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Showing 229 to 236 of 236 entries
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Physiological responses and transcriptome analysis of Spirodela polyrhiza under red, blue, and white light.

Planta

Zhong Y, Wang L, Ma Z, Du X.
PMID: 34855030
Planta. 2021 Dec 02;255(1):11. doi: 10.1007/s00425-021-03764-4.

MAIN CONCLUSION: Red light (RL) accelerated starch accumulation in S. polyrhiza, but higher protein content under blue light (BL) was associated with the upregulation of most DEGs enriched for specific GO terms and KEGG pathways. Red light (RL) and...

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Zhong Y, Wang L, Ma Z, et al. Physiological responses and transcriptome analysis of Spirodela polyrhiza under red, blue, and white light. Planta. 2021;255(1):11doi: 10.1007/s00425-021-03764-4.
Zhong, Y., Wang, L., Ma, Z., & Du, X. (2021). Physiological responses and transcriptome analysis of Spirodela polyrhiza under red, blue, and white light. Planta, 255(1), 11. https://doi.org/10.1007/s00425-021-03764-4
Zhong, Yu, et al. "Physiological responses and transcriptome analysis of Spirodela polyrhiza under red, blue, and white light." Planta vol. 255,1 (2021): 11. doi: https://doi.org/10.1007/s00425-021-03764-4
Zhong Y, Wang L, Ma Z, Du X. Physiological responses and transcriptome analysis of Spirodela polyrhiza under red, blue, and white light. Planta. 2021 Dec 02;255(1):11. doi: 10.1007/s00425-021-03764-4. PMID: 34855030.
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'Single-subject studies'-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases.

Bioinformatics (Oxford, England)

Aberasturi D, Pouladi N, Zaim SR, Kenost C, Berghout J, Piegorsch WW, Lussier YA.
PMID: 34252934
Bioinformatics. 2021 Jul 12;37:i67-i75. doi: 10.1093/bioinformatics/btab290.

MOTIVATION: Identifying altered transcripts between very small human cohorts is particularly challenging and is compounded by the low accrual rate of human subjects in rare diseases or sub-stratified common disorders. Yet, single-subject studies (S3) can compare paired transcriptome samples...

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Aberasturi D, Pouladi N, Zaim SR, et al. 'Single-subject studies'-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases. Bioinformatics. 2021;37:i67-i75doi: 10.1093/bioinformatics/btab290.
Aberasturi, D., Pouladi, N., Zaim, S. R., Kenost, C., Berghout, J., Piegorsch, W. W., & Lussier, Y. A. (2021). 'Single-subject studies'-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases. Bioinformatics (Oxford, England), 37i67-i75. https://doi.org/10.1093/bioinformatics/btab290
Aberasturi, Dillon, et al. "'Single-subject studies'-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases." Bioinformatics (Oxford, England) vol. 37 (2021): i67-i75. doi: https://doi.org/10.1093/bioinformatics/btab290
Aberasturi D, Pouladi N, Zaim SR, Kenost C, Berghout J, Piegorsch WW, Lussier YA. 'Single-subject studies'-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases. Bioinformatics. 2021 Jul 12;37:i67-i75. doi: 10.1093/bioinformatics/btab290. PMID: 34252934; PMCID: PMC8336591.
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Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding.

Bioinformatics (Oxford, England)

Jang G, Park S, Lee S, Kim S, Park S, Kang J.
PMID: 34252937
Bioinformatics. 2021 Jul 12;37:i376-i382. doi: 10.1093/bioinformatics/btab275.

MOTIVATION: Identifying mechanism of actions (MoA) of novel compounds is crucial in drug discovery. Careful understanding of MoA can avoid potential side effects of drug candidates. Efforts have been made to identify MoA using the transcriptomic signatures induced by...

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Jang G, Park S, Lee S, et al. Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding. Bioinformatics. 2021;37:i376-i382doi: 10.1093/bioinformatics/btab275.
Jang, G., Park, S., Lee, S., Kim, S., Park, S., & Kang, J. (2021). Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding. Bioinformatics (Oxford, England), 37i376-i382. https://doi.org/10.1093/bioinformatics/btab275
Jang, Gwanghoon, et al. "Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding." Bioinformatics (Oxford, England) vol. 37 (2021): i376-i382. doi: https://doi.org/10.1093/bioinformatics/btab275
Jang G, Park S, Lee S, Kim S, Park S, Kang J. Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding. Bioinformatics. 2021 Jul 12;37:i376-i382. doi: 10.1093/bioinformatics/btab275. PMID: 34252937; PMCID: PMC8275331.
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Research on the drought tolerance mechanism of Pennisetum glaucum (L.) in the root during the seedling stage.

BMC genomics

Zhang A, Ji Y, Sun M, Lin C, Zhou P, Ren J, Luo D, Wang X, Ma C, Zhang X, Feng G, Nie G, Huang L.
PMID: 34301177
BMC Genomics. 2021 Jul 23;22(1):568. doi: 10.1186/s12864-021-07888-5.

BACKGROUND: Drought is one of the major environmental stresses resulting in a huge reduction in crop growth and biomass production. Pearl millet (Pennisetum glaucum L.) has excellent drought tolerance, and it could be used as a model plant to...

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Zhang A, Ji Y, Sun M, et al. Research on the drought tolerance mechanism of Pennisetum glaucum (L.) in the root during the seedling stage. BMC Genomics. 2021;22(1):568doi: 10.1186/s12864-021-07888-5.
Zhang, A., Ji, Y., Sun, M., Lin, C., Zhou, P., Ren, J., Luo, D., Wang, X., Ma, C., Zhang, X., Feng, G., Nie, G., & Huang, L. (2021). Research on the drought tolerance mechanism of Pennisetum glaucum (L.) in the root during the seedling stage. BMC genomics, 22(1), 568. https://doi.org/10.1186/s12864-021-07888-5
Zhang, Ailing, et al. "Research on the drought tolerance mechanism of Pennisetum glaucum (L.) in the root during the seedling stage." BMC genomics vol. 22,1 (2021): 568. doi: https://doi.org/10.1186/s12864-021-07888-5
Zhang A, Ji Y, Sun M, Lin C, Zhou P, Ren J, Luo D, Wang X, Ma C, Zhang X, Feng G, Nie G, Huang L. Research on the drought tolerance mechanism of Pennisetum glaucum (L.) in the root during the seedling stage. BMC Genomics. 2021 Jul 23;22(1):568. doi: 10.1186/s12864-021-07888-5. PMID: 34301177; PMCID: PMC8305952.
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Comparative transcriptome and proteome provide new insights into the regulatory mechanisms of the postharvest deterioration of Pleurotus tuoliensis fruitbodies during storage.

Food research international (Ottawa, Ont.)

Wu MX, Zou Y, Yu YH, Chen BX, Zheng QW, Ye ZW, Wei T, Ye SQ, Guo LQ, Lin JF.
PMID: 34399517
Food Res Int. 2021 Sep;147:110540. doi: 10.1016/j.foodres.2021.110540. Epub 2021 Jun 17.

The Pleurotus tuoliensis (Pt), a precious edible mushroom with high economic value, is widely popular for its rich nutrition and meaty texture. However, rapid postharvest deterioration depreciates the commercial value of Pt and severely restricts its marketing. By RNA-Seq...

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Wu MX, Zou Y, Yu YH, et al. Comparative transcriptome and proteome provide new insights into the regulatory mechanisms of the postharvest deterioration of Pleurotus tuoliensis fruitbodies during storage. Food Res Int. 2021;147:110540doi: 10.1016/j.foodres.2021.110540.
Wu, M. X., Zou, Y., Yu, Y. H., Chen, B. X., Zheng, Q. W., Ye, Z. W., Wei, T., Ye, S. Q., Guo, L. Q., & Lin, J. F. (2021). Comparative transcriptome and proteome provide new insights into the regulatory mechanisms of the postharvest deterioration of Pleurotus tuoliensis fruitbodies during storage. Food research international (Ottawa, Ont.), 147110540. https://doi.org/10.1016/j.foodres.2021.110540
Wu, Mu-Xiu, et al. "Comparative transcriptome and proteome provide new insights into the regulatory mechanisms of the postharvest deterioration of Pleurotus tuoliensis fruitbodies during storage." Food research international (Ottawa, Ont.) vol. 147 (2021): 110540. doi: https://doi.org/10.1016/j.foodres.2021.110540
Wu MX, Zou Y, Yu YH, Chen BX, Zheng QW, Ye ZW, Wei T, Ye SQ, Guo LQ, Lin JF. Comparative transcriptome and proteome provide new insights into the regulatory mechanisms of the postharvest deterioration of Pleurotus tuoliensis fruitbodies during storage. Food Res Int. 2021 Sep;147:110540. doi: 10.1016/j.foodres.2021.110540. Epub 2021 Jun 17. PMID: 34399517.
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EMTome: a resource for pan-cancer analysis of epithelial-mesenchymal transition genes and signatures.

British journal of cancer

Vasaikar SV, Deshmukh AP, den Hollander P, Addanki S, Kuburich NA, Kudaravalli S, Joseph R, Chang JT, Soundararajan R, Mani SA.
PMID: 33299129
Br J Cancer. 2021 Jan;124(1):259-269. doi: 10.1038/s41416-020-01178-9. Epub 2020 Dec 10.

BACKGROUND: The epithelial-mesenchymal transition (EMT) enables dissociation of tumour cells from the primary tumour mass, invasion through the extracellular matrix, intravasation into blood vessels and colonisation of distant organs. Cells that revert to the epithelial state via the mesenchymal-epithelial...

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Vasaikar SV, Deshmukh AP, den Hollander P, et al. EMTome: a resource for pan-cancer analysis of epithelial-mesenchymal transition genes and signatures. Br J Cancer. 2020;124(1):259-269doi: 10.1038/s41416-020-01178-9.
Vasaikar, S. V., Deshmukh, A. P., den Hollander, P., Addanki, S., Kuburich, N. A., Kudaravalli, S., Joseph, R., Chang, J. T., Soundararajan, R., & Mani, S. A. (2021). EMTome: a resource for pan-cancer analysis of epithelial-mesenchymal transition genes and signatures. British journal of cancer, 124(1), 259-269. https://doi.org/10.1038/s41416-020-01178-9
Vasaikar, Suhas V, et al. "EMTome: a resource for pan-cancer analysis of epithelial-mesenchymal transition genes and signatures." British journal of cancer vol. 124,1 (2021): 259-269. doi: https://doi.org/10.1038/s41416-020-01178-9
Vasaikar SV, Deshmukh AP, den Hollander P, Addanki S, Kuburich NA, Kudaravalli S, Joseph R, Chang JT, Soundararajan R, Mani SA. EMTome: a resource for pan-cancer analysis of epithelial-mesenchymal transition genes and signatures. Br J Cancer. 2021 Jan;124(1):259-269. doi: 10.1038/s41416-020-01178-9. Epub 2020 Dec 10. PMID: 33299129; PMCID: PMC7782839.
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Integrative analysis methods for spatial transcriptomics.

Nature methods

Lu S, Fürth D, Gillis J.
PMID: 34711969
Nat Methods. 2021 Nov;18(11):1282-1283. doi: 10.1038/s41592-021-01272-7.

No abstract available.

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Lu S, Fürth D, Gillis J. Integrative analysis methods for spatial transcriptomics. Nat Methods. 2021;18(11):1282-1283doi: 10.1038/s41592-021-01272-7.
Lu, S., Fürth, D., & Gillis, J. (2021). Integrative analysis methods for spatial transcriptomics. Nature methods, 18(11), 1282-1283. https://doi.org/10.1038/s41592-021-01272-7
Lu, Shaina, et al. "Integrative analysis methods for spatial transcriptomics." Nature methods vol. 18,11 (2021): 1282-1283. doi: https://doi.org/10.1038/s41592-021-01272-7
Lu S, Fürth D, Gillis J. Integrative analysis methods for spatial transcriptomics. Nat Methods. 2021 Nov;18(11):1282-1283. doi: 10.1038/s41592-021-01272-7. PMID: 34711969.
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Drought responsiveness in black pepper (Piper nigrum L.): Genes associated and development of a web-genomic resource.

Physiologia plantarum

Negi A, George Kokkat J, Jasrotia RS, Madhavan S, Jaiswal S, Angadi UB, Iquebal MA, Kalathil Palliyarakkal M, Palaniyandi U, Rai A, Kumar D.
PMID: 33305409
Physiol Plant. 2021 Jun;172(2):669-683. doi: 10.1111/ppl.13308. Epub 2020 Dec 20.

Black pepper (Piper nigrum L.; 2n = 52; Piperaceae), the king of spices, is a perennial, trailing woody flowering vine and has global importance with widespread dietary, medicinal, and preservative uses. It is an economically important germplasm cultivated for...

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Negi A, George Kokkat J, Jasrotia RS, et al. Drought responsiveness in black pepper (Piper nigrum L.): Genes associated and development of a web-genomic resource. Physiol Plant. 2020;172(2):669-683doi: 10.1111/ppl.13308.
Negi, A., George Kokkat, J., Jasrotia, R. S., Madhavan, S., Jaiswal, S., Angadi, U. B., Iquebal, M. A., Kalathil Palliyarakkal, M., Palaniyandi, U., Rai, A., & Kumar, D. (2021). Drought responsiveness in black pepper (Piper nigrum L.): Genes associated and development of a web-genomic resource. Physiologia plantarum, 172(2), 669-683. https://doi.org/10.1111/ppl.13308
Negi, Ankita, et al. "Drought responsiveness in black pepper (Piper nigrum L.): Genes associated and development of a web-genomic resource." Physiologia plantarum vol. 172,2 (2021): 669-683. doi: https://doi.org/10.1111/ppl.13308
Negi A, George Kokkat J, Jasrotia RS, Madhavan S, Jaiswal S, Angadi UB, Iquebal MA, Kalathil Palliyarakkal M, Palaniyandi U, Rai A, Kumar D. Drought responsiveness in black pepper (Piper nigrum L.): Genes associated and development of a web-genomic resource. Physiol Plant. 2021 Jun;172(2):669-683. doi: 10.1111/ppl.13308. Epub 2020 Dec 20. PMID: 33305409.
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Showing 229 to 236 of 236 entries