Alvis Brazma
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Explore the profile of Alvis Brazma including associated specialties, affiliations and a list of published articles.
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156
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19005
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Recent Articles
1.
Feng S, Huang L, Pournara A, Huang Z, Yang X, Zhang Y, et al.
Nat Commun
. 2024 Dec;
15(1):10867.
PMID: 39738054
Cell type deconvolution methods can impute cell proportions from bulk transcriptomics data, revealing changes in disease progression or organ development. But benchmarking studies often use simulated bulk data from the...
2.
Russell C, Burel J, Athar A, Li S, Sarkans U, Swedlow J, et al.
ArXiv
. 2024 Nov;
PMID: 39606735
We introduce bia-binder (BioImage Archive Binder), an open-source, cloud-architectured, and web-based coding environment tailored to bioimage analysis that is freely accessible to all researchers. The service generates easy-to-use Jupyter Notebook...
3.
Deshpande D, Chhugani K, Ramesh T, Pellegrini M, Shiffman S, Abedalthagafi M, et al.
Cell
. 2024 Aug;
187(17):4449-4457.
PMID: 39178828
Computational data-centric research techniques play a prevalent and multi-disciplinary role in life science research. In the past, scientists in wet labs generated the data, and computational researchers focused on creating...
4.
Pournara A, Miao Z, Beker O, Nolte N, Brazma A, Papatheodorou I
Bioinform Adv
. 2024 Apr;
4(1):vbae048.
PMID: 38638280
Motivation: Cell-type deconvolution methods aim to infer cell composition from bulk transcriptomic data. The proliferation of developed methods coupled with inconsistent results obtained in many cases, highlights the pressing need...
5.
Katkat E, Demirci Y, Heger G, Karagulle D, Papatheodorou I, Brazma A, et al.
Front Cell Dev Biol
. 2023 Nov;
11:1297910.
PMID: 38020918
Melanoma is the deadliest form of skin cancer and develops from the melanocytes that are responsible for the pigmentation of the skin. The skin is also a highly regenerative organ,...
6.
George N, Fexova S, Fuentes A, Madrigal P, Bi Y, Iqbal H, et al.
Nucleic Acids Res
. 2023 Nov;
52(D1):D107-D114.
PMID: 37992296
Expression Atlas (www.ebi.ac.uk/gxa) and its newest counterpart the Single Cell Expression Atlas (www.ebi.ac.uk/gxa/sc) are EMBL-EBI's knowledgebases for gene and protein expression and localisation in bulk and at single cell level....
7.
Song Y, Miao Z, Brazma A, Papatheodorou I
Nat Commun
. 2023 Oct;
14(1):6495.
PMID: 37838716
The growing number of available single-cell gene expression datasets from different species creates opportunities to explore evolutionary relationships between cell types across species. Cross-species integration of single-cell RNA-sequencing data has...
8.
Theiss M, Heriche J, Russell C, Helekal D, Soppitt A, Ries J, et al.
Bioinformatics
. 2023 Sep;
39(10).
PMID: 37756700
Motivation: The nuclear pore complex (NPC) is the only passageway for macromolecules between nucleus and cytoplasm, and an important reference standard in microscopy: it is massive and stereotypically arranged. The...
9.
Vasudev N, Scelo G, Glennon K, Wilson M, Letourneau L, Eveleigh R, et al.
Clin Cancer Res
. 2023 Feb;
29(7):1220-1231.
PMID: 36815791
Purpose: Patients with resected localized clear-cell renal cell carcinoma (ccRCC) remain at variable risk of recurrence. Incorporation of biomarkers may refine risk prediction and inform adjuvant treatment decisions. We explored...
10.
Calabrese C, Davidson N, Demircioglu D, Fonseca N, He Y, Kahles A, et al.
Nature
. 2023 Jan;
614(7948):E37.
PMID: 36697831
No abstract available.