Hoksza D - Search Results

1

AHoJ-DB: A PDB-wide Assignment of apo & holo Relationships Based on Individual Protein-Ligand Interactions.

Feidakis CP, Krivak R, Hoksza D, Novotny M. Feidakis CP, et al. Among authors: hoksza d. J Mol Biol. 2024 Mar 18:168545. doi: 10.1016/j.jmb.2024.168545. Online ahead of print. J Mol Biol. 2024. PMID: 38508305 Free article.

2

Genomics 2 Proteins portal: A resource and discovery tool for linking genetic screening outputs to protein sequences and structures.

Kwon S, Safer J, Nguyen DT, Hoksza D, May P, Arbesfeld JA, Rubin AF, Campbell AJ, Burgin A, Iqbal S. Kwon S, et al. Among authors: hoksza d. bioRxiv [Preprint]. 2024 Jan 2:2024.01.02.573913. doi: 10.1101/2024.01.02.573913. bioRxiv. 2024. PMID: 38260256 Free PMC article. Preprint.

3

Visualization of automatically combined disease maps and pathway diagrams for rare diseases.

Gawron P, Hoksza D, Piñero J, Peña-Chilet M, Esteban-Medina M, Fernandez-Rueda JL, Colonna V, Smula E, Heirendt L, Ancien F, Groues V, Satagopam VP, Schneider R, Dopazo J, Furlong LI, Ostaszewski M. Gawron P, et al. Among authors: hoksza d. Front Bioinform. 2023 Jul 12;3:1101505. doi: 10.3389/fbinf.2023.1101505. eCollection 2023. Front Bioinform. 2023. PMID: 37502697 Free PMC article.

4

AHoJ: rapid, tailored search and retrieval of apo and holo protein structures for user-defined ligands.

Feidakis CP, Krivak R, Hoksza D, Novotny M. Feidakis CP, et al. Among authors: hoksza d. Bioinformatics. 2022 Dec 13;38(24):5452-5453. doi: 10.1093/bioinformatics/btac701. Bioinformatics. 2022. PMID: 36282546 Free PMC article.

5

Delineation of functionally essential protein regions for 242 neurodevelopmental genes.

Iqbal S, Brünger T, Pérez-Palma E, Macnee M, Brunklaus A, Daly MJ, Campbell AJ, Hoksza D, May P, Lal D. Iqbal S, et al. Among authors: hoksza d. Brain. 2023 Feb 13;146(2):519-533. doi: 10.1093/brain/awac381. Brain. 2023. PMID: 36256779 Free PMC article.

6

PrankWeb 3: accelerated ligand-binding site predictions for experimental and modelled protein structures.

Jakubec D, Skoda P, Krivak R, Novotny M, Hoksza D. Jakubec D, et al. Among authors: hoksza d. Nucleic Acids Res. 2022 Jul 5;50(W1):W593-W597. doi: 10.1093/nar/gkac389. Nucleic Acids Res. 2022. PMID: 35609995 Free PMC article.

7

PDBe-KB: collaboratively defining the biological context of structural data.

PDBe-KB consortium. PDBe-KB consortium. Nucleic Acids Res. 2022 Jan 7;50(D1):D534-D542. doi: 10.1093/nar/gkab988. Nucleic Acids Res. 2022. PMID: 34755867 Free PMC article.

8

R2DT is a framework for predicting and visualising RNA secondary structure using templates.

Sweeney BA, Hoksza D, Nawrocki EP, Ribas CE, Madeira F, Cannone JJ, Gutell R, Maddala A, Meade CD, Williams LD, Petrov AS, Chan PP, Lowe TM, Finn RD, Petrov AI. Sweeney BA, et al. Among authors: hoksza d. Nat Commun. 2021 Jun 9;12(1):3494. doi: 10.1038/s41467-021-23555-5. Nat Commun. 2021. PMID: 34108470 Free PMC article.

9

RNAcentral 2021: secondary structure integration, improved sequence search and new member databases.

RNAcentral Consortium. RNAcentral Consortium. Nucleic Acids Res. 2021 Jan 8;49(D1):D212-D220. doi: 10.1093/nar/gkaa921. Nucleic Acids Res. 2021. PMID: 33106848 Free PMC article.

10

Comprehensive characterization of amino acid positions in protein structures reveals molecular effect of missense variants.

Iqbal S, Pérez-Palma E, Jespersen JB, May P, Hoksza D, Heyne HO, Ahmed SS, Rifat ZT, Rahman MS, Lage K, Palotie A, Cottrell JR, Wagner FF, Daly MJ, Campbell AJ, Lal D. Iqbal S, et al. Among authors: hoksza d. Proc Natl Acad Sci U S A. 2020 Nov 10;117(45):28201-28211. doi: 10.1073/pnas.2002660117. Epub 2020 Oct 26. Proc Natl Acad Sci U S A. 2020. PMID: 33106425 Free PMC article.

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