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Evolutionary bioinformatics online, ISSN 1176-9343, 2019, Volume 15, p. 117693431986901
elPrep is an extensible multithreaded software framework for efficiently processing Sequence Alignment/Map (SAM)/Binary Alignment/Map (BAM) files in... 
Nucleotide sequence | C plus plus | Pipelines | C (programming language) | Benchmarks | Mapping | Programming languages | Design | Alignment | Next-generation sequencing | Language | Efficiency | Memory management | Quality | Computer applications
Journal Article
eLife, ISSN 2050-084X, 10/2016, Volume 5, Issue 2016, p. e19375
Journal Article
PloS one, ISSN 1932-6203, 2019, Volume 14, Issue 2, p. e0209523
Journal Article
PloS one, 2019, Volume 14, Issue 2, p. e0209523
We present elPrep 4, a reimplementation from scratch of the elPrep framework for processing sequence alignment map files in the Go programming language. elPrep... 
Exome | Computational Biology - methods | Algorithms | Costs and Cost Analysis | Sequence Analysis - methods | Software | Sequence Analysis - economics | Computational Biology - economics
Journal Article
Bioinformatics, ISSN 1367-4803, 2015, Volume 31, Issue 15, pp. 2482 - 2488
Motivation: Post-sequencing DNA analysis typically consists of read mapping followed by variant calling. Especially for whole genome sequencing, this... 
ALIGNMENT | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | CLOUD | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | FRAMEWORK | GENOME ANALYSIS | Software | Genome, Human | Sequence Analysis, DNA - methods | Humans | Human | Pipelining (computers) | Clusters | Running | Genomes | API | Bioinformatics | Gene sequencing | Original Papers
Journal Article
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), ISSN 0302-9743, 2016, Volume 9574, pp. 233 - 242
Conference Proceeding
Concurrency and computation, ISSN 1532-0626, 2018, Volume 30, Issue 7, pp. e4376 - n/a
Summary This paper describes ExaShark, a hybrid n‐dimensional array toolkit offered as a high‐level library for scientists to compute large‐scale simulations.... 
multidimensional arrays | high performance computing | PGAS programming model | hybrid computing | COMPUTER SCIENCE, SOFTWARE ENGINEERING | COMPUTER SCIENCE, THEORY & METHODS | Libraries | Computer simulation | Solvers | Level (quantity)
Journal Article
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 11/2008, Volume 105, Issue 44, pp. 17091 - 17096
... a,1 , Elisabetta Botti a,1 , Maria Laura Giustizieri a,1 , Pascal Descargues b , Alessandro Giunta a , Carmine Stolfi c , Costanza Ballaro d , Marina Papoutsaki... 
Tumor cell line | Cell growth | Epithelial cells | Cell nucleus | Cell lines | Cell cycle | Keratinocytes | Skin | Down regulation | Tumors | Squamous cell carcinoma | Myc | Skin cancer | Biological Sciences | skin cancer | squamous cell carcinoma
Journal Article
by Ajello, M and Atwood, W. B and Baldini, L and Ballet, J and Barbiellini, G and Bastieri, D and Bellazzini, R and Bissaldi, E and Blandford, R. D and Bloom, E. D and Bonino, R and Bregeon, J and Britto, R. J and Bruel, P and Buehler, R and Buson, S and Cameron, R. A and Caputo, R and Caragiulo, M and Caraveo, P. A and Cavazzuti, E and Cecchi, C and Charles, E and Chekhtman, A and Cheung, C. C and Chiaro, G and Ciprini, S and Cohen, J. M and Costantin, D and Costanza, F and Cuoco, A and Cutini, S and D’Ammando, F and de Palma, F and Desiante, R and Digel, S. W and Di Lalla, N and Di Mauro, M and Di Venere, L and Domínguez, A and Drell, P. S and Dumora, D and Favuzzi, C and Fegan, S. J and Ferrara, E. C and Fortin, P and Franckowiak, A and Fukazawa, Y and Funk, S and Fusco, P and Gargano, F and Gasparrini, D and Giglietto, N and Giommi, P and Giordano, F and Giroletti, M and Glanzman, T and Green, D and Grenier, I. A and Grondin, M.-H and Grove, J. E and Guillemot, L and Guiriec, S and Harding, A. K and Hays, E and Hewitt, J. W and Horan, D and Jóhannesson, G and Kensei, S and Kuss, M and La Mura, G and Larsson, S and Latronico, L and Lemoine-Goumard, M and Li, J and Longo, F and Loparco, F and Lott, B and Lubrano, P and Magill, J. D and Maldera, S and Manfreda, A and Mazziotta, M. N and McEnery, J. E and Meyer, M and Michelson, P. F and Mirabal, N and Mitthumsiri, W and Mizuno, T and Moiseev, A. A and Monzani, M. E and Morselli, A and Moskalenko, I. V and Negro, M and Nuss, E and Ohsugi, T and Omodei, N and Orienti, M and Orlando, E and Palatiello, M and ... and SLAC National Accelerator Lab., Menlo Park, CA (United States)
The Astrophysical journal. Supplement series, ISSN 1538-4365, 2017, Volume 232, Issue 2, p. 18
Journal Article
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), ISSN 0302-9743, 2014, Volume 8385, Issue 2, pp. 227 - 236
Journal Article
The lancet. Diabetes & endocrinology, ISSN 2213-8587, 2014, Volume 2, Issue 8, pp. 634 - 647
Journal Article