Search Results - computing algorithms and (bioinformatics OR informatika)

New classifications for quantum bioinformatics: Q-bioinformatics, QCt-bioinformatics, QCg-bioinformatics, and QCr-bioinformatics by Mokhtari, Majid, Khoshbakht, Samane, Ziyaei, Kobra, Akbari, Mohammad Esmaeil, Moravveji, Sayyed Sajjad

“…Abstract Bioinformatics has revolutionized biology and medicine by using computational methods to analyze and interpret biological data…”
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Unipro UGENE: a unified bioinformatics toolkit by Okonechnikov, Konstantin, Golosova, Olga, Fursov, Mikhail

“…Unipro UGENE is a multiplatform open-source software with the main goal of assisting molecular biologists without much expertise in bioinformatics to manage, analyze and visualize their data…”
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Molecular Computing and Bioinformatics by Liang, Xin, Zhu, Wen, Lv, Zhibin, Zou, Quan

“…Molecular computing and bioinformatics are two important interdisciplinary sciences that study molecules and computers…”
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Quantum computing in bioinformatics: a systematic review mapping by Nałęcz-Charkiewicz, Katarzyna, Charkiewicz, Kamil, Nowak, Robert M

“… Bioinformatics is one such domain that is developing in terms of QC. This article offers a broad mapping review of methods and algorithms of QC in bioinformatics, marking the first of its kind…”
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Statistical advances in the biomedical sciences: clinical trials, epidemiology, survival analysis, and bioinformatics by Biswas, Atanu, Datta, Sujay, Fine, Jason P, Segal, Mark R

“… in computing, it has become essential for practitioners in the biomedical sciences to be fully educated on the role statistics plays in ensuring the accurate analysis of research findings…”
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Feature selection methods for big data bioinformatics: A survey from the search perspective by Wang, Lipo, Wang, Yaoli, Chang, Qing

“…This paper surveys main principles of feature selection and their recent applications in big data bioinformatic…”
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ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community by Castrignanò, Tiziana, Gioiosa, Silvia, Flati, Tiziano, Cestari, Mirko, Picardi, Ernesto, Chiara, Matteo, Fratelli, Maddalena, Amente, Stefano, Cirilli, Marco, Tangaro, Marco Antonio, Chillemi, Giovanni, Pesole, Graziano, Zambelli, Federico

“… Modern biological experiments are increasingly becoming both data and computationally intensive and the wealth of publicly available biological data is introducing bioinformatics into the “Big Data” era…”
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SciPy 1.0: fundamental algorithms for scientific computing in Python by Virtanen, Pauli, Gommers, Ralf, Oliphant, Travis E., Haberland, Matt, Reddy, Tyler, Cournapeau, David, Burovski, Evgeni, Peterson, Pearu, Weckesser, Warren, Bright, Jonathan, van der Walt, Stéfan J., Brett, Matthew, Wilson, Joshua, Millman, K. Jarrod, Mayorov, Nikolay, Nelson, Andrew R. J., Jones, Eric, Kern, Robert, Larson, Eric, Carey, C J, Polat, İlhan, Feng, Yu, Moore, Eric W., VanderPlas, Jake, Laxalde, Denis, Perktold, Josef, Cimrman, Robert, Henriksen, Ian, Quintero, E. A., Harris, Charles R., Archibald, Anne M., Ribeiro, Antônio H., Pedregosa, Fabian, van Mulbregt, Paul

“…SciPy is an open-source scientific computing library for the Python programming language…”
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Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community by Krampis, Konstantinos, Booth, Tim, Chapman, Brad, Tiwari, Bela, Bicak, Mesude, Field, Dawn, Nelson, Karen E

“…Background A steep drop in the cost of next-generation sequencing during recent years has made the technology affordable to the majority of researchers, but downstream bioinformatic analysis still…”
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Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics by Baichoo, Shakuntala, Souilmi, Yassine, Panji, Sumir, Botha, Gerrit, Meintjes, Ayton, Hazelhurst, Scott, Bendou, Hocine, Beste, Eugene de, Mpangase, Phelelani T., Souiai, Oussema, Alghali, Mustafa, Yi, Long, O’Connor, Brian D., Crusoe, Michael, Armstrong, Don, Aron, Shaun, Joubert, Fourie, Ahmed, Azza E., Mbiyavanga, Mamana, Heusden, Peter van, Magosi, Lerato E., Zermeno, Jennie, Mainzer, Liudmila Sergeevna, Fadlelmola, Faisal M., Jongeneel, C. Victor, Mulder, Nicola

“… A key role of H3ABioNet is to support H3Africa projects by building bioinformatics infrastructure such as portable and reproducible bioinformatics workflows for use on heterogeneous African computing environments…”
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Graphics processing units in bioinformatics, computational biology and systems biology by Nobile, Marco S, Cazzaniga, Paolo, Tangherloni, Andrea, Besozzi, Daniela

“…Abstract Several studies in Bioinformatics, Computational Biology and Systems Biology rely on the definition of physico-chemical or mathematical models of biological systems at different scales…”
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The Carbon Footprint of Bioinformatics by Grealey, Jason, Lannelongue, Loïc, Saw, Woei-Yuh, Marten, Jonathan, Méric, Guillaume, Ruiz-Carmona, Sergio, Inouye, Michael

“…Abstract Bioinformatic research relies on large-scale computational infrastructures which have a nonzero carbon footprint but so far, no study has quantified the environmental costs of bioinformatic…”
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multiPhATE: bioinformatics pipeline for functional annotation of phage isolates by Ecale Zhou, Carol L, Malfatti, Stephanie, Kimbrel, Jeffrey, Philipson, Casandra, McNair, Katelyn, Hamilton, Theron, Edwards, Robert, Souza, Brian

“…) across a user-specified set of phage genomes. This tool incorporates a de novo phage gene calling algorithm and assigns putative functions to gene calls using protein-, virus- and phage-centric database…”
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Profiling the BLAST bioinformatics application for load balancing on high-performance computing clusters by Cheng, Trinity, Chin, Pei-Ju, Cha, Kenny, Petrick, Nicholas, Mikailov, Mike

“…Background The Basic Local Alignment Search Tool (BLAST) is a suite of commonly used algorithms for identifying matches between biological sequences…”
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An overview of the Hadoop/MapReduce/HBase framework and its current applications in bioinformatics by Taylor, Ronald C

“…Background Bioinformatics researchers are now confronted with analysis of ultra large-scale data sets, a problem that will only increase at an alarming rate in coming years…”
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Teaching computational genomics and bioinformatics on a high performance computing cluster—a primer by Sethuraman, Arun

“… Here, I describe the successful implementation of a semester-long (16 week) upper division undergraduate/graduate level course in Computational Genomics and Bioinformatics taught at San Diego State University in Spring…”
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ElasticBLAST: accelerating sequence search via cloud computing by Camacho, Christiam, Boratyn, Grzegorz M., Joukov, Victor, Vera Alvarez, Roberto, Madden, Thomas L.

“…) to categorize their query sequences. Producing such alignments is an essential bioinformatics task that is well suited for the cloud…”
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Sequence clustering in bioinformatics: an empirical study by Zou, Quan, Lin, Gang, Jiang, Xingpeng, Liu, Xiangrong, Zeng, Xiangxiang

“… However, there is often a gap between algorithm developers and bioinformatics users. Different software tools can produce diverse results and users can find them difficult to analyze…”
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Biclustering in bioinformatics using big data and High Performance Computing applications: challenges and perspectives, a review by López-Fernández, Aurelio, Gomez-Vela, Francisco A., Rodriguez-Baena, Domingo S., Delgado-Chaves, Fernando M., Gonzalez-Dominguez, Jorge

“… Applied to gene expression data in bioinformatics, its use has expanded alongside the rapid growth of high-throughput sequencing technologies, leading to massive and complex biological datasets…”
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Bioinformatics with soft computing by Mitra, S., Hayashi, Y.

“…Soft computing is gradually opening up several possibilities in bioinformatics, especially by generating low-cost, low-precision (approximate), good solutions…”
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