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Daily rhythms in gene expression of the human parasite Schistosoma mansoni.

BMC biology

Rawlinson KA, Reid AJ, Lu Z, Driguez P, Wawer A, Coghlan A, Sankaranarayanan G, Buddenborg SK, Soria CD, McCarthy C, Holroyd N, Sanders M, Hoffmann KF, Wilcockson D, Rinaldi G, Berriman M.
PMID: 34852797
BMC Biol. 2021 Dec 02;19(1):255. doi: 10.1186/s12915-021-01189-9.

BACKGROUND: The consequences of the earth's daily rotation have led to 24-h biological rhythms in most organisms. Even some parasites are known to have daily rhythms, which, when in synchrony with host rhythms, can optimise their fitness. Understanding these...

Cite
Rawlinson KA, Reid AJ, Lu Z, et al. Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC Biol. 2021;19(1):255doi: 10.1186/s12915-021-01189-9.
Rawlinson, K. A., Reid, A. J., Lu, Z., Driguez, P., Wawer, A., Coghlan, A., Sankaranarayanan, G., Buddenborg, S. K., Soria, C. D., McCarthy, C., Holroyd, N., Sanders, M., Hoffmann, K. F., Wilcockson, D., Rinaldi, G., & Berriman, M. (2021). Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC biology, 19(1), 255. https://doi.org/10.1186/s12915-021-01189-9
Rawlinson, Kate A, et al. "Daily rhythms in gene expression of the human parasite Schistosoma mansoni." BMC biology vol. 19,1 (2021): 255. doi: https://doi.org/10.1186/s12915-021-01189-9
Rawlinson KA, Reid AJ, Lu Z, Driguez P, Wawer A, Coghlan A, Sankaranarayanan G, Buddenborg SK, Soria CD, McCarthy C, Holroyd N, Sanders M, Hoffmann KF, Wilcockson D, Rinaldi G, Berriman M. Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC Biol. 2021 Dec 02;19(1):255. doi: 10.1186/s12915-021-01189-9. PMID: 34852797; PMCID: PMC8638415.
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MultiMAP: dimensionality reduction and integration of multimodal data.

Genome biology

Jain MS, Polanski K, Conde CD, Chen X, Park J, Mamanova L, Knights A, Botting RA, Stephenson E, Haniffa M, Lamacraft A, Efremova M, Teichmann SA.
PMID: 34930412
Genome Biol. 2021 Dec 20;22(1):346. doi: 10.1186/s13059-021-02565-y.

Multimodal data is rapidly growing in many fields of science and engineering, including single-cell biology. We introduce MultiMAP, a novel algorithm for dimensionality reduction and integration. MultiMAP can integrate any number of datasets, leverages features not present in all...

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Jain MS, Polanski K, Conde CD, et al. MultiMAP: dimensionality reduction and integration of multimodal data. Genome Biol. 2021;22(1):346doi: 10.1186/s13059-021-02565-y.
Jain, M. S., Polanski, K., Conde, C. D., Chen, X., Park, J., Mamanova, L., Knights, A., Botting, R. A., Stephenson, E., Haniffa, M., Lamacraft, A., Efremova, M., & Teichmann, S. A. (2021). MultiMAP: dimensionality reduction and integration of multimodal data. Genome biology, 22(1), 346. https://doi.org/10.1186/s13059-021-02565-y
Jain, Mika Sarkin, et al. "MultiMAP: dimensionality reduction and integration of multimodal data." Genome biology vol. 22,1 (2021): 346. doi: https://doi.org/10.1186/s13059-021-02565-y
Jain MS, Polanski K, Conde CD, Chen X, Park J, Mamanova L, Knights A, Botting RA, Stephenson E, Haniffa M, Lamacraft A, Efremova M, Teichmann SA. MultiMAP: dimensionality reduction and integration of multimodal data. Genome Biol. 2021 Dec 20;22(1):346. doi: 10.1186/s13059-021-02565-y. PMID: 34930412; PMCID: PMC8686224.
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Mapping immune variation and .

eLife

Milne K, Ivens A, Reid AJ, Lotkowska ME, O'Toole A, Sankaranarayanan G, Munoz Sandoval D, Nahrendorf W, Regnault C, Edwards NJ, Silk SE, Payne RO, Minassian AM, Venkatraman N, Sanders MJ, Hill AV, Barrett M, Berriman M, Draper SJ, Rowe JA, Spence PJ.
PMID: 33648633
Elife. 2021 Mar 02;10. doi: 10.7554/eLife.62800.

Falciparum malaria is clinically heterogeneous and the relative contribution of parasite and host in shaping disease severity remains unclear. We explored the interaction between inflammation and parasite variant surface antigen (VSA) expression, asking whether this relationship underpins the variation...

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Milne K, Ivens A, Reid AJ, et al. Mapping immune variation and . Elife. 2021;10doi: 10.7554/eLife.62800.
Milne, K., Ivens, A., Reid, A. J., Lotkowska, M. E., O'Toole, A., Sankaranarayanan, G., Munoz Sandoval, D., Nahrendorf, W., Regnault, C., Edwards, N. J., Silk, S. E., Payne, R. O., Minassian, A. M., Venkatraman, N., Sanders, M. J., Hill, A. V., Barrett, M., Berriman, M., Draper, S. J., Rowe, J. A., & Spence, P. J. (2021). Mapping immune variation and . eLife, 10. https://doi.org/10.7554/eLife.62800
Milne, Kathryn, et al. "Mapping immune variation and ." eLife vol. 10 (2021). doi: https://doi.org/10.7554/eLife.62800
Milne K, Ivens A, Reid AJ, Lotkowska ME, O'Toole A, Sankaranarayanan G, Munoz Sandoval D, Nahrendorf W, Regnault C, Edwards NJ, Silk SE, Payne RO, Minassian AM, Venkatraman N, Sanders MJ, Hill AV, Barrett M, Berriman M, Draper SJ, Rowe JA, Spence PJ. Mapping immune variation and . Elife. 2021 Mar 02;10. doi: 10.7554/eLife.62800. PMID: 33648633; PMCID: PMC7924948.
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INSIGHT: A population-scale COVID-19 testing strategy combining point-of-care diagnosis with centralized high-throughput sequencing.

Science advances

Wu Q, Suo C, Brown T, Wang T, Teichmann SA, Bassett AR.
PMID: 33579697
Sci Adv. 2021 Feb 12;7(7). doi: 10.1126/sciadv.abe5054. Print 2021 Feb.

We present INSIGHT [isothermal NASBA (nucleic acid sequence-based amplification) sequencing-based high-throughput test], a two-stage coronavirus disease 2019 testing strategy, using a barcoded isothermal NASBA reaction. It combines point-of-care diagnosis with next-generation sequencing, aiming to achieve population-scale testing. Stage 1...

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Wu Q, Suo C, Brown T, et al. INSIGHT: A population-scale COVID-19 testing strategy combining point-of-care diagnosis with centralized high-throughput sequencing. Sci Adv. 2021;7(7)doi: 10.1126/sciadv.abe5054.
Wu, Q., Suo, C., Brown, T., Wang, T., Teichmann, S. A., & Bassett, A. R. (2021). INSIGHT: A population-scale COVID-19 testing strategy combining point-of-care diagnosis with centralized high-throughput sequencing. Science advances, 7(7), . https://doi.org/10.1126/sciadv.abe5054
Wu, Qianxin, et al. "INSIGHT: A population-scale COVID-19 testing strategy combining point-of-care diagnosis with centralized high-throughput sequencing." Science advances vol. 7,7 (2021). doi: https://doi.org/10.1126/sciadv.abe5054
Wu Q, Suo C, Brown T, Wang T, Teichmann SA, Bassett AR. INSIGHT: A population-scale COVID-19 testing strategy combining point-of-care diagnosis with centralized high-throughput sequencing. Sci Adv. 2021 Feb 12;7(7). doi: 10.1126/sciadv.abe5054. Print 2021 Feb. PMID: 33579697; PMCID: PMC7880595.
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Daily rhythms in gene expression of the human parasite Schistosoma mansoni.

BMC biology

Rawlinson KA, Reid AJ, Lu Z, Driguez P, Wawer A, Coghlan A, Sankaranarayanan G, Buddenborg SK, Soria CD, McCarthy C, Holroyd N, Sanders M, Hoffmann KF, Wilcockson D, Rinaldi G, Berriman M.
PMID: 34852797
BMC Biol. 2021 Dec 02;19(1):255. doi: 10.1186/s12915-021-01189-9.

BACKGROUND: The consequences of the earth's daily rotation have led to 24-h biological rhythms in most organisms. Even some parasites are known to have daily rhythms, which, when in synchrony with host rhythms, can optimise their fitness. Understanding these...

Cite
Rawlinson KA, Reid AJ, Lu Z, et al. Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC Biol. 2021;19(1):255doi: 10.1186/s12915-021-01189-9.
Rawlinson, K. A., Reid, A. J., Lu, Z., Driguez, P., Wawer, A., Coghlan, A., Sankaranarayanan, G., Buddenborg, S. K., Soria, C. D., McCarthy, C., Holroyd, N., Sanders, M., Hoffmann, K. F., Wilcockson, D., Rinaldi, G., & Berriman, M. (2021). Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC biology, 19(1), 255. https://doi.org/10.1186/s12915-021-01189-9
Rawlinson, Kate A, et al. "Daily rhythms in gene expression of the human parasite Schistosoma mansoni." BMC biology vol. 19,1 (2021): 255. doi: https://doi.org/10.1186/s12915-021-01189-9
Rawlinson KA, Reid AJ, Lu Z, Driguez P, Wawer A, Coghlan A, Sankaranarayanan G, Buddenborg SK, Soria CD, McCarthy C, Holroyd N, Sanders M, Hoffmann KF, Wilcockson D, Rinaldi G, Berriman M. Daily rhythms in gene expression of the human parasite Schistosoma mansoni. BMC Biol. 2021 Dec 02;19(1):255. doi: 10.1186/s12915-021-01189-9. PMID: 34852797; PMCID: PMC8638415.
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MultiMAP: dimensionality reduction and integration of multimodal data.

Genome biology

Jain MS, Polanski K, Conde CD, Chen X, Park J, Mamanova L, Knights A, Botting RA, Stephenson E, Haniffa M, Lamacraft A, Efremova M, Teichmann SA.
PMID: 34930412
Genome Biol. 2021 Dec 20;22(1):346. doi: 10.1186/s13059-021-02565-y.

Multimodal data is rapidly growing in many fields of science and engineering, including single-cell biology. We introduce MultiMAP, a novel algorithm for dimensionality reduction and integration. MultiMAP can integrate any number of datasets, leverages features not present in all...

Cite
Jain MS, Polanski K, Conde CD, et al. MultiMAP: dimensionality reduction and integration of multimodal data. Genome Biol. 2021;22(1):346doi: 10.1186/s13059-021-02565-y.
Jain, M. S., Polanski, K., Conde, C. D., Chen, X., Park, J., Mamanova, L., Knights, A., Botting, R. A., Stephenson, E., Haniffa, M., Lamacraft, A., Efremova, M., & Teichmann, S. A. (2021). MultiMAP: dimensionality reduction and integration of multimodal data. Genome biology, 22(1), 346. https://doi.org/10.1186/s13059-021-02565-y
Jain, Mika Sarkin, et al. "MultiMAP: dimensionality reduction and integration of multimodal data." Genome biology vol. 22,1 (2021): 346. doi: https://doi.org/10.1186/s13059-021-02565-y
Jain MS, Polanski K, Conde CD, Chen X, Park J, Mamanova L, Knights A, Botting RA, Stephenson E, Haniffa M, Lamacraft A, Efremova M, Teichmann SA. MultiMAP: dimensionality reduction and integration of multimodal data. Genome Biol. 2021 Dec 20;22(1):346. doi: 10.1186/s13059-021-02565-y. PMID: 34930412.
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High-throughput genotyping of high-homology mutant mouse strains by next-generation sequencing.

Methods (San Diego, Calif.)

Gleeson D, Sethi D, Platte R, Burvill J, Barrett D, Akhtar S, Bruntraeger M, Bottomley J, Mouse Genetics Project S, Bussell J, Ryder E.
PMID: 33096238
Methods. 2021 Jul;191:78-86. doi: 10.1016/j.ymeth.2020.10.011. Epub 2020 Oct 20.

Genotyping of knockout alleles in mice is commonly performed by end-point PCR or gene-specific/universal cassette qPCR. Both have advantages and limitations in terms of assay design and interpretation of results. As an alternative method for high-throughput genotyping, we investigated...

Cite
Gleeson D, Sethi D, Platte R, et al. High-throughput genotyping of high-homology mutant mouse strains by next-generation sequencing. Methods. 2020;191:78-86doi: 10.1016/j.ymeth.2020.10.011.
Gleeson, D., Sethi, D., Platte, R., Burvill, J., Barrett, D., Akhtar, S., Bruntraeger, M., Bottomley, J., Mouse Genetics Project, S., Bussell, J., & Ryder, E. (2021). High-throughput genotyping of high-homology mutant mouse strains by next-generation sequencing. Methods (San Diego, Calif.), 19178-86. https://doi.org/10.1016/j.ymeth.2020.10.011
Gleeson, Diane, et al. "High-throughput genotyping of high-homology mutant mouse strains by next-generation sequencing." Methods (San Diego, Calif.) vol. 191 (2021): 78-86. doi: https://doi.org/10.1016/j.ymeth.2020.10.011
Gleeson D, Sethi D, Platte R, Burvill J, Barrett D, Akhtar S, Bruntraeger M, Bottomley J, Mouse Genetics Project S, Bussell J, Ryder E. High-throughput genotyping of high-homology mutant mouse strains by next-generation sequencing. Methods. 2021 Jul;191:78-86. doi: 10.1016/j.ymeth.2020.10.011. Epub 2020 Oct 20. PMID: 33096238; PMCID: PMC8205115.
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Genomics of disease risk in globally diverse populations.

Nature reviews. Genetics

Gurdasani D, Barroso I, Zeggini E, Sandhu MS.
PMID: 31235872
Nat Rev Genet. 2019 Sep;20(9):520-535. doi: 10.1038/s41576-019-0144-0. Epub 2019 Jun 24.

Risk of disease is multifactorial and can be shaped by socio-economic, demographic, cultural, environmental and genetic factors. Our understanding of the genetic determinants of disease risk has greatly advanced with the advent of genome-wide association studies (GWAS), which detect...

Cite
Gurdasani D, Barroso I, Zeggini E, et al. Genomics of disease risk in globally diverse populations. Nat Rev Genet. 2019;20(9):520-535doi: 10.1038/s41576-019-0144-0.
Gurdasani, D., Barroso, I., Zeggini, E., & Sandhu, M. S. (2019). Genomics of disease risk in globally diverse populations. Nature reviews. Genetics, 20(9), 520-535. https://doi.org/10.1038/s41576-019-0144-0
Gurdasani, Deepti, et al. "Genomics of disease risk in globally diverse populations." Nature reviews. Genetics vol. 20,9 (2019): 520-535. doi: https://doi.org/10.1038/s41576-019-0144-0
Gurdasani D, Barroso I, Zeggini E, Sandhu MS. Genomics of disease risk in globally diverse populations. Nat Rev Genet. 2019 Sep;20(9):520-535. doi: 10.1038/s41576-019-0144-0. Epub 2019 Jun 24. PMID: 31235872.
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Importing genetically altered animals: ensuring quality.

Mammalian genome : official journal of the International Mammalian Genome Society

Birling MC, Fray MD, Kasparek P, Kopkanova J, Massimi M, Matteoni R, Montoliu L, Nutter LMJ, Raspa M, Rozman J, Ryder EJ, Scavizzi F, Voikar V, Wells S, Pavlovic G, Teboul L.
PMID: 34536110
Mamm Genome. 2021 Sep 18; doi: 10.1007/s00335-021-09908-x. Epub 2021 Sep 18.

The reproducibility of research using laboratory animals requires reliable management of their quality, in particular of their genetics, health and environment, all of which contribute to their phenotypes. The point at which these biological materials are transferred between researchers...

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Birling MC, Fray MD, Kasparek P, et al. Importing genetically altered animals: ensuring quality. Mamm Genome. 2021;doi: 10.1007/s00335-021-09908-x.
Birling, M. C., Fray, M. D., Kasparek, P., Kopkanova, J., Massimi, M., Matteoni, R., Montoliu, L., Nutter, L. M. J., Raspa, M., Rozman, J., Ryder, E. J., Scavizzi, F., Voikar, V., Wells, S., Pavlovic, G., & Teboul, L. (2021). Importing genetically altered animals: ensuring quality. Mammalian genome : official journal of the International Mammalian Genome Society, . https://doi.org/10.1007/s00335-021-09908-x
Birling, M-C, et al. "Importing genetically altered animals: ensuring quality." Mammalian genome : official journal of the International Mammalian Genome Society vol. (2021). doi: https://doi.org/10.1007/s00335-021-09908-x
Birling MC, Fray MD, Kasparek P, Kopkanova J, Massimi M, Matteoni R, Montoliu L, Nutter LMJ, Raspa M, Rozman J, Ryder EJ, Scavizzi F, Voikar V, Wells S, Pavlovic G, Teboul L. Importing genetically altered animals: ensuring quality. Mamm Genome. 2021 Sep 18; doi: 10.1007/s00335-021-09908-x. Epub 2021 Sep 18. PMID: 34536110.
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Functional studies of GWAS variants are gaining momentum.

Nature communications

Lichou F, Trynka G.
PMID: 33293539
Nat Commun. 2020 Dec 08;11(1):6283. doi: 10.1038/s41467-020-20188-y.

No abstract available.

Cite
Lichou F, Trynka G. Functional studies of GWAS variants are gaining momentum. Nat Commun. 2020;11(1):6283doi: 10.1038/s41467-020-20188-y.
Lichou, F., & Trynka, G. (2020). Functional studies of GWAS variants are gaining momentum. Nature communications, 11(1), 6283. https://doi.org/10.1038/s41467-020-20188-y
Lichou, Florence, and Trynka, Gosia. "Functional studies of GWAS variants are gaining momentum." Nature communications vol. 11,1 (2020): 6283. doi: https://doi.org/10.1038/s41467-020-20188-y
Lichou F, Trynka G. Functional studies of GWAS variants are gaining momentum. Nat Commun. 2020 Dec 08;11(1):6283. doi: 10.1038/s41467-020-20188-y. PMID: 33293539; PMCID: PMC7722852.
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Showing 1 to 10 of 10 entries