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Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads.

Nature methods

Shafin K, Pesout T, Chang PC, Nattestad M, Kolesnikov A, Goel S, Baid G, Kolmogorov M, Eizenga JM, Miga KH, Carnevali P, Jain M, Carroll A, Paten B.
PMID: 34725481
Nat Methods. 2021 Nov;18(11):1322-1332. doi: 10.1038/s41592-021-01299-w. Epub 2021 Nov 01.

Long-read sequencing has the potential to transform variant detection by reaching currently difficult-to-map regions and routinely linking together adjacent variations to enable read-based phasing. Third-generation nanopore sequence data have demonstrated a long read length, but current interpretation methods for...

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Shafin K, Pesout T, Chang PC, et al. Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads. Nat Methods. 2021;18(11):1322-1332doi: 10.1038/s41592-021-01299-w.
Shafin, K., Pesout, T., Chang, P. C., Nattestad, M., Kolesnikov, A., Goel, S., Baid, G., Kolmogorov, M., Eizenga, J. M., Miga, K. H., Carnevali, P., Jain, M., Carroll, A., & Paten, B. (2021). Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads. Nature methods, 18(11), 1322-1332. https://doi.org/10.1038/s41592-021-01299-w
Shafin, Kishwar, et al. "Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads." Nature methods vol. 18,11 (2021): 1322-1332. doi: https://doi.org/10.1038/s41592-021-01299-w
Shafin K, Pesout T, Chang PC, Nattestad M, Kolesnikov A, Goel S, Baid G, Kolmogorov M, Eizenga JM, Miga KH, Carnevali P, Jain M, Carroll A, Paten B. Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads. Nat Methods. 2021 Nov;18(11):1322-1332. doi: 10.1038/s41592-021-01299-w. Epub 2021 Nov 01. PMID: 34725481; PMCID: PMC8571015.
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Computationally prioritized drugs inhibit SARS-CoV-2 infection and syncytia formation.

Briefings in bioinformatics

Serra A, Fratello M, Federico A, Ojha R, Provenzani R, Tasnadi E, Cattelani L, Del Giudice G, Kinaret PAS, Saarimäki LA, Pavel A, Kuivanen S, Cerullo V, Vapalahti O, Horvath P, Lieto AD, Yli-Kauhaluoma J, Balistreri G, Greco D.
PMID: 34962256
Brief Bioinform. 2021 Dec 27; doi: 10.1093/bib/bbab507. Epub 2021 Dec 27.

The pharmacological arsenal against the COVID-19 pandemic is largely based on generic anti-inflammatory strategies or poorly scalable solutions. Moreover, as the ongoing vaccination campaign is rolling slower than wished, affordable and effective therapeutics are needed. To this end, there...

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Serra A, Fratello M, Federico A, et al. Computationally prioritized drugs inhibit SARS-CoV-2 infection and syncytia formation. Brief Bioinform. 2021;doi: 10.1093/bib/bbab507.
Serra, A., Fratello, M., Federico, A., Ojha, R., Provenzani, R., Tasnadi, E., Cattelani, L., Del Giudice, G., Kinaret, P. A. S., Saarimäki, L. A., Pavel, A., Kuivanen, S., Cerullo, V., Vapalahti, O., Horvath, P., Lieto, A. D., Yli-Kauhaluoma, J., Balistreri, G., & Greco, D. (2021). Computationally prioritized drugs inhibit SARS-CoV-2 infection and syncytia formation. Briefings in bioinformatics, . https://doi.org/10.1093/bib/bbab507
Serra, Angela, et al. "Computationally prioritized drugs inhibit SARS-CoV-2 infection and syncytia formation." Briefings in bioinformatics vol. (2021). doi: https://doi.org/10.1093/bib/bbab507
Serra A, Fratello M, Federico A, Ojha R, Provenzani R, Tasnadi E, Cattelani L, Del Giudice G, Kinaret PAS, Saarimäki LA, Pavel A, Kuivanen S, Cerullo V, Vapalahti O, Horvath P, Lieto AD, Yli-Kauhaluoma J, Balistreri G, Greco D. Computationally prioritized drugs inhibit SARS-CoV-2 infection and syncytia formation. Brief Bioinform. 2021 Dec 27; doi: 10.1093/bib/bbab507. Epub 2021 Dec 27. PMID: 34962256.
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REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology.

Nature methods

Sarkans U, Chiu W, Collinson L, Darrow MC, Ellenberg J, Grunwald D, Hériché JK, Iudin A, Martins GG, Meehan T, Narayan K, Patwardhan A, Russell MRG, Saibil HR, Strambio-De-Castillia C, Swedlow JR, Tischer C, Uhlmann V, Verkade P, Barlow M, Bayraktar O, Birney E, Catavitello C, Cawthorne C, Wagner-Conrad S, Duke E, Paul-Gilloteaux P, Gustin E, Harkiolaki M, Kankaanpää P, Lemberger T, McEntyre J, Moore J, Nicholls AW, Onami S, Parkinson H, Parsons M, Romanchikova M, Sofroniew N, Swoger J, Utz N, Voortman LM, Wong F, Zhang P, Kleywegt GJ, Brazma A.
PMID: 34021280
Nat Methods. 2021 Dec;18(12):1418-1422. doi: 10.1038/s41592-021-01166-8.

No abstract available.

Cite
Sarkans U, Chiu W, Collinson L, et al. REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology. Nat Methods. 2021;18(12):1418-1422doi: 10.1038/s41592-021-01166-8.
Sarkans, U., Chiu, W., Collinson, L., Darrow, M. C., Ellenberg, J., Grunwald, D., Hériché, J. K., Iudin, A., Martins, G. G., Meehan, T., Narayan, K., Patwardhan, A., Russell, M. R. G., Saibil, H. R., Strambio-De-Castillia, C., Swedlow, J. R., Tischer, C., Uhlmann, V., Verkade, P., Barlow, M., Bayraktar, O., Birney, E., Catavitello, C., Cawthorne, C., Wagner-Conrad, S., Duke, E., Paul-Gilloteaux, P., Gustin, E., Harkiolaki, M., Kankaanpää, P., Lemberger, T., McEntyre, J., Moore, J., Nicholls, A. W., Onami, S., Parkinson, H., Parsons, M., Romanchikova, M., Sofroniew, N., Swoger, J., Utz, N., Voortman, L. M., Wong, F., Zhang, P., Kleywegt, G. J., & Brazma, A. (2021). REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology. Nature methods, 18(12), 1418-1422. https://doi.org/10.1038/s41592-021-01166-8
Sarkans, Ugis, et al. "REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology." Nature methods vol. 18,12 (2021): 1418-1422. doi: https://doi.org/10.1038/s41592-021-01166-8
Sarkans U, Chiu W, Collinson L, Darrow MC, Ellenberg J, Grunwald D, Hériché JK, Iudin A, Martins GG, Meehan T, Narayan K, Patwardhan A, Russell MRG, Saibil HR, Strambio-De-Castillia C, Swedlow JR, Tischer C, Uhlmann V, Verkade P, Barlow M, Bayraktar O, Birney E, Catavitello C, Cawthorne C, Wagner-Conrad S, Duke E, Paul-Gilloteaux P, Gustin E, Harkiolaki M, Kankaanpää P, Lemberger T, McEntyre J, Moore J, Nicholls AW, Onami S, Parkinson H, Parsons M, Romanchikova M, Sofroniew N, Swoger J, Utz N, Voortman LM, Wong F, Zhang P, Kleywegt GJ, Brazma A. REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology. Nat Methods. 2021 Dec;18(12):1418-1422. doi: 10.1038/s41592-021-01166-8. PMID: 34021280; PMCID: PMC8606015.
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Disparity in the quality of COVID-19 data reporting across India.

medRxiv : the preprint server for health sciences

Vasudevan V, Gnanasekaran A, Sankar V, Vasudevan SA, Zou J.
PMID: 32743593
medRxiv. 2020 Aug 05; doi: 10.1101/2020.07.19.20157248.

BACKGROUND: Transparent and accessible reporting of COVID-19 data is critical for public health efforts. Each state and union territory (UT) of India has its own mechanism for reporting COVID-19 data, and the quality of their reporting has not been...

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Vasudevan V, Gnanasekaran A, Sankar V, et al. Disparity in the quality of COVID-19 data reporting across India. medRxiv. 2020;doi: 10.1101/2020.07.19.20157248.
Vasudevan, V., Gnanasekaran, A., Sankar, V., Vasudevan, S. A., & Zou, J. (2020). Disparity in the quality of COVID-19 data reporting across India. medRxiv : the preprint server for health sciences, . https://doi.org/10.1101/2020.07.19.20157248
Vasudevan, Varun, et al. "Disparity in the quality of COVID-19 data reporting across India." medRxiv : the preprint server for health sciences vol. (2020). doi: https://doi.org/10.1101/2020.07.19.20157248
Vasudevan V, Gnanasekaran A, Sankar V, Vasudevan SA, Zou J. Disparity in the quality of COVID-19 data reporting across India. medRxiv. 2020 Aug 05; doi: 10.1101/2020.07.19.20157248. PMID: 32743593; PMCID: PMC7386517.
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The European Genome-phenome Archive in 2021.

Nucleic acids research

Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J.
PMID: 34791407
Nucleic Acids Res. 2022 Jan 07;50:D980-D987. doi: 10.1093/nar/gkab1059.

The European Genome-phenome Archive (EGA - https://ega-archive.org/) is a resource for long term secure archiving of all types of potentially identifiable genetic, phenotypic, and clinical data resulting from biomedical research projects. Its mission is to foster hosted data reuse,...

Cite
Freeberg MA, Fromont LA, D'Altri T, et al. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2022;50:D980-D987doi: 10.1093/nar/gkab1059.
Freeberg, M. A., Fromont, L. A., D'Altri, T., Romero, A. F., Ciges, J. I., Jene, A., Kerry, G., Moldes, M., Ariosa, R., Bahena, S., Barrowdale, D., Barbero, M. C., Fernandez-Orth, D., Garcia-Linares, C., Garcia-Rios, E., Haziza, F., Juhasz, B., Llobet, O. M., Milla, G., Mohan, A., Rueda, M., Sankar, A., Shaju, D., Shimpi, A., Singh, B., Thomas, C., de la Torre, S., Uyan, U., Vasallo, C., Flicek, P., Guigo, R., Navarro, A., Parkinson, H., Keane, T., & Rambla, J. (2022). The European Genome-phenome Archive in 2021. Nucleic acids research, 50D980-D987. https://doi.org/10.1093/nar/gkab1059
Freeberg, Mallory Ann, et al. "The European Genome-phenome Archive in 2021." Nucleic acids research vol. 50 (2022): D980-D987. doi: https://doi.org/10.1093/nar/gkab1059
Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2022 Jan 07;50:D980-D987. doi: 10.1093/nar/gkab1059. PMID: 34791407.
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Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases.

mSystems

Kalantar KL, Langelier CR.
PMID: 34402649
mSystems. 2021 Aug 31;6(4):e0040421. doi: 10.1128/mSystems.00404-21. Epub 2021 Aug 17.

A dynamic relationship involving pathogen, host immune response, and microbiome characterizes the biological framework of many infectious and inflammatory diseases. Combined host/microbe metagenomics (mNGS) enables simultaneous assessment of all three features, enabling the study and diagnosis of diverse infectious...

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Kalantar KL, Langelier CR. Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases. mSystems. 2021;6(4):e0040421doi: 10.1128/mSystems.00404-21.
Kalantar, K. L., & Langelier, C. R. (2021). Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases. mSystems, 6(4), e0040421. https://doi.org/10.1128/mSystems.00404-21
Kalantar, Katrina L, and Langelier, Charles R. "Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases." mSystems vol. 6,4 (2021): e0040421. doi: https://doi.org/10.1128/mSystems.00404-21
Kalantar KL, Langelier CR. Host-Microbe Metagenomics: a Lens To Refocus Our Perspective on Infectious and Inflammatory Diseases. mSystems. 2021 Aug 31;6(4):e0040421. doi: 10.1128/mSystems.00404-21. Epub 2021 Aug 17. PMID: 34402649; PMCID: PMC8409739.
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Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19.

EClinicalMedicine

Shah SJ, Barish PN, Prasad PA, Kistler A, Neff N, Kamm J, Li LM, Chiu CY, Babik JM, Fang MC, Abe-Jones Y, Alipanah N, Alvarez FN, Botvinnik OB, Castaneda G, Dadasovich RM, Davis J, Deng X, DeRisi JL, Detweiler AM, Federman S, Haliburton J, Hao S, Kerkhoff AD, Kumar GR, Malcolm KB, Mann SA, Martinez S, Mary RK, Mick E, Mwakibete L, Najafi N, Peluso MJ, Phelps M, Pisco AO, Ratnasiri K, Rubio LA, Sellas A, Sherwood KD, Sheu J, Spottiswoode N, Tan M, Yu G, Kangelaris KN, Langelier C.
PMID: 32864588
EClinicalMedicine. 2020 Oct;27:100518. doi: 10.1016/j.eclinm.2020.100518. Epub 2020 Aug 26.

BACKGROUND: Most data on the clinical presentation, diagnostics, and outcomes of patients with COVID-19 have been presented as case series without comparison to patients with other acute respiratory illnesses.METHODS: We examined emergency department patients between February 3 and March...

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Shah SJ, Barish PN, Prasad PA, et al. Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19. EClinicalMedicine. 2020;27:100518doi: 10.1016/j.eclinm.2020.100518.
Shah, S. J., Barish, P. N., Prasad, P. A., Kistler, A., Neff, N., Kamm, J., Li, L. M., Chiu, C. Y., Babik, J. M., Fang, M. C., Abe-Jones, Y., Alipanah, N., Alvarez, F. N., Botvinnik, O. B., Castaneda, G., Dadasovich, R. M., Davis, J., Deng, X., DeRisi, J. L., Detweiler, A. M., Federman, S., Haliburton, J., Hao, S., Kerkhoff, A. D., Kumar, G. R., Malcolm, K. B., Mann, S. A., Martinez, S., Mary, R. K., Mick, E., Mwakibete, L., Najafi, N., Peluso, M. J., Phelps, M., Pisco, A. O., Ratnasiri, K., Rubio, L. A., Sellas, A., Sherwood, K. D., Sheu, J., Spottiswoode, N., Tan, M., Yu, G., Kangelaris, K. N., & Langelier, C. (2020). Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19. EClinicalMedicine, 27100518. https://doi.org/10.1016/j.eclinm.2020.100518
Shah, Sachin J, et al. "Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19." EClinicalMedicine vol. 27 (2020): 100518. doi: https://doi.org/10.1016/j.eclinm.2020.100518
Shah SJ, Barish PN, Prasad PA, Kistler A, Neff N, Kamm J, Li LM, Chiu CY, Babik JM, Fang MC, Abe-Jones Y, Alipanah N, Alvarez FN, Botvinnik OB, Castaneda G, Dadasovich RM, Davis J, Deng X, DeRisi JL, Detweiler AM, Federman S, Haliburton J, Hao S, Kerkhoff AD, Kumar GR, Malcolm KB, Mann SA, Martinez S, Mary RK, Mick E, Mwakibete L, Najafi N, Peluso MJ, Phelps M, Pisco AO, Ratnasiri K, Rubio LA, Sellas A, Sherwood KD, Sheu J, Spottiswoode N, Tan M, Yu G, Kangelaris KN, Langelier C. Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19. EClinicalMedicine. 2020 Oct;27:100518. doi: 10.1016/j.eclinm.2020.100518. Epub 2020 Aug 26. PMID: 32864588; PMCID: PMC7447618.
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Learning in the 21st Century: Concepts and Tools.

Clinical chemistry

Rifai N, Rose T, McMahon GT, Saxberg B, Christensen UJ.
PMID: 30097495
Clin Chem. 2018 Oct;64(10):1423-1429. doi: 10.1373/clinchem.2018.292383. Epub 2018 Aug 10.

No abstract available.

Cite
Rifai N, Rose T, McMahon GT, et al. Learning in the 21st Century: Concepts and Tools. Clin Chem. 2018;64(10):1423-1429doi: 10.1373/clinchem.2018.292383.
Rifai, N., Rose, T., McMahon, G. T., Saxberg, B., & Christensen, U. J. (2018). Learning in the 21st Century: Concepts and Tools. Clinical chemistry, 64(10), 1423-1429. https://doi.org/10.1373/clinchem.2018.292383
Rifai, Nader, et al. "Learning in the 21st Century: Concepts and Tools." Clinical chemistry vol. 64,10 (2018): 1423-1429. doi: https://doi.org/10.1373/clinchem.2018.292383
Rifai N, Rose T, McMahon GT, Saxberg B, Christensen UJ. Learning in the 21st Century: Concepts and Tools. Clin Chem. 2018 Oct;64(10):1423-1429. doi: 10.1373/clinchem.2018.292383. Epub 2018 Aug 10. PMID: 30097495.
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CORD-19: The Covid-19 Open Research Dataset.

ArXiv

Lu Wang L, Lo K, Chandrasekhar Y, Reas R, Yang J, Eide D, Funk K, Kinney R, Liu Z, Merrill W, Mooney P, Murdick D, Rishi D, Sheehan J, Shen Z, Stilson B, Wade AD, Wang K, Wilhelm C, Xie B, Raymond D, Weld DS, Etzioni O, Kohlmeier S.
PMID: 32510522
ArXiv. 2020 Apr 22;

The Covid-19 Open Research Dataset (CORD-19) is a growing resource of scientific papers on Covid-19 and related historical coronavirus research. CORD-19 is designed to facilitate the development of text mining and information retrieval systems over its rich collection of...

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Lu Wang L, Lo K, Chandrasekhar Y, et al. CORD-19: The Covid-19 Open Research Dataset. ArXiv. 2020;
Lu Wang, L., Lo, K., Chandrasekhar, Y., Reas, R., Yang, J., Eide, D., Funk, K., Kinney, R., Liu, Z., Merrill, W., Mooney, P., Murdick, D., Rishi, D., Sheehan, J., Shen, Z., Stilson, B., Wade, A. D., Wang, K., Wilhelm, C., Xie, B., Raymond, D., Weld, D. S., Etzioni, O., & Kohlmeier, S. (2020). CORD-19: The Covid-19 Open Research Dataset. ArXiv, .
Lu Wang, Lucy, et al. "CORD-19: The Covid-19 Open Research Dataset." ArXiv vol. (2020).
Lu Wang L, Lo K, Chandrasekhar Y, Reas R, Yang J, Eide D, Funk K, Kinney R, Liu Z, Merrill W, Mooney P, Murdick D, Rishi D, Sheehan J, Shen Z, Stilson B, Wade AD, Wang K, Wilhelm C, Xie B, Raymond D, Weld DS, Etzioni O, Kohlmeier S. CORD-19: The Covid-19 Open Research Dataset. ArXiv. 2020 Apr 22; PMID: 32510522; PMCID: PMC7251955.
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Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco.

medRxiv : the preprint server for health sciences

Peng J, Mann SA, Mitchell AM, Liu J, Laurie MT, Sunshine S, Pilarowski G, Ayscue P, Kistler A, Vanaerschot M, Li LM, McGeever A, Chow ED, Team I, Marquez C, Nakamura R, Rubio L, Chamie G, Jones D, Jacobo J, Rojas S, Rojas S, Tulier-Laiwa V, Black D, Martinez J, Naso J, Schwab J, Petersen M, Havlir D, DeRisi J.
PMID: 33688689
medRxiv. 2021 Mar 03; doi: 10.1101/2021.03.01.21252705.

BACKGROUND: Sequencing of the SARS-CoV-2 viral genome from patient samples is an important epidemiological tool for monitoring and responding to the pandemic, including the emergence of new mutations in specific communities.METHODS: SARS-CoV-2 genomic sequences were generated from positive samples...

Cite
Peng J, Mann SA, Mitchell AM, et al. Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco. medRxiv. 2021;doi: 10.1101/2021.03.01.21252705.
Peng, J., Mann, S. A., Mitchell, A. M., Liu, J., Laurie, M. T., Sunshine, S., Pilarowski, G., Ayscue, P., Kistler, A., Vanaerschot, M., Li, L. M., McGeever, A., Chow, E. D., Team, I., Marquez, C., Nakamura, R., Rubio, L., Chamie, G., Jones, D., Jacobo, J., Rojas, S., Rojas, S., Tulier-Laiwa, V., Black, D., Martinez, J., Naso, J., Schwab, J., Petersen, M., Havlir, D., & DeRisi, J. (2021). Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco. medRxiv : the preprint server for health sciences, . https://doi.org/10.1101/2021.03.01.21252705
Peng, James, et al. "Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco." medRxiv : the preprint server for health sciences vol. (2021). doi: https://doi.org/10.1101/2021.03.01.21252705
Peng J, Mann SA, Mitchell AM, Liu J, Laurie MT, Sunshine S, Pilarowski G, Ayscue P, Kistler A, Vanaerschot M, Li LM, McGeever A, Chow ED, Team I, Marquez C, Nakamura R, Rubio L, Chamie G, Jones D, Jacobo J, Rojas S, Rojas S, Tulier-Laiwa V, Black D, Martinez J, Naso J, Schwab J, Petersen M, Havlir D, DeRisi J. Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco. medRxiv. 2021 Mar 03; doi: 10.1101/2021.03.01.21252705. PMID: 33688689; PMCID: PMC7941666.
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The European Genome-phenome Archive in 2021.

Nucleic acids research

Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J.
PMID: 34791407
Nucleic Acids Res. 2021 Nov 17; doi: 10.1093/nar/gkab1059. Epub 2021 Nov 17.

The European Genome-phenome Archive (EGA - https://ega-archive.org/) is a resource for long term secure archiving of all types of potentially identifiable genetic, phenotypic, and clinical data resulting from biomedical research projects. Its mission is to foster hosted data reuse,...

Cite
Freeberg MA, Fromont LA, D'Altri T, et al. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2021;doi: 10.1093/nar/gkab1059.
Freeberg, M. A., Fromont, L. A., D'Altri, T., Romero, A. F., Ciges, J. I., Jene, A., Kerry, G., Moldes, M., Ariosa, R., Bahena, S., Barrowdale, D., Barbero, M. C., Fernandez-Orth, D., Garcia-Linares, C., Garcia-Rios, E., Haziza, F., Juhasz, B., Llobet, O. M., Milla, G., Mohan, A., Rueda, M., Sankar, A., Shaju, D., Shimpi, A., Singh, B., Thomas, C., de la Torre, S., Uyan, U., Vasallo, C., Flicek, P., Guigo, R., Navarro, A., Parkinson, H., Keane, T., & Rambla, J. (2021). The European Genome-phenome Archive in 2021. Nucleic acids research, . https://doi.org/10.1093/nar/gkab1059
Freeberg, Mallory Ann, et al. "The European Genome-phenome Archive in 2021." Nucleic acids research vol. (2021). doi: https://doi.org/10.1093/nar/gkab1059
Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2021 Nov 17; doi: 10.1093/nar/gkab1059. Epub 2021 Nov 17. PMID: 34791407.
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The European Genome-phenome Archive in 2021.

Nucleic acids research

Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J.
PMID: 34791407
Nucleic Acids Res. 2022 Jan 07;50:D980-D987. doi: 10.1093/nar/gkab1059.

The European Genome-phenome Archive (EGA - https://ega-archive.org/) is a resource for long term secure archiving of all types of potentially identifiable genetic, phenotypic, and clinical data resulting from biomedical research projects. Its mission is to foster hosted data reuse,...

Cite
Freeberg MA, Fromont LA, D'Altri T, et al. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2022;50:D980-D987doi: 10.1093/nar/gkab1059.
Freeberg, M. A., Fromont, L. A., D'Altri, T., Romero, A. F., Ciges, J. I., Jene, A., Kerry, G., Moldes, M., Ariosa, R., Bahena, S., Barrowdale, D., Barbero, M. C., Fernandez-Orth, D., Garcia-Linares, C., Garcia-Rios, E., Haziza, F., Juhasz, B., Llobet, O. M., Milla, G., Mohan, A., Rueda, M., Sankar, A., Shaju, D., Shimpi, A., Singh, B., Thomas, C., de la Torre, S., Uyan, U., Vasallo, C., Flicek, P., Guigo, R., Navarro, A., Parkinson, H., Keane, T., & Rambla, J. (2022). The European Genome-phenome Archive in 2021. Nucleic acids research, 50D980-D987. https://doi.org/10.1093/nar/gkab1059
Freeberg, Mallory Ann, et al. "The European Genome-phenome Archive in 2021." Nucleic acids research vol. 50 (2022): D980-D987. doi: https://doi.org/10.1093/nar/gkab1059
Freeberg MA, Fromont LA, D'Altri T, Romero AF, Ciges JI, Jene A, Kerry G, Moldes M, Ariosa R, Bahena S, Barrowdale D, Barbero MC, Fernandez-Orth D, Garcia-Linares C, Garcia-Rios E, Haziza F, Juhasz B, Llobet OM, Milla G, Mohan A, Rueda M, Sankar A, Shaju D, Shimpi A, Singh B, Thomas C, de la Torre S, Uyan U, Vasallo C, Flicek P, Guigo R, Navarro A, Parkinson H, Keane T, Rambla J. The European Genome-phenome Archive in 2021. Nucleic Acids Res. 2022 Jan 07;50:D980-D987. doi: 10.1093/nar/gkab1059. PMID: 34791407; PMCID: PMC8728218.
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