЕ ВИРУСОЛОГИЯ, № 4(43) (19 грудня 2023): 32–62. http://dx.doi.org/10.53729/mv-as.2023.04.03.

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The cost reduction of high-throughput technologies has led to the development of data analysis methods that deal with the increasing availability of omics datasets. Constraint-based genome-scale metabolic modeling is an example of such a method. It uses omics data and biochemical networks, a mechanistic framework to combine omics data, to describe steady-state metabolic flux distributions. Therefore, a system of mass balance equations is created that can be solved via linear programming. To date, most software for constraint-based genome-scale modeling has relied on MATLAB, a popular proprieta

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Mrs., Shreevarshini M. R., M. Usha Rani Mrs., and Shreemanth Mr. "One Stop Shop Effective Service Based on Cloud Computing." Journal of Scholastic Engineering Science and Management (JSESM), A Peer Reviewed Refereed Multidisciplinary Research Journal 2, no. 8 (2023): 69–79. https://doi.org/10.5281/zenodo.13986445.

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HiOmics is a cloud-based platform designed to simplify the analysis and visualization of large-scale omics data generated by high-throughput sequencing technology. It offers a user-friendly interface built with Element Plus and utilizes Docker containers to ensure reliable and reproducible results. HiOmics employs Workflow Description Language (WDL) and the Cromwell engine to create flexible and portable data analysis workflows. To address data format compatibility, HiOmics includes DataCheck, a Golang-based tool for verification and conversion. Leveraging the object storage and batch computin

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João, C. Sequeira, Rocha Miguel, Madalena Alves M., and F. Salvador Andreia. "UPIMAPI, reCOGnizer and KEGGCharter: Bioinformatics tools for functional annotation and visualization of (meta)-omics datasets." Computational and Structural Biotechnology Journal 20 (April 11, 2022): 1798–810. https://doi.org/10.1016/j.csbj.2022.03.042.

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Omics and meta-omics technologies are powerful approaches to explore microorganisms’ functions, but the sheer size and complexity of omics datasets often turn the analysis into a challenging task. Software developed for omics and <em>meta</em>-omics analyses, together with knowledgebases encompassing information on genes, proteins, taxonomic and functional annotation, among other types of information, are valuable resources for analyzing omics data. Although several bioinformatics resources are available for <em>meta</em>-omics analyses, many require significant compu

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5

Hendri Putrananda and Melladia. "UJI AKURASI FOTO UDARA WAHANA UNMANNED AERIAL VEHICLE (UAV) DI PULAU ANGSO DUO SUMATERA BARAT." Journal of Scientech Research and Development 2, no. 2 (2020): 025–33. http://dx.doi.org/10.56670/jsrd.v2i2.12.

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Foto udara Pulau Angso Duo dapat berperan sebagai bahan dasar untuk memperoleh berbagai informasi spasial yang bisa bermanfaat bagi pengelola pulau dan pemerintah setempat baik dalam upaya perencanaan konservasi maupun pembangunan. Informasi-informasi spasial yang dapat diperoleh misalnya lebar dan panjang garis pantai, luas daratan, tutupan vegetasi, penggunaan lahan, sebaran objek bangunan, dan lain sebagainya. Meskipun demikian namun informasi-informasi spasial tersebut belum bisa diperoleh sebelum dilakukan uji akurasi objek yang bertujuan untuk mengetahui tingkat ketelitian foto udara. Be

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Hidayati, Nur. "Implementasi Pembelajaran PAI Bagi Tunalaras di Lembaga Pembinaan Khusus Anak Kelas I Tangerang." TARBAWI : Jurnal Pendidikan Agama Islam 6, no. 02 (2021): 111–22. http://dx.doi.org/10.26618/jtw.v6i02.4395.

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Penelitian ini bertujuan untuk mengetahui implementasi pembelajaran PAI bagi tunalaras di Lembaga Pembinaan Khusus Anak Klas I Tangerang, apa faktor pendukung dan penghambat nya, serta bagaimana upaya mengatasi faktor penghambat nya. Metode yang digunakan dalam penelitian ini adalah metode penelitian kualitatif dengan jenis penelitian deskriptif. Teknik pengumpulan data melalui observasi, wawancara, dan dokumentasi. Teknik analisis data dengan teknik triangulasi, yang meliputi reduksi data, display data, dan kesimpulan. Hasil penelitian ini yaitu: 1) Implementasi pembelajaran PAI bagi tunalara

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Rusli, Rusli, and Fithry Muthmainnah. "KAJIAN FONOLOGIS TERHADAP KEKELIRUAN PELAFALAN FONEM PADA SISWA SD TINGKAT AWAL." ELEMENTARY: Jurnal Inovasi Pendidikan Dasar 5, no. 2 (2025): 286–95. https://doi.org/10.51878/elementary.v5i2.5860.

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This study examines the mispronunciation of Indonesian phonemes by second-grade students of SD Nahdlatul Ulama Kaplongan, Indramayu, when reading phonemes, words, phrases, and sentences. This research was carried out with a qualitative descriptive approach, through a data collection process carried out through direct observation and documentation of eight students. The results of the analysis showed that there were various types of phonological errors, such as substitution, distortion, and sound omission. The results of the analysis showed that most of the pronunciation mistakes made by studen

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8

Yang, Mingxuan, Decheng Huang, Haodong Zhang, and Wenxuan Zheng. "AI-Enabled Precision Medicine: Optimizing Treatment Strategies Through Genomic Data Analysis." Journal of Computer Technology and Applied Mathematics 1, no. 3 (2024): 73–84. https://doi.org/10.5281/zenodo.13380619.

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This research investigates how Artificial Intelligence (AI) can be used in precision medicine to improve treatment strategies by analysing genomic data. We explore sophisticated machine learning methods for examining complicated genomic datasets, such as deep learning models and ensemble techniques. The study focuses on overcoming obstacles in analysing complex genomic data and introduces innovative methods for combining multi-omics data. We create predictive models using AI technology to forecast patient prognosis with better accuracy in predicting disease progression and treatment results. T

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Raees N Bibi, Gustianingsih, and Alemina Br. Perangin-angin. "Phonological Disorder in Speaking Among Stroke Patients: A Neurolinguistics Study." Modality Journal: International Journal of Linguistics and Literature 4, no. 2 (2024): 186–96. https://doi.org/10.30983/mj.v4i2.8891.

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The objective of this research is to identify the types of phonological disorders in Indonesian-speaking stroke patients and to determine the disturbed dominant hemisphere based on the structure of these phonological disorders. The data are obtained from the utterances of stroke patients who experience difficulty in producing speech. Data are collected using the listening method related to language disorders in stroke patients with basic recording techniques, followed by the technique of free listening without speech involvement. Data analysis uses the matching method, with the basic technique

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Destri Susilowati and Jatmika Nurhadi. "Realisasi Tuturan Anak Down Syndrome dalam Interaksi Pembelajaran di Sekolah Luar Biasa." Jurnal Onoma: Pendidikan, Bahasa, dan Sastra 10, no. 1 (2024): 483–93. http://dx.doi.org/10.30605/onoma.v10i1.3329.

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Penelitian ini bertujuan untuk mendeskripsikan wujud tindak tutur ilokusi dan kendala tutur anak down syndrome dalam interaksi pembelajaran di SPLB C YPLB Kota Bandung. Penelitian ini merupakan penelitian dengan pendekatan kualitatif. Subjek penelitian merupakan siswa down syndrome tingkat Sekolah Dasar di SPLB C YPLB Kota Bandung. Teknik pengumpulan data melalui teknik simak bebas libat cakap (SBLC). Analisis data menggunakan reduksi data, penyajian data, dan penarikan simpulan. Hasil penelitian realisasi tuturan anak down syndrome dalam interaksi pembelajaran di SPLB C YPLB Kota Bandung dite

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Brockmöller, Thomas, Zhihao Ling, Dapeng Li, Emmanuel Gaquerel, Ian T. Baldwin, and Shuqing Xu. "Nicotiana attenuata Data Hub (NaDH): an integrative platform for exploring genomic, transcriptomic and metabolomic data in wild tobacco." BMC Genomics 18, no. 1 (2017): 79. https://doi.org/10.1186/s12864-016-3465-9.

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<strong>Background: </strong> <i>Nicotiana attenuata</i> (coyote tobacco) is an ecological model for studying plant-environment interactions and plant gene function under real-world conditions. During the last decade, large amounts of genomic, transcriptomic and metabolomic data have been generated with this plant which has provided new insights into how native plants interact with herbivores, pollinators and microbes. However, an integrative and open access platform that allows for the efficient mining of these -omics data remained unavailable until now.<strong>Description: </strong>We presen

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12

Keerthana, N., and K. Koteeswaran. "Target identification and validation in research." World Journal of Biology Pharmacy and Health Sciences 17, no. 3 (2024): 107–17. https://doi.org/10.5281/zenodo.11351494.

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Target identification is a critical step in biomedical research because it lays the groundwork for the development of new therapies and drugs. Genetic research, including genome-wide association studies (GWAS), genomic sequencing, functional genomics, and data integration, is crucial for understanding disease genetics and potential treatment targets. Transcriptomics and proteomics give data on gene and protein expression, making it easier to identify targets in dysregulated diseases. Target identification is essential for drug discovery, precision medicine, lowering medication attrition, incre

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13

Setiawan, Adhe Raka, and Bandi Bandi. "REAKSI PASAR TERHADAP PERUBAHAN DIVIDEN DENGAN INDIKATOR ABNORMAL RETURN DAN TRADING VOLUME ACTIVITY." Jurnal Economia 11, no. 2 (2015): 200. http://dx.doi.org/10.21831/economia.v11i2.8291.

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Abstrak: Reaksi Pasar Terhadap Perubahan Dividen dengan Indikator Abnormal Return dan Trading Volume Activity. Penelitian ini bertujuan untuk mengetahui reaksi pasar terhadap perubahan dividen, yaitu dividen tetap, dividen naik, dividen turun, dividen inisiasi, dan dividen omisi dengan indikator abnormal return dan trading volume activity pada perusahaan yang terdaftar di Bursa Efek Indonesia pada sektor properti, real estate, dan konstruksi bangunan periode 1998-2015. Penelitian ini menggunakan desain event study, di mana dilakukan pengamatan 5 hari sebelum dan 5 hari sesudah peristiwa. Anali

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14

Cumbo, Fabio, Eleonora Cappelli, and Emanuel Weitschek. "A Brain-Inspired Hyperdimensional Computing Approach for Classifying Massive DNA Methylation Data of Cancer." Algorithms 13, no. 9 (2020): 233. http://dx.doi.org/10.3390/a13090233.

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The recent advancements in cancer genomics have put under the spotlight DNA methylation, a genetic modification that regulates the functioning of the genome and whose modifications have an important role in tumorigenesis and tumor-suppression. Because of the high dimensionality and the enormous amount of genomic data that are produced through the last advancements in Next Generation Sequencing, it is very challenging to effectively make use of DNA methylation data in diagnostics applications, e.g., in the identification of healthy vs diseased samples. Additionally, state-of-the-art techniques

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15

Artanti, Yeni. "KONSEP DIRI PEREMPUAN DI PERSIMPANGAN BUDAYA DALAM AUTOBIOGRAFI STUPEUR ET TREMBLEMENTS KARYA AMÉLIE NOTHOMB." LITERA 19, no. 1 (2020): 72–93. http://dx.doi.org/10.21831/ltr.v19i1.30465.

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Identitas atau konsep diri merupakan representasi seseorang. Konsep diri pengarang dapat direkonstruksi pembaca melalui karya-karyanya, salah satunya autobiografi. Penelitian ini bertujuan mendeskripsikan konsep diri perempuan di persimpangan budaya, mencakup gambaran diri, harga diri, dan harapan diri. Sumber data penelitian ini adalah roman autobiografi Stupeur et Tremblements karya Amélie Nothomb. Penelitian ini merupakan penelitian kualitatif deskriptif dengan teknik analisis interpretatif. Pengumpulan data dilakukan dengan teknik membaca, mencatat, mengklasifikasikan, dan mengkoding. Hasi

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16

Miskovic, Ljubisa, Susanne Alff-Tuomala, Keng Cher Soh, et al. "A design–build–test cycle using modeling and experiments reveals interdependencies between upper glycolysis and xylose uptake in recombinant S. cerevisiae and improves predictive capabilities of large-scale kinetic models." Biotechnology for Biofuels 10, no. 1 (2017): 166. https://doi.org/10.1186/s13068-017-0838-5.

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<strong>Background: </strong>Recent advancements in omics measurement technologies have led to an ever-increasing amount of available experimental data that necessitate systems-oriented methodologies for efficient and systematic integration of data into consistent large-scale kinetic models. These models can help us to uncover new insights into cellular physiology and also to assist in the rational design of bioreactor or fermentation processes. Optimization and Risk Analysis of Complex Living Entities (ORACLE) framework for the construction of large-scale kinetic models can be used as guidanc

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17

Karim Fatkhullah, Faiz. "PENGALAMAN SPIRITUAL K.H. BISRI MUSTOFA DALAM NASKAH MANASIK HAJI: TINJAUAN SOSIOLOGI SASTRA (The Spiritual Experience of KH Bisri Mustofa in Manasik Haji Manuscript : A Literary Socio- logical Review)." METASASTRA: Jurnal Penelitian Sastra 6, no. 2 (2016): 65. http://dx.doi.org/10.26610/metasastra.2013.v6i2.65-82.

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Di dalam naskah lama tersimpan ide, pemikiran, dan pengalaman penulisnya yang hidup di tengah-tengah masyarakat. Naskah Tuntunan Ringkas Manasik Haji (TRMH) karya K.H. Bisri Mustofa (KHBM) mengungkap kondisi sosial masyarakat berkaitan dengan pengalaman spiritual haji penulisnya ke Tanah Suci pada masa transportasi kapal laut sebagai kendaraan pilihannya. Penelitian ini bertujuan mengungkap pengalaman spiritual KHBM dalam naskah TRMH. Penelitian ini menggunakan metode penelitian filologi dan sosiologi sastra. Dari hasil penelitian filologi (kritik teks), dihasilkan kesalahan tulis substitusi s

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18

Albar, Maulidy, and Ririn Tri Ratnasari. "Analysis of the Effect of Consumption Expenditure, Foreign Direct Investment, and Manufacturing Industry moderated by Labor force on Growth of Economy of OIC Countries during the Covid-19 Pandemic." Jurnal Ekonomi Syariah Teori dan Terapan 9, no. 6 (2022): 787–99. http://dx.doi.org/10.20473/vol9iss20226pp787-799.

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ABSTRAK Pandemi COVID-19 menyebabkan pertumbuhan ekonomi global melambat. Pertumbuhan ekonomi yang dikuru melalui GDP suatu negara dipengaruhi oleh beberapa hal. OIC merupakan organisasi negara-negara muslim didunia dimana GDP mereka juga juga terdampak secara signifikan akibat pandemi COVID-19. Penelitian ini bertujuan untuk mengobservasi pertumbuhan ekonomi negara anggota OKI yang dipengaruhi oleh variabel Industri manufaktur, Penanaman Modal Asing, dan Total konsumsi yang di moderasi oleh tenaga kerja. Penelitian ini menggunakan jenis data panel. Data diambil dengan menggunakan metode purpo

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Sompairac, Nicolas, Petr V. Nazarov, Urszula Czerwinska, et al. "Independent Component Analysis for Unraveling the Complexity of Cancer Omics Datasets." International Journal of Molecular Sciences 20, no. 4414 (2019). https://doi.org/10.3390/ijms20184414.

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Independent component analysis (ICA) is a matrix factorization approach where the signals captured by each individual matrix factors are optimized to become as mutually independent as possible. Initially suggested for solving source blind separation problems in various fields, ICA was shown to be successful in analyzing functional magnetic resonance imaging (fMRI) and other types of biomedical data. In the last twenty years, ICA became a part of the standard machine learning toolbox, together with other matrix factorization methods such as principal component analysis

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Captier, Nicolas, Jane Merlevede, Askhat Molkenov, et al. "BIODICA: a computational environment for Independent Component Analysis of omics data." April 4, 2022. https://doi.org/10.1093/bioinformatics/btac204.

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This article presents BIODICA, an integrated computational environment for application of Independent Component Analysis (ICA) to bulk and single-cell molecular profiles, interpretation of the results in terms of biological functions and correlation with metadata. The computational core is the novel Python package stabilized-ica which provides interface to several ICA algorithms, a stabilization procedure, meta-analysis and component interpretation tools. BIODICA is equipped with a user-friendly graphical user interface, allowing non-experienced users to perform the ICA-based omics data analys

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PARIKESIT, Arli Aditya, Dito ANUROGO, and Riza A. PUTRANTO. "Pemanfaatan bioinformatika dalam bidang pertanian dan kesehatan (The utilization of bioinformatics in the field of agriculture and health)." E-Journal Menara Perkebunan 85, no. 2 (2017). http://dx.doi.org/10.22302/iribb.jur.mp.v85i2.237.

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Bioinformatics can be used to manage the data storage resulted from in silico molecular biology experiments. Off-network (offline) applications require large computing resources, in which researchers in the bioinformatics field of agriculture and health sectors do not necessarily possess. This review paper addressed examples of affordable and applicable in silico analytical cases in both mentioned sectors. Genome sequence analysis and in silico drug design using (1) a computational method, pharmacokinetic parameter prediction, (2) Computer Aided Design and Drafting (CADD) technology, (3) poten

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Andrew, Walakira, Rozman Damjana, Rezˇen Tadeja, Mraz Miha, and Moškon Miha. "Guided extraction of genome-scale metabolic models for the integration and analysis of omics data." June 8, 2021. https://doi.org/10.1016/j.csbj.2021.06.009.

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Omics data can be integrated into a reference model using various model extraction methods (MEMs) to yield context-specific genome-scale metabolic models (GEMs). How to chose the appropriate MEM, thresholding rule and threshold remains a challenge. We integrated mouse transcriptomic data from a Cyp51 knockout mice diet experiment (GSE58271) using five MEMs (GIMME, iMAT, FASTCORE, INIT an tINIT) in a combination with a recently published mouse GEM iMM1865. Except for INIT and tINIT, the size of extracted models varied with the MEM used (t-test: p-value <0.001). The Jaccard index of iMAT mode

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23

Nafsika, Papaioannou, Distel Emilie, de Oliveira Eliandre, et al. "Multi-omics analysis reveals that co-exposure to phthalates and metals disturbs urea cycle and choline metabolism." September 17, 2020. https://doi.org/10.1016/j.envres.2020.110041.

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This study aimed to evaluate the response of HepaRG cells after co-exposure to phthalates and heavy metals, using a high-dimensional biology paradigm (HDB). Liver is the main metabolism site for the majority of xenobiotics. For this reason, the HepaRG cell line was used as an <em>in vitro </em>model, and cells were exposed to two characteristic mixtures of phthalates and heavy metals containing phthalates (DEHP, DiNP, BBzP) and metals (lead, methylmercury, total mercury) in a concentration-dependent manner. The applied chemical mixtures were selected as the most abundant pollutants in the REPR

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Gyulai, Gabor. "Genetics of currant clearwing moth (Lepidoptera: Sesiidae)." November 22, 2022. https://doi.org/10.19040/ecocycles.v8i2.247.

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A group of clearwing moths <em>Sesiidae </em>(<em>Syn.</em>: <em>Aegeriidae</em>) is analyzed here with special emphasis on genetics of <em>currant clearwing moth</em> (<em>Synanthedon tipuliformis</em>, CLERCK 1759). DNA sequences of the longest (1544 nt) available sequence of <em>Sesiidae</em> genes <em>Co</em>1 (cytochrome oxidase subunit-1 of mitochondrial DNA, mtDNA) (mtDNA; <em>NCBI# AJ864359.1</em>) were analyzed after <em>In silico</em> data mining, and dendrogram was edited to reveal molecular diversity and genetic distances among <em>Sesiidae</em> species. Batesian mimicry, sexual di

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Song, Dongyuan, Kexin Li, Siqi Chen, Christy Lee, Xinzhou Ge, and Jingyi Jessica Li. "Synthetic control removes spurious discoveries from double dipping in single-cell and spatial transcriptomics data analyses." June 7, 2025. https://doi.org/10.1101/2023.07.21.550107.

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In typical single-cell RNA-seq (scRNA-seq) data analysis, a clustering algorithm is applied to find putative cell types as clusters, and then a statistical differential expression (DE) test is used to identify the differentially expressed (DE) genes between the cell clusters. However, this common procedure uses the same data twice,  an issue known as ``double dipping'': the same data is used to define both cell clusters and DE genes, leading to false-positive DE genes even when the cell clusters are spurious. To overcome this challenge, we propose ClusterDE, a post-clustering

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Anastasis, Oulas, Minadakis George, Zachariou Margarita, Sokratous Kleitos, M. Bourdakou Marilena, and M. Spyrou George. "Systems Bioinformatics: increasing precision of computational diagnostics and therapeutics through network-based approaches." November 27, 2017. https://doi.org/10.1093/bib/bbx151.

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Systems Bioinformatics is a relatively new approach, which lies in the intersection of systems biology and classical bioinformatics. It focuses on integrating information across different levels using a bottom-up approach as in systems biology with a data-driven top-down approach as in bioinformatics. The advent of omics technologies has provided the stepping-stone for the emergence of Systems Bioinformatics. These technologies provide a spectrum of information ranging from genomics, transcriptomics and proteomics to epigenomics, pharmacogenomics, metagenomics and metabolomics. Systems Bioinfo

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Venkatanaidu, Karri (PhD), Schuhmacher Professor Marta, and Kumar (PhD) Vikas. "A systems toxicology approach to compare the heavy metal mixtures (Pb, As, MeHg) impact in neurodegenerative diseases." March 14, 2020. https://doi.org/10.1016/j.fct.2020.111257.

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Conventional toxicological risk assessment methods mainly working on single chemicals that fail to adequately address the simultaneous exposure and their potential toxicity in humans. We herein investigated the toxic heavy metals lead (Pb), arsenic (As), and methylmercury (MeHg) and their binary mixtures role in neurodegenerative diseases. To characterize the toxicity of metal mixtures at the molecular level, we established a nonanimal omics-based organ relevant cell model system. The obtained experimental data was refined by using the statistical and downstream functional analysis. The protei

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Bock, Christoph, Michael Boutros, J. Gray Camp, et al. "The Organoid Cell Atlas: A Rosetta Stone for Biomedical Discovery and Regenerative Therapy." August 30, 2020. https://doi.org/10.5281/zenodo.4001718.

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Human organoids – three-dimensional structures of cells that recapitulate important aspects of organ development in vitro – hold tremendous potential for biomedical applications. To help deliver on the promises of combining human organoids with single-cell technology, we have launched an Organoid Cell Atlas pilot project, as a ‘Biological Network’ within the Human Cell Atlas (HCA), focusing on single-cell profiling of organoids and in vitro cell models (https://www.humancellatlas.org/coordinators/). The Organoid Cell Atlas will foster the production, quality control, di

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