Resultados totales (Incluyendo duplicados): 35683
Encontrada(s) 3569 página(s)
Encontrada(s) 3569 página(s)
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356798
Dataset. 2023
STATISTICAL ANALYSIS AND TOKENIZATION OF EPITOPES TO CONSTRUCT ARTIFICIAL NEOEPITOPE LIBRARIES 1 [DATASET]
- López-Martínez, Elena
- Manteca, Aitor
- Ferruz, Noelia
- Cortajarena, Aitziber L.
Epitopes are specific regions on an antigen’s surface that the immune system recognizes. Epitopes are usually protein regions on foreign immune-stimulating entities such as viruses and bacteria, and in some cases, endogenous proteins may act as antigens. Identifying epitopes is crucial for accelerating the development of vaccines and immunotherapies. However, mapping epitopes in pathogen proteomes is challenging using conventional methods. Screening artificial neoepitope libraries against antibodies can overcome this issue. Here, we applied conventional sequence analysis and methods inspired in natural language processing to reveal specific sequence patterns in the linear epitopes deposited in the Immune Epitope Database (www.iedb.org) that can serve as building blocks for the design of universal epitope libraries. Our results reveal that amino acid frequency in annotated linear epitopes differs from that in the human proteome. Aromatic residues are overrepresented, while the presence of cysteines is practically null in epitopes. Byte pair encoding tokenization shows high frequencies of tryptophan in tokens of 5, 6, and 7 amino acids, corroborating the findings of the conventional sequence analysis. These results can be applied to reduce the diversity of linear epitope libraries by orders of magnitude., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356798
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356798
HANDLE: http://hdl.handle.net/10261/356798
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356798
PMID: http://hdl.handle.net/10261/356798
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356798
Ver en: http://hdl.handle.net/10261/356798
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356798
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356800
Dataset. 2023
STATISTICAL ANALYSIS AND TOKENIZATION OF EPITOPES TO CONSTRUCT ARTIFICIAL NEOEPITOPE LIBRARIES V2 [DATASET]
- López-Martínez, Elena
- Manteca, Aitor
- Ferruz, Noelia
- Cortajarena, Aitziber L.
Figure S1. Amino acid global propensity in epitopes.
Figure S2. Overall global propensity variation in epitopes.
Figure S3. Relative entropy values for the epitopes.
Figure S4. Distribution of epitopes by source organism.
Figure S5. Tokenization of epitopes with tokens of 4 and 5 residues.
Figure S6. Amino acid frequency after tokenization.
Table S1: Average relative entropies and p-values for the entropy analysis.
Table S2: Tokens obtained through BPE tokenization of the entire dataset., Epitopes are specific regions on an antigen’s surface that the immune system recognizes. Epitopes are usually protein regions on foreign immune-stimulating entities such as viruses and bacteria, and in some cases, endogenous proteins may act as antigens. Identifying epitopes is crucial for accelerating the development of vaccines and immunotherapies. However, mapping epitopes in pathogen proteomes is challenging using conventional methods. Screening artificial neoepitope libraries against antibodies can overcome this issue. Here, we applied conventional sequence analysis and methods inspired in natural language processing to reveal specific sequence patterns in the linear epitopes deposited in the Immune Epitope Database (www.iedb.org) that can serve as building blocks for the design of universal epitope libraries. Our results reveal that amino acid frequency in annotated linear epitopes differs from that in the human proteome. Aromatic residues are overrepresented, while the presence of cysteines is practically null in epitopes. Byte pair encoding tokenization shows high frequencies of tryptophan in tokens of 5, 6, and 7 amino acids, corroborating the findings of the conventional sequence analysis. These results can be applied to reduce the diversity of linear epitope libraries by orders of magnitude., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356800
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356800
HANDLE: http://hdl.handle.net/10261/356800
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356800
PMID: http://hdl.handle.net/10261/356800
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356800
Ver en: http://hdl.handle.net/10261/356800
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356800
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356803
Dataset. 2023
STATISTICAL ANALYSIS AND TOKENIZATION OF EPITOPES TO CONSTRUCT ARTIFICIAL NEOEPITOPE LIBRARIES 3 [DATASET]
- López-Martínez, Elena
- Manteca, Aitor
- Ferruz, Noelia
- Cortajarena, Aitziber L.
Epitopes are specific regions on an antigen’s surface that the immune system recognizes. Epitopes are usually protein regions on foreign immune-stimulating entities such as viruses and bacteria, and in some cases, endogenous proteins may act as antigens. Identifying epitopes is crucial for accelerating the development of vaccines and immunotherapies. However, mapping epitopes in pathogen proteomes is challenging using conventional methods. Screening artificial neoepitope libraries against antibodies can overcome this issue. Here, we applied conventional sequence analysis and methods inspired in natural language processing to reveal specific sequence patterns in the linear epitopes deposited in the Immune Epitope Database (www.iedb.org) that can serve as building blocks for the design of universal epitope libraries. Our results reveal that amino acid frequency in annotated linear epitopes differs from that in the human proteome. Aromatic residues are overrepresented, while the presence of cysteines is practically null in epitopes. Byte pair encoding tokenization shows high frequencies of tryptophan in tokens of 5, 6, and 7 amino acids, corroborating the findings of the conventional sequence analysis. These results can be applied to reduce the diversity of linear epitope libraries by orders of magnitude., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356803
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356803
HANDLE: http://hdl.handle.net/10261/356803
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356803
PMID: http://hdl.handle.net/10261/356803
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356803
Ver en: http://hdl.handle.net/10261/356803
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356803
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356808
Dataset. 2024
SUPPLEMENTARY MATERIALS FOR ULTRAFAST UMKLAPP-ASSISTED ELECTRON-PHONON COOLING IN MAGIC-ANGLE TWISTED BILAYER GRAPHENE
- Dudley Mehew, Jake
- Luque Merino, Rafael
- Ishizuka, Hiroaki
- Block, Alexander
- Díez Mérida, Jaime
- Díez Carlón, Andrés
- Watanabe, Kenji
- Taniguchi, Takashi
- Levitov, Leonid S.
- Efetov, Dmitri K.
- Tielrooij, Klaas-Jan
This PDF file includes: Supplementary Text and Figs. S1 to S11., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356808
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356808
HANDLE: http://hdl.handle.net/10261/356808
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356808
PMID: http://hdl.handle.net/10261/356808
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356808
Ver en: http://hdl.handle.net/10261/356808
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356808
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356948
Dataset. 2024
APPENDIX A AND APPENDIX B. SUPPLEMENTARY DATA FOR AUTOMATED ASTRONAUT TRAVERSES WITH MINIMUM METABOLIC WORKLOAD: ACCESSING PERMANENTLY SHADOWED REGIONS NEAR THE LUNAR SOUTH POLE
- Peña-Asensio, Eloy
- Sutherland, Jennifer
- Tripathi, Prateek
- Mason, Kashauna
- Goodwin, Arthur
- Bickel, Valentin T.
- Kring, David A.
Appendix A:
Fig. A1. Example spread of the traverse and descent, as well as a 2D plot with elevation contours, a 3D plot using 2 m/pixel NAC images and 5 m/pixel LOLA DEM, and a histogram of the distance traveled as a function of the slope.
Fig. A2. Example of the tables associated with each traverse with general values calculated, and the 2 m/pixel NAC image and a detailed 2D map of the host crater.
Fig. A3. Example of the tables associated with each PSR optimal descent with general values calculated, and a detailed 2D and 3D image of the host crater., Appendix B. Supplementary data:
Multimedia component 1.
Multimedia component 2.
Multimedia component 3., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356948
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356948
HANDLE: http://hdl.handle.net/10261/356948
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356948
PMID: http://hdl.handle.net/10261/356948
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356948
Ver en: http://hdl.handle.net/10261/356948
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356948
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356967
Dataset. 2024
DATASET COLLECTION OF PROTEOMIC DATA OF THE PAPER "MACROPHAGE PROTEOMIC ANALYSIS OF COVALENT IMMOBILIZATION OF HYALURONIC ACID AND GRAPHENE OXIDE ON COCR ALLOY IN A TRIBOCORROSIVE ENVIRONMENT"
- Sánchez-López, L.
- Chico, B.
- García-Alonso, M. C.
- Lozano, R.M.
In this work, a sequential covalent co-immobilization of graphene oxide (GO) and hyaluronic acid (HA) is performed to obtain a biocompatible wear-resistant nanocoating on the surface of the biomedical grade Cobalt-Chrome (CoCr) alloy. Nanocoated CoCr surfaces were characterized by Raman spectroscopy and electrochemical impedance spectroscopy (EIS) in 3 g/L HA electrolyte. Tribocorrosion tests of the nanocoated CoCr surfaces were carried out in a pin on flat tribometer. The biological response of covalently HA/GO biofunctionalized CoCr surfaces with and without wear-corrosion processes was studied through the analysis of the proteome of macrophages. Raman spectra revealed characteristic bands of GO and HA on the functionalized CoCr surfaces. The electrochemical response by EIS showed a stable and protective behavior over 23 days in the simulated biological environment. HA/GO covalently immobilized on CoCr alloy is able to protect the surface and reduce the wear volume released under tribocorrosion tests. Unsupervised classification analysis of the macrophage proteome via Hierarchical clustering and Principal Component Analysis (PCA) revealed that the covalent functionalization on CoCr enhances the macrophage biocompatibility in vitro. On the other hand, disruption of the HA/GO nanocoating by tribocorrosion processes induced a macrophage proteome which was differently clustered and was distantly located in the PCA space. In addition, tribocorrosion induced an increase in the percentage of upregulated and downregulated proteins in the macrophage proteome, revealing that disruption of the covalent nanocoating impacts the macrophage proteome. Although macrophage inflammation induced by tribocorrosion of HA/GO/CoCr surfaces is observed, it is ameliorated by the covalently grafting of HA, which provides immunomodulation by eliciting downregulations in characteristic pro-inflammatory signaling involved in inflammation and aseptic loosening of CoCr joint arthroplasties. Covalent HA/GO nanocoating on CoCr provides potential applications for in vivo joint prostheses led a reduced metal-induced inflammation and degradation by wear-corrosion in vivo., Proteome Dataset: Macrophage Proteomic Analysis of Covalent Immobilization of Hyaluronic Acid and Graphene Oxide on CoCr Alloy in a Tribocorrosive Environment, Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/356967
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356967
HANDLE: http://hdl.handle.net/10261/356967
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356967
PMID: http://hdl.handle.net/10261/356967
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356967
Ver en: http://hdl.handle.net/10261/356967
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/356967
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357083
Dataset. 2023
THERAPEUTIC POTENTIAL OF PLANT-DERIVED EXTRACELLULAR VESICLES AS NANOCARRIERS FOR EXOGENOUS MIRNAS. SUPPLEMENTARY MATERIALS
- López de las Hazas, María Carmen
- Tomé-Carneiro, Joao
- Pozo-Acebo, Lorena del
- Saz, Andrea del
- Chapado, Luis A.
- Balaguer, Livia
- Rojo, Enrique
- Espín de Gea, Juan Carlos
- Crespo, Carmen
- Moreno, Diego A.
- García-Viguera, Cristina
- Ordovás, José M.
- Visioli, Francesco
- D´Avalos, Alberto
Original Blots Supplementary Figures: Figure S1. miRNAs families and their respective percentages of abundance Figure S2. Survival percentages of HepG2 cells exposed to UC-isolated EVs, either before or after SEC purification, for 24h. Values are means ± SEM (n= 3) Figure S3. Phytochemical analyses of juices, supernatants, and EVs from orange. Chromatograms of Orange fractions Figure S4. Phytochemical analyses of juices, supernatants, and EVs from broccoli. Chromatograms of Broccoli fractions Figure S5. Phytochemical analyses of juices, supernatants, and EVs from pomegranate. Chromatograms of Pomegranate fractions Figure S6. Phytochemical analyses of juices, supernatants, and EVs from apple. Chromatograms of apple fractions, Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/357083
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357083
HANDLE: http://hdl.handle.net/10261/357083
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357083
PMID: http://hdl.handle.net/10261/357083
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357083
Ver en: http://hdl.handle.net/10261/357083
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357083
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357088
Dataset. 2024
RESEARCH DATA SUPPORTING "TAILORING THE STATISTICS OF LIGHT EMITTED FROM TWO INTERACTING QUANTUM EMITTER"
- Adrián Juan-Delgado
- Esteban, Ruben
- Nodar, Álvaro
- Trebbia, Jean-Baptiste
- Lounis, Brahim
- Aizpurua, Javier
The files contain the numerical data of the figures of the article "Tailoring the statistics of light emitted from two interacting quantum emitters" to be published in Physical Review Research, written by A. Juan-Delgado, R. Esteban, A. Nodar, J. B. Trebbia, B. Lounis, and J. Aizpurua. The data files are organized in different folders and subfolders corresponding to each of the figures in the paper, as explained in the README.txt file, Spanish Government Agency of Research MCIN/AEI/10.13039/501100011033 and ”ERDF A way of making Europe” (Grant No. PID2022-139579NB-I00); Department of Education, Research and Universities of the Basque Government (Grant No. IT 1526-22); Spanish Government Agency of Research MCIN/AEI/10.13039/501100011033 and “ESF Investing in your future” (Grant No. PRE2020-095013 ). French National Agency for Research (ANR-22-CE47-0015); Région Nouvelle-Aquitaine; Idex Bordeaux (Research Program GPR Light), the EUR Light S&T (PIA3 Program, ANR-17-EURE- 0027); Laboratory for Transborder Cooperation LTC TRANS-LIGHT from University of Bordeaux and University of the Basque Country., Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/357088, https://doi.org/10.20350/digitalCSIC/16262
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357088
HANDLE: http://hdl.handle.net/10261/357088, https://doi.org/10.20350/digitalCSIC/16262
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357088
PMID: http://hdl.handle.net/10261/357088, https://doi.org/10.20350/digitalCSIC/16262
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357088
Ver en: http://hdl.handle.net/10261/357088, https://doi.org/10.20350/digitalCSIC/16262
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357088
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357144
Dataset. 2024
SUPPORTING INFORMATION: HOMO- AND CROSS-COUPLING OF PHENYLACETYLENES AND Α-HYDROXYACETYLENES CATALYZED BY A SQUARE-PLANAR RHODIUM MONOHYDRIDE
- Heras, Laura A. de las
- Esteruelas, Miguel A.
- Oliván, Montserrat
- Oñate, Enrique
-General information for the Experimental Section, characterization data of the coupling products, structural analysis, computational details, and NMR spectra (PDF)
-Cartesian coordinates of calculated structures (XYZ)
-CIF file of complex 6 (CIF), Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/357144
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357144
HANDLE: http://hdl.handle.net/10261/357144
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357144
PMID: http://hdl.handle.net/10261/357144
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357144
Ver en: http://hdl.handle.net/10261/357144
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357144
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357179
Dataset. 2022
SUPPLEMENTARY MATERIALS FIELD THERMO ACCLIMATION INCREASES THE RESILIENCE OF POSIDONIA OCEANICA SEEDLINGS TO MARINE HEAT WAVES
- Stipcich, Patrizia
- Pansini, Arianna
- Beca-Carretero, Pedro
- Stengel, Dagmar B.
- Ceccherelli, Giulia
7 pages. -- File includes 4 tables, 2 figures, Table S1. PERMANOVA results of the effect of site (cold vs warm) on the lipid content (SFA; MUFA; PUFA; PUFA/SFA; C18:3n3/C16:0; n3/n6; %TFA) of T1 plants on both leaves and seeds.-- Table S2. Morphological variables of P. oceanica at T1 and T2. Results are expressed as mean ± SD.-- Table S3. Total fatty acid content and composition in leaves and seeds of P. oceanica at T1. Results are expressed as mean ± SD.-- Table S4. Total fatty acid content and composition in leaves and seeds of P. oceanica at the end of the experiment (T2). Results are expressed as mean ± SD.-- Fig. S1 Location of the two beaches in the North Sardinia (Monti Russu in green and San Silverio in light green) where the seedlings were collected.-- Fig. S2 Boxplots of the morphological variables at T1. Color blue represents the cold site (unacclimated); red the warm site (acclimated), Peer reviewed
Proyecto: //
DOI: http://hdl.handle.net/10261/357179
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357179
HANDLE: http://hdl.handle.net/10261/357179
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357179
PMID: http://hdl.handle.net/10261/357179
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357179
Ver en: http://hdl.handle.net/10261/357179
Digital.CSIC. Repositorio Institucional del CSIC
oai:digital.csic.es:10261/357179
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