127 results on '"Bartha I"'
Search Results
2. Selective allergy to wedge sole fish (Dicologlossa cuneata) due to Beta Parvalbumin
- Author
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Bartha, I, primary, Ramos, T, additional, Pineda, F, additional, Vega, F, additional, Belver, MT, additional, and Blanco, C, additional
- Published
- 2022
- Full Text
- View/download PDF
3. Broad betacoronavirus neutralization by a stem helix–specific human antibody
- Author
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Pinto, D, Sauer, MM, Czudnochowski, N, Low, JS, Alejandra Tortorici, M, Housley, MP, Noack, J, Walls, AC, Bowen, JE, Guarino, B, Rosen, LE, di Iulio, J, Jerak, J, Kaiser, H, Islam, S, Jaconi, S, Sprugasci, N, Culap, K, Abdelnabi, R, Foo, C, Coelmont, L, Bartha, I, Bianchi, S, Silacci-Fregni, C, Bassi, J, Marzi, R, Vetti, E, Cassotta, A, Ceschi, A, Ferrari, P, Cippà, PE, Giannini, O, Ceruti, S, Garzoni, C, Riva, A, Benigni, F, Cameroni, E, Piccoli, L, Pizzuto, MS, Smithey, M, Hong, D, Telenti, A, Lempp, FA, Neyts, J, Havenar-Daughton, C, Lanzavecchia, A, Sallusto, F, Snell, G, Virgin, HW, Beltramello, M, Corti, D, Veesler, D, Pinto, D, Sauer, MM, Czudnochowski, N, Low, JS, Alejandra Tortorici, M, Housley, MP, Noack, J, Walls, AC, Bowen, JE, Guarino, B, Rosen, LE, di Iulio, J, Jerak, J, Kaiser, H, Islam, S, Jaconi, S, Sprugasci, N, Culap, K, Abdelnabi, R, Foo, C, Coelmont, L, Bartha, I, Bianchi, S, Silacci-Fregni, C, Bassi, J, Marzi, R, Vetti, E, Cassotta, A, Ceschi, A, Ferrari, P, Cippà, PE, Giannini, O, Ceruti, S, Garzoni, C, Riva, A, Benigni, F, Cameroni, E, Piccoli, L, Pizzuto, MS, Smithey, M, Hong, D, Telenti, A, Lempp, FA, Neyts, J, Havenar-Daughton, C, Lanzavecchia, A, Sallusto, F, Snell, G, Virgin, HW, Beltramello, M, Corti, D, and Veesler, D
- Abstract
The spillovers of betacoronaviruses in humans and the emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants highlight the need for broad coronavirus countermeasures. We describe five monoclonal antibodies (mAbs) cross-reacting with the stem helix of multiple betacoronavirus spike glycoproteins isolated from COVID-19 convalescent individuals. Using structural and functional studies, we show that the mAb with the greatest breadth (S2P6) neutralizes pseudotyped viruses from three different subgenera through the inhibition of membrane fusion, and we delineate the molecular basis for its cross-reactivity. S2P6 reduces viral burden in hamsters challenged with SARS-CoV-2 through viral neutralization and Fc-mediated effector functions. Stem helix antibodies are rare, oftentimes of narrow specificity, and can acquire neutralization breadth through somatic mutations. These data provide a framework for structure-guided design of pan-betacoronavirus vaccines eliciting broad protection.
- Published
- 2021
4. Risk assessment and seroprevalence of SARS-CoV-2 infection in healthcare workers of COVID-19 and non-COVID-19 hospitals in Southern Switzerland
- Author
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Piccoli, L, Ferrari, P, Piumatti, G, Jovic, S, Rodriguez, BF, Mele, F, Giacchetto-Sasselli, I, Terrot, T, Silacci-Fregni, C, Cameroni, E, Jaconi, S, Sprugasci, N, Bartha, I, Corti, D, Uguccioni, M, Lanzavecchia, A, Garzoni, C, Giannini, O, Bernasconi, E, Elzi, L, Albanese, E, Sallusto, F, Ceschi, A, Piccoli, L, Ferrari, P, Piumatti, G, Jovic, S, Rodriguez, BF, Mele, F, Giacchetto-Sasselli, I, Terrot, T, Silacci-Fregni, C, Cameroni, E, Jaconi, S, Sprugasci, N, Bartha, I, Corti, D, Uguccioni, M, Lanzavecchia, A, Garzoni, C, Giannini, O, Bernasconi, E, Elzi, L, Albanese, E, Sallusto, F, and Ceschi, A
- Abstract
Background: Hospital healthcare workers (HCW), in particular those involved in the clinical care of COVID-19 cases, are presumably exposed to a higher risk of acquiring the disease than the general population. Methods: Between April 16 and 30, 2020 we conducted a prospective, SARS-CoV-2 seroprevalence study in HCWs in Southern Switzerland. Participants were hospital personnel with varying COVID-19 exposure risk depending on job function and working site. They provided personal information (including age, sex, occupation, and medical history) and self-reported COVID-19 symptoms. Odds ratio (OR) of seropositivity to IgG antibodies was estimated by univariate and multivariate logistic regressions. Findings: Among 4726 participants, IgG antibodies to SARS-CoV-2 were detected in 9.6% of the HCWs. Seropositivity was higher among HCWs working on COVID-19 wards (14.1% (11.9–16.5)) compared to other hospital areas at medium (10.7% (7.6–14.6)) or low risk exposure (7.3% (6.4–8.3)). OR for high vs. medium wards risk exposure was 1.42 (0.91–2.22), P = 0.119, and 1.98 (1.55–2.53), P<0.001 for high vs. low wards risk exposure. The same was for true for doctors and nurses (10.1% (9.0–11.3)) compared to other employees at medium (7.1% (4.8–10.0)) or low risk exposure (6.6% (5.0–8.4)). OR for high vs. medium profession risk exposure was 1.37 (0.89–2.11), P = 0.149, and 1.75 (1.28–2.40), P = 0.001 for high vs. low profession risk exposure. Moreover, seropositivity was higher among HCWs who had household exposure to COVID-19 cases compared to those without (18.7% (15.3–22.5) vs. 7.7% (6.9–8.6), OR 2.80 (2.14–3.67), P<0.001). Interpretation: SARS-CoV-2 antibodies are detectable in up to 10% of HCWs from acute care hospitals in a region with high incidence of COVID-19 in the weeks preceding the study. HCWs with exposure to COVID-19 patients have only a slightly higher absolute risk of seropositivity compared to those without, suggesting that the use of PPE and other measures aiming at r
- Published
- 2021
5. GuavaH: a compendium of host genomic data in HIV biology and disease
- Author
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1. Bartha I McLaren PJ Ciuffi A Fellay J Telenti A
- Abstract
BACKGROUND: There is an ever increasing volume of data on host genes that are modulated during HIV infection influence disease susceptibility or carry genetic variants that impact HIV infection. We created GuavaH (Genomic Utility for Association and Viral Analyses in HIV http://www.GuavaH.org) a public resource that supports multipurpose analysis of genome wide genetic variation and gene expression profile across multiple phenotypes relevant to HIV biology. FINDINGS: We included original data from 8 genome and transcriptome studies addressing viral and host responses in and ex vivo. These studies cover phenotypes such as HIV acquisition plasma viral load disease progression viral replication cycle latency and viral host genome interaction. This represents genome wide association data from more than 4000 individuals exome sequencing data from 392 individuals in vivo transcriptome microarray data from 127 patients/conditions and 60 sets of RNA seq data. Additionally GuavaH allows visualization of protein variation in 8000 individuals from the general population. The publicly available GuavaH framework supports queries on (i) unique single nucleotide polymorphism across different HIV related phenotypes (ii) gene structure and variation (iii) in vivo gene expression in the setting of human infection (CD4+ T cells) and (iv) in vitro gene expression data in models of permissive infection latency and reactivation. CONCLUSIONS: The complexity of the analysis of host genetic influences on HIV biology and pathogenesis calls for comprehensive motors of research on curated data. The tool developed here allows queries and supports validation of the rapidly growing body of host genomic information pertinent to HIV research.
- Published
- 2014
6. On the Hydraulics of Corrugated PVC Drains with Different Clogging Degrees
- Author
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Cojocaru, I., Blidaru, V., Bartha, I., Leibu, H., Nicolau, A., Smith, K. V. H., editor, and Rycroft, D. W., editor
- Published
- 1986
- Full Text
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7. A39 Human exome sequencing to evaluate the impact of rare coding variation on HIV-1 control
- Author
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McLaren, P.J., primary, Shea, P.R., additional, Bartha, I., additional, and Fellay, J., additional
- Published
- 2017
- Full Text
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8. Genome-To-Genome Virus-Host Analysis Reveals HCV Genotype 3 Viral Polymorphisms Linked Viral Load and to Host HLA Class-I/II and IL28B Alleles
- Author
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Azim Ansari, M., primary, Pedergnana, V., additional, Bonsall, D., additional, Chaturvedi, N., additional, Bartha, I., additional, Fellay, J., additional, Smith, D., additional, Bowden, R., additional, Ip, C., additional, Trebes, A., additional, Piazza, P., additional, Foster, G., additional, Cooke, G., additional, Klenerman, P., additional, Barnes, E., additional, and Spencer, C., additional
- Published
- 2016
- Full Text
- View/download PDF
9. Genomic Analyses of Host-Pathogen Interactions in Chronic Hepatitis B Virus Infection
- Author
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Chaturvedi, N., primary, Bartha, I., additional, Kitrinos, K., additional, Gaggar, A., additional, Ge, D., additional, Subramanian, M., additional, Goldstein, D., additional, Revill, P., additional, Thompson, A., additional, and Fellay, J., additional
- Published
- 2016
- Full Text
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10. Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load
- Author
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McLaren, P.J., Coulonges, C., Bartha, I., Lenz, T.L., Deutsch, A.J., Bashirova, A., Buchbinder, S., Carrington, M.N., Cossarizza, A., Dalmau, J., De Luca, A., Goedert, J.J., Gurdasani, D., Haas, D.W., Herbeck, J.T., Johnson, E.O., Kirk, G.D., Lambotte, O., Luo, M., Mallal, S., van Manen, D., Martinez-Picado, J., Meyer, L., Miro, J.M., Mullins, J.I., Obel, N., Poli, G., Sandhu, M.S., Schuitemaker, H., Shea, P.R., Theodorou, I., Walker, B.D., Weintrob, A.C., Winkler, C.A., Wolinsky, S.M., Raychaudhuri, S., Goldstein, D.B., Telenti, A., de Bakker, P.I.W., Zagury, J-F, Fellay, J., McLaren, P.J., Coulonges, C., Bartha, I., Lenz, T.L., Deutsch, A.J., Bashirova, A., Buchbinder, S., Carrington, M.N., Cossarizza, A., Dalmau, J., De Luca, A., Goedert, J.J., Gurdasani, D., Haas, D.W., Herbeck, J.T., Johnson, E.O., Kirk, G.D., Lambotte, O., Luo, M., Mallal, S., van Manen, D., Martinez-Picado, J., Meyer, L., Miro, J.M., Mullins, J.I., Obel, N., Poli, G., Sandhu, M.S., Schuitemaker, H., Shea, P.R., Theodorou, I., Walker, B.D., Weintrob, A.C., Winkler, C.A., Wolinsky, S.M., Raychaudhuri, S., Goldstein, D.B., Telenti, A., de Bakker, P.I.W., Zagury, J-F, and Fellay, J.
- Abstract
Previous genome-wide association studies (GWAS) of HIV-1–infected populations have been underpowered to detect common variants with moderate impact on disease outcome and have not assessed the phenotypic variance explained by genome-wide additive effects. By combining the majority of available genome-wide genotyping data in HIV-infected populations, we tested for association between ∼8 million variants and viral load (HIV RNA copies per milliliter of plasma) in 6,315 individuals of European ancestry. The strongest signal of association was observed in the HLA class I region that was fully explained by independent effects mapping to five variable amino acid positions in the peptide binding grooves of the HLA-B and HLA-A proteins. We observed a second genome-wide significant association signal in the chemokine (C-C motif) receptor (CCR) gene cluster on chromosome 3. Conditional analysis showed that this signal could not be fully attributed to the known protective CCR5Δ32 allele and the risk P1 haplotype, suggesting further causal variants in this region. Heritability analysis demonstrated that common human genetic variation—mostly in the HLA and CCR5 regions—explains 25% of the variability in viral load. This study suggests that analyses in non-European populations and of variant classes not assessed by GWAS should be priorities for the field going forward.
- Published
- 2015
11. Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load
- Author
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McLaren, PJ, Coulonges, C, Bartha, I, Lenz, TL, Deutsch, AJ, Bashirova, A, Buchbinder, S, Carrington, MN, Cossarizza, A, Dalmau, J, DE LUCA, ANDREA, Goedert, JJ, Gurdasani, D, Haas, DW, Herbeck, JT, Johnson, EO, Kirk, GD, Lambotte, O, Luo, M, Mallal, S, van Manen, D, Martinez-Picado, J, Meyer, L, Miro, JM, Mullins, JI, Obel, N, Poli, G, Sandhu, MS, Schuitemaker, H, Shea, PR, Theodorou, I, Walker, BD, Weintrob, AC, Winkler, CA, Wolinsky, SM, Raychaudhuri, S, Goldstein, DB, Telenti, A, de Bakker, PIW, Zagury, J, Fellay, J, McLaren, PJ, Coulonges, C, Bartha, I, Lenz, TL, Deutsch, AJ, Bashirova, A, Buchbinder, S, Carrington, MN, Cossarizza, A, Dalmau, J, DE LUCA, ANDREA, Goedert, JJ, Gurdasani, D, Haas, DW, Herbeck, JT, Johnson, EO, Kirk, GD, Lambotte, O, Luo, M, Mallal, S, van Manen, D, Martinez-Picado, J, Meyer, L, Miro, JM, Mullins, JI, Obel, N, Poli, G, Sandhu, MS, Schuitemaker, H, Shea, PR, Theodorou, I, Walker, BD, Weintrob, AC, Winkler, CA, Wolinsky, SM, Raychaudhuri, S, Goldstein, DB, Telenti, A, de Bakker, PIW, Zagury, J, and Fellay, J
- Published
- 2015
12. Solid-state methane generation
- Author
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Molnar, L. and Bartha, I.
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- 1988
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13. Superinfection with drug-resistant HIV is rare and does not contribute substantially to therapy failure in a large European cohort
- Author
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Bartha, I. (István), Assel, M. (Matthias), Sloot, P.M.A. (Peter), Zazzi, M. (Maurizio), Torti, C. (Carlo), Schülter, E. (E.), Luca, A. (Angelo), Sonnerborg, A. (Anders), Abecasis, A.B. (Ana), Laethem, K. (Kristel) van, Rosi, A. (Andrea), Svärd, J. (Jenny), Paredes, R. (Roger), Vijver, D.A.M.C. (David) van de, Vandamme, A.M. (Anne Mieke), Müller, V., Bartha, I. (István), Assel, M. (Matthias), Sloot, P.M.A. (Peter), Zazzi, M. (Maurizio), Torti, C. (Carlo), Schülter, E. (E.), Luca, A. (Angelo), Sonnerborg, A. (Anders), Abecasis, A.B. (Ana), Laethem, K. (Kristel) van, Rosi, A. (Andrea), Svärd, J. (Jenny), Paredes, R. (Roger), Vijver, D.A.M.C. (David) van de, Vandamme, A.M. (Anne Mieke), and Müller, V.
- Abstract
Background: Superinfection with drug resistant HIV strains could potentially contribute to compromised therapy in patients initially infected with drug-sensitive virus and receiving antiretroviral therapy. To investigate the importance of this potential route to drug resistance, we developed a bioinformatics pipeline to detect superinfection from routinely collected genotyping data, and assessed whether superinfection contributed to increased drug resistance in a large European cohort of viremic, drug treated patients. Methods: We used sequence data from routine genotypic tests spanning the protease and partial reverse transcriptase regions in the Virolab and EuResist databases that collated data from five European countries. Superinfection was indicated when sequences of a patient failed to cluster together in phylogenetic trees constructed with selected sets of control sequences. A subset of the indicated cases was validated by re-sequencing pol and env regions from the original samples. Results: 4425 patients had at least two sequences in the database, with a total of 13816 distinct sequence entries (of which 86% belonged to subtype B). We identified 107 patients with phylogenetic evidence for superinfection. In 14 of these cases, we analyzed newly amplified sequences from the original samples for validation purposes: only 2 cases were verified as superinfections in the repeated analyses, the other 12 cases turned out to involve sample or sequence misidentification. Resistance to drugs used at the time of strain replacement did not change in these two patients. A third case could not be validated by re-sequencing, but was supported as superinfection by an intermediate sequence with high degenerate base pair count within the t
- Published
- 2013
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14. A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
- Author
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Bartha, I., Carlson, J.M., Brumme, C.J., McLaren, P.J., Brumme, Z.L., John, M., Haas, D.W., Martinez-Picado, J., Dalmau, J., Lopez-Galindez, C., Casado, C., Rauch, A., Günthard, H.F., Bernasconi, E., Vernazza, P., Klimkait, T., Yerly, S., O'Brien, S.J., Listgarten, J., Pfeifer, N., Lippert, C., Fusi, N., Kutalik, Z., Allen, T.M., Muller, V., Harrigan, P.R., Heckerman, D., Telenti, A., Fellay, J., Bartha, I., Carlson, J.M., Brumme, C.J., McLaren, P.J., Brumme, Z.L., John, M., Haas, D.W., Martinez-Picado, J., Dalmau, J., Lopez-Galindez, C., Casado, C., Rauch, A., Günthard, H.F., Bernasconi, E., Vernazza, P., Klimkait, T., Yerly, S., O'Brien, S.J., Listgarten, J., Pfeifer, N., Lippert, C., Fusi, N., Kutalik, Z., Allen, T.M., Muller, V., Harrigan, P.R., Heckerman, D., Telenti, A., and Fellay, J.
- Abstract
HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host DNA polymorphisms, HIV-1 sequence variation and plasma viral load (VL), while considering human and viral population structure. We observed significant human SNP associations to a total of 48 HIV-1 amino acid variants (p<2.4 × 10−12). All associated SNPs mapped to the HLA class I region. Clinical relevance of host and pathogen variation was assessed using VL results. We identified two critical advantages to the use of viral variation for identifying host factors: (1) association signals are much stronger for HIV-1 sequence variants than VL, reflecting the ‘intermediate phenotype’ nature of viral variation; (2) association testing can be run without any clinical data. The proposed genome-to-genome approach highlights sites of genomic conflict and is a strategy generally applicable to studies of host–pathogen interaction.
- Published
- 2013
15. Superinfection with drug-resistant HIV is rare and does not contribute substantially to therapy failure in a large European cohort
- Author
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Bartha, I, Assel, M, Sloot, PMA, Zazzi, M, Torti, C, Schulter, E, Luca, A, Sonnerborg, A, Abecasis, AB, Van Laethem, K, Rosi, A, Svard, J, Paredes, R, van de Vijver, David, Vandamme, AM, Muller, V, Bartha, I, Assel, M, Sloot, PMA, Zazzi, M, Torti, C, Schulter, E, Luca, A, Sonnerborg, A, Abecasis, AB, Van Laethem, K, Rosi, A, Svard, J, Paredes, R, van de Vijver, David, Vandamme, AM, and Muller, V
- Abstract
Background: Superinfection with drug resistant HIV strains could potentially contribute to compromised therapy in patients initially infected with drug-sensitive virus and receiving antiretroviral therapy. To investigate the importance of this potential route to drug resistance, we developed a bioinformatics pipeline to detect superinfection from routinely collected genotyping data, and assessed whether superinfection contributed to increased drug resistance in a large European cohort of viremic, drug treated patients. Methods: We used sequence data from routine genotypic tests spanning the protease and partial reverse transcriptase regions in the Virolab and EuResist databases that collated data from five European countries. Superinfection was indicated when sequences of a patient failed to cluster together in phylogenetic trees constructed with selected sets of control sequences. A subset of the indicated cases was validated by re-sequencing pol and env regions from the original samples. Results: 4425 patients had at least two sequences in the database, with a total of 13816 distinct sequence entries (of which 86% belonged to subtype B). We identified 107 patients with phylogenetic evidence for superinfection. In 14 of these cases, we analyzed newly amplified sequences from the original samples for validation purposes: only 2 cases were verified as superinfections in the repeated analyses, the other 12 cases turned out to involve sample or sequence misidentification. Resistance Conclusions: Routine genotyping data are informative for the detection of HIV superinfection; however, most cases of non-monophyletic clustering in patient phylogenies arise from sample or sequence mix-up rather than from superinfection, which emphasizes the importance of validation. Non-transient superinfection was rare in our mainly treatment experienced cohort, and we found a single case of possible transmitted drug resistance by this route. We therefore conclude that in our large cohort
- Published
- 2013
16. Analysis of stop-gain and frameshift variants in human innate immunity genes
- Author
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Rausell A Mohammadi P McLaren PJ Bartha I Xenarios I Fellay J Telenti A
- Abstract
Loss of function variants in innate immunity genes are associated with Mendelian disorders in the form of primary immunodeficiencies. Recent resequencing projects report that stop gains and frameshifts are collectively prevalent in humans and could be responsible for some of the inter individual variability in innate immune response. Current computational approaches evaluating loss of function in genes carrying these variants rely on gene level characteristics such as evolutionary conservation and functional redundancy across the genome. However innate immunity genes represent a particular case because they are more likely to be under positive selection and duplicated. To create a ranking of severity that would be applicable to innate immunity genes we evaluated 17764 stop gain and 13915 frameshift variants from the NHLBI Exome Sequencing Project and 1000 Genomes Project. Sequence based features such as loss of functional domains isoform specific truncation and nonsense mediated decay were found to correlate with variant allele frequency and validated with gene expression data. We integrated these features in a Bayesian classification scheme and benchmarked its use in predicting pathogenic variants against Online Mendelian Inheritance in Man (OMIM) disease stop gains and frameshifts. The classification scheme was applied in the assessment of 335 stop gains and 236 frameshifts affecting 227 interferon stimulated genes. The sequence based score ranks variants in innate immunity genes according to their potential to cause disease and complements existing gene based pathogenicity scores. Specifically the sequence based score improves measurement of functional gene impairment discriminates across different variants in a given gene and appears particularly useful for analysis of less conserved genes.
- Published
- 2014
17. THU-262 - Genome-To-Genome Virus-Host Analysis Reveals HCV Genotype 3 Viral Polymorphisms Linked Viral Load and to Host HLA Class-I/II and IL28B Alleles
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Azim Ansari, M., Pedergnana, V., Bonsall, D., Chaturvedi, N., Bartha, I., Fellay, J., Smith, D., Bowden, R., Ip, C., Trebes, A., Piazza, P., Foster, G., Cooke, G., Klenerman, P., Barnes, E., and Spencer, C.
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- 2016
- Full Text
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18. THU-200 - Genomic Analyses of Host-Pathogen Interactions in Chronic Hepatitis B Virus Infection
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Chaturvedi, N., Bartha, I., Kitrinos, K., Gaggar, A., Ge, D., Subramanian, M., Goldstein, D., Revill, P., Thompson, A., and Fellay, J.
- Published
- 2016
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19. Joint analysis of host and pathogen genomes
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Bartha, I., primary, Telenti, A., additional, Muller, V., additional, and Fellay, J., additional
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- 2011
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20. Development of a decision procedure for forecasting maximum wind gusts associated with thunderstorms
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Bartha, I, primary
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- 2007
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21. Surgical strategy in massive colorectal bleeding
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Bartha, I., primary, Danya, T., additional, and Nemeth, A., additional
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- 2004
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22. Pseudoaneurysm and ilio-caval fistula caused by malignant fibrous histiocytoma of the aorta--CT diagnosis and angiographic confirmation.
- Author
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Szucs-Farkas, Zsolt, Toth, Judit, Szollosi, Zoltan, Peter, Mozes, and Bartha, I
- Subjects
FISTULA ,DERMATOFIBROMA ,ANGIOGRAPHY ,MEDICAL radiography ,ARTERIOGRAPHY ,VENOGRAPHY - Abstract
We report a case of a malignant fibrous histiocytoma (MFH) of the aortic bifurcation, which manifested as a pseudoaneurysm with the formation of an ilio-caval fistula, a complication about which, to our knowledge, nothing has been published previously. Spiral CT, catheter arteriography and venography were complementary in the diagnostic procedure. [ABSTRACT FROM AUTHOR]
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- 2002
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23. Development of a decision procedure for forecasting maximum wind gusts associated with thunderstorms.
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Bartha, I
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- 1994
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24. The human noncoding genome defined by genetic diversity
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di Iulio, J, Bartha, I, Wong, EHM, Yu, HC, Lavrenko, V, Yang, DC, Jung, I, Hicks, MA, Shah, N, Kirkness, EF, Fabani, MM, Biggs, WH, Ren, B, Venter, JC, and Telenti, A
25. Exome Sequencing Reveals Primary Immunodeficiencies in Children with Community-Acquired Pseudomonas aeruginosa Sepsis
- Author
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Asgari S, Pj, Mclaren, Peake J, Wong M, Wong R, Bartha I, Jr, Francis, Abarca K, Ka, Gelderman, Agyeman P, Aebi C, Berger C, Jacques Fellay, Lj, Schlapbach, and Swiss Pediatric Sepsis Study
26. A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
- Author
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Bartha, I., Carlson, J. M., Brumme, C. J., McLaren, P. J., Brumme, Z. L., John, M., Haas, D. W., Martinez-Picado, J., Dalmau, J., Lopez-Galindez, C., Casado, C., Rauch, Andri, Gunthard, H. F., Bernasconi, E., Vernazza, P., Klimkait, T., Yerly, S., O'Brien, S. J., Listgarten, J., Pfeifer, N., Lippert, C., Fusi, N., Kutalik, Z., Allen, T. M., Muller, V., Harrigan, P. R., Heckerman, D., Telenti, A., and Fellay, J.
- Subjects
610 Medicine & health ,3. Good health - Abstract
HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host DNA polymorphisms, HIV-1 sequence variation and plasma viral load (VL), while considering human and viral population structure. We observed significant human SNP associations to a total of 48 HIV-1 amino acid variants (p
27. A computer-aided system for organic functional group determinations
- Author
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Farkas, M., primary, Markos, J., additional, Szepesváry, P., additional, Bartha, I., additional, Szalontai, G., additional, and Simon, Z., additional
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- 1981
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28. Factors influencing solid-state anaerobic digestion
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Molnar, L., primary and Bartha, I., additional
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- 1989
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29. High solids anaerobic fermentation for biogas and compost production
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Molnar, L., primary and Bartha, I., additional
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- 1988
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30. DECREASE OF COOLING ENERGY USE OF BUILDINGS
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Bartha István
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Technology ,Mechanical engineering and machinery ,TJ1-1570 - Published
- 2011
31. EFFECT OF A FOUR-WAY ROTATING DEVICE TO THE ELECTRIC ENERGY PRODUCTION WITH SOLAR CELL
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Bartha István, Tóth Dr. János, and Husi Dr. Géza
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Technology ,Mechanical engineering and machinery ,TJ1-1570 - Published
- 2011
32. Mapping of positive selection sites in the HIV-1 genome in the context of RNA and protein structural constraints
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Snoeck Joke, Fellay Jacques, Bartha István, Douek Daniel C, and Telenti Amalio
- Subjects
HIV ,evolution ,positive selection ,RNA structure ,Immunologic diseases. Allergy ,RC581-607 - Abstract
Abstract Background The HIV-1 genome is subject to pressures that target the virus resulting in escape and adaptation. On the other hand, there is a requirement for sequence conservation because of functional and structural constraints. Mapping the sites of selective pressure and conservation on the viral genome generates a reference for understanding the limits to viral escape, and can serve as a template for the discovery of sites of genetic conflict with known or unknown host proteins. Results To build a thorough evolutionary, functional and structural map of the HIV-1 genome, complete subtype B sequences were obtained from the Los Alamos database. We mapped sites under positive selective pressure, amino acid conservation, protein and RNA structure, overlapping coding frames, CD8 T cell, CD4 T cell and antibody epitopes, and sites enriched in AG and AA dinucleotide motives. Globally, 33% of amino acid positions were found to be variable and 12% of the genome was under positive selection. Because interrelated constraining and diversifying forces shape the viral genome, we included the variables from both classes of pressure in a multivariate model to predict conservation or positive selection: structured RNA and α-helix domains independently predicted conservation while CD4 T cell and antibody epitopes were associated with positive selection. Conclusions The global map of the viral genome contains positive selected sites that are not in canonical CD8 T cell, CD4 T cell or antibody epitopes; thus, it identifies a class of residues that may be targeted by other host selective pressures. Overall, RNA structure represents the strongest determinant of HIV-1 conservation. These data can inform the combined analysis of host and viral genetic information.
- Published
- 2011
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33. High solids anaerobic fermentation for biogas and compost production
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Bartha, I. and Molnar, L.
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- *
COMPOSTING , *BIOGAS production - Published
- 1988
34. Factors influencing solid-state anaerobic digestion
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Bartha, I. and Molnar, L.
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- *
TEMPERATURE effect , *BIOGAS production - Published
- 1989
35. PROLONGED SURVIVAL TIME AFTER SYSTEMIC FLUOROURACIL THERAPY vs. NO TREATMENT OF PATIENTS WITH LIVER METASTASES OF COLORECTAL ADENOCARCINOMA.
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Hajdú, J., Bartha, I., Kertész, E., Kanyári, Zs., Bokor, L., Németh, A., and Damanovich, L.
- Published
- 1993
36. Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load
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Andrea De Luca, Aaron J. Deutsch, Deepti Gurdasani, David W. Haas, Jean-François Zagury, Susan Buchbinder, Simon Mallal, Manjinder S. Sandhu, Steven M. Wolinsky, Cédric Coulonges, Laurence Meyer, Paul I.W. de Bakker, James I. Mullins, Daniëlle van Manen, Andrea Cossarizza, José M. Miró, Amy C. Weintrob, Tobias L. Lenz, Judith Dalmau, Olivier Lambotte, Niels Obel, James J. Goedert, Mary Carrington, Ma Luo, Arman Bashirova, David Goldstein, Gregory D. Kirk, Joshua T. Herbeck, Amalio Telenti, Paul J. McLaren, Patrick R. Shea, Javier Martinez-Picado, Cheryl A. Winkler, Bruce D. Walker, Istvan Bartha, Jacques Fellay, Ioannis Theodorou, Hanneke Schuitemaker, Guido Poli, Eric O. Johnson, Soumya Raychaudhuri, Other departments, AII - Amsterdam institute for Infection and Immunity, Experimental Immunology, Mclaren, Pj, Coulonges, C, Bartha, I, Lenz, Tl, Deutsch, Aj, Bashirova, A, Buchbinder, S, Carrington, Mn, Cossarizza, A, Dalmau, J, De Luca, A, Goedert, Jj, Gurdasani, D, Haas, Dw, Herbeck, Jt, Johnson, Eo, Kirk, Gd, Lambotte, O, Luo, M, Mallal, S, van Manen, D, Martinez Picado, J, Meyer, L, Miro, Jm, Mullins, Ji, Obel, N, Poli, Guido, Sandhu, M, Schuitemaker, H, Shea, Pr, Theodorou, I, Walker, Bd, Weintrob, Ac, Winkler, Ca, Wolinsky, Sm, Raychaudhuri, S, Goldstein, Db, Telenti, A, de Bakker, Pi, Zagury, Jf, and Fellay, J.
- Subjects
Adult ,Receptors, CCR5 ,infectious disease ,Inheritance Patterns ,Genome-wide association study ,Peptide binding ,Human leukocyte antigen ,Biology ,heritability ,Research Support ,Settore MED/17 - MALATTIE INFETTIVE ,Polymorphism, Single Nucleotide ,Genomics ,GWAS ,Heritability ,HIV-1 control ,Infectious disease ,Journal Article ,genomics ,Humans ,Genetic Predisposition to Disease ,Allele ,Amino Acids ,Non-U.S. Gov't ,Genotyping ,Alleles ,Genetic association ,Genetics ,Multidisciplinary ,Research Support, Non-U.S. Gov't ,Haplotype ,Viral Load ,Biological Sciences ,Physical Chromosome Mapping ,HLA-B Antigens ,Host-Pathogen Interactions ,HIV-1 ,Chromosomes, Human, Pair 3 ,Viral load ,Genome-Wide Association Study - Abstract
Previous genome-wide association studies (GWAS) of HIV-1-infected populations have been underpowered to detect common variants with moderate impact on disease outcome and have not assessed the phenotypic variance explained by genome-wide additive effects. By combining the majority of available genome-wide genotyping data in HIV-infected populations, we tested for association between similar to 8 million variants and viral load (HIV RNA copies per milliliter of plasma) in 6,315 individuals of European ancestry. The strongest signal of association was observed in the HLA class I region that was fully explained by independent effects mapping to five variable amino acid positions in the peptide binding grooves of the HLA-B and HLA-A proteins. We observed a second genome-wide significant association signal in the chemokine (C-C motif) receptor (CCR) gene cluster on chromosome 3. Conditional analysis showed that this signal could not be fully attributed to the known protective CCR5 Delta 32 allele and the risk P1 haplotype, suggesting further causal variants in this region. Heritability analysis demonstrated that common human genetic variation-mostly in the HLA and CCR5 regions-explains 25% of the variability in viral load. This study suggests that analyses in non-European populations and of variant classes not assessed by GWAS should be priorities for the field going forward.
- Published
- 2015
37. Discovery of Potent STT3A/B Inhibitors and Assessment of Their Multipathogen Antiviral Potential and Safety.
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Pero JE, Mueller EA, Adams AM, Adolph RS, Bagchi P, Balce D, Bantscheff M, Barauskas O, Bartha I, Bohan D, Cai H, Carabajal E, Cassidy J, Cato M, Chaudhary KW, Chen D, Chen YP, Colas C, Darwech I, Eberl HC, Fernandez B, Gordon E, Grosse J, Hansen J, Hetzler B, Hwang S, Jeyasingh S, Kowalski B, Lehmann S, Lo G, McAllaster M, McHugh C, Momont C, Newby Z, Nigro M, Oladunni F, Pannirselvam M, Park A, Pearson N, Peat AJ, Plastridge B, Ranjan R, Safabakhsh P, Shapiro ND, Soriaga L, Stokes N, Sweeney D, Talecki L, Telenti A, Terrell A, Tse W, Wang L, Wang S, Wedel L, Werner T, Dalmas Wilk D, Yim S, and Zhou J
- Subjects
- Humans, Animals, Drug Discovery, COVID-19 Drug Treatment, Glycosylation, Rats, Hexosyltransferases, Antiviral Agents pharmacology, Antiviral Agents chemistry, SARS-CoV-2 drug effects, Membrane Proteins antagonists & inhibitors, Membrane Proteins metabolism, Sialyltransferases antagonists & inhibitors, Sialyltransferases metabolism
- Abstract
In the aftermath of the COVID-19 pandemic, opportunities to modulate biological pathways common to the lifecycles of viruses need to be carefully considered. N -linked glycosylation in humans is mediated exclusively by the oligosaccharyltransferase complex and is frequently hijacked by viruses to facilitate infection. As such, STT3A/B, the catalytic domain of the OST complex, became an intriguing drug target with broad-spectrum antiviral potential. However, due to the critical role N -linked glycosylation plays in a number of fundamental human processes, the toxicological ramifications of STT3A/B inhibition required attention commensurate to that given to antiviral efficacy. Herein, we describe how known STT3A/B inhibitor NGI-1 inspired the discovery of superior tool compounds which were evaluated in in vitro efficacy and translational safety (e.g., CNS, cardiovascular, liver) studies. The described learnings will appeal to those interested in the therapeutic utility of modulating N -linked glycosylation as well as the broader scientific community.
- Published
- 2024
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38. Skin as the target for allergy prevention and treatment.
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Marques-Mejias A, Bartha I, Ciaccio CE, Chinthrajah RS, Chan S, Hershey GKK, Hui-Beckman JW, Kost L, Lack G, Layhadi JA, Leung DYM, Marshall HF, Nadeau KC, Radulovic S, Rajcoomar R, Shamji MH, Sindher S, and Brough HA
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- Humans, Food Hypersensitivity prevention & control, Food Hypersensitivity immunology, Animals, Probiotics therapeutic use, Allergens immunology, Filaggrin Proteins, Skin immunology, Skin pathology, Skin drug effects, Dermatitis, Atopic prevention & control, Dermatitis, Atopic immunology, Dermatitis, Atopic therapy
- Abstract
The fact that genetic and environmental factors could trigger disruption of the epithelial barrier and subsequently initiate a T
H 2 inflammatory cascade conversely proposes that protecting the same barrier and promoting adequate interactions with other organs, such as the gut, may be crucial for lowering the risk and preventing atopic diseases, particularly, food allergies. In this review, we provide an overview of structural characteristics that support the epithelial barrier hypothesis in patients with atopic dermatitis, including the most relevant filaggrin gene mutations, the recent discovery of the role of the transient receptor potential vanilloid 1, and the role involvement of the microbiome in healthy and damaged skin. We present experimental and human studies that support the mechanisms of allergen penetration, particularly the dual allergen exposure and the outside-in, inside-out, and outside-inside-outside hypotheses. We discuss classic skin-targeted therapies for food allergy prevention, including moisturizers, steroids, and topical calcineurin inhibitors, along with pioneering trials proposed to change their current use (Prevention of Allergy via Cutaneous Intervention and Stopping Eczema and ALlergy). We provide an overview of the novel therapies that enhance the skin barrier, such as probiotics and prebiotics topical application, read-through drugs, direct and indirect FLG replacement, and interleukin and janus kinases inhibitors. Last, we discuss the newer strategies for preventing and treating food allergies in the form of epicutaneous immunotherapy and the experimental use of single-dose of adeno-associated virus vector gene immunotherapy., Competing Interests: Disclosures Dr Ciaccio receives research grant support from the National Institutes of Health (NIH), Food Allergy Research & Education (FARE), and Paul and Mary Yovovich and has served as a medical consultant/advisor for Genentech, Novartis, Siolta, Clostrabio, and FARE. Dr Chinthrajah reports receiving grants from National Institute of Allergy and Infectious Diseases (NIAID), CoFAR, Regeneron, Stanford Maternal and Child Health Research Institute, and FARE and is an advisory board member at Alladapt Therapeutics, Novartis, Genentech, Allergenis, Intrommune Therapeutics, and IgGenix. Dr Chan reports receiving grant from NIAID and NIH. Prof Leung reports receiving grants from Genentech, Incyte Corporation, and Sanofi-Genzyme; nonfinancial support from Aslan Pharmaceuticals; and personal fees from Leo Pharmaceuticals. Dr Marshall reports receiving research grant support from NIH. Prof Nadeau reports receiving grants from NIAID; National Heart, Lung, and Blood Institute (NHLBI); National Institute of Environmental Health Sciences (NIEHS); and FARE; receiving stock options from IgGenix, Seed Health, ClostraBio, Cour, and Alladapt; serving as an advisor at Cour Pharma; serving as a consultant for Excellergy, Red tree ventures, Before Brands, Alladapt, Cour, Latitude, Regeneron, and IgGenix; serving as a co-founder of Before Brands, Alladapt, Latitude, and IgGenix; serving as National Scientific Committee member at Immune Tolerance Network (ITN) and NIH clinical research centers; and having patents including, “Mixed allergen composition and methods for using the same,” “Granulocyte-based methods for detecting and monitoring immune system disorders,” and “Methods and Assays for Detecting and Quantifying Pure Subpopulations of White Blood Cells in Immune System Disorders.” Dr Radulovic reports receiving grant from NIAID and NIH. Prof Lack reports receiving grant from NIAID/NIH; having personal fees and stock options from DBV Technologies; having stock options from Mission MightyMe; and serving as a scientific consultant/advisor for Novartis, Sanofi-Genzyme, Regeneron, ALK-Abello, Reckitt Mead Johnson, and Lurie Children's Hospital. Dr Sindher receives research grant support from NIH, FARE, CoFAR, DBV, AIMMUNE, and Regeneron and has served as an advisor for Genentech. Prof Brough reports receiving grant from NIAID and NIH and receiving speaker honoraria from DBV Technologies, GlaxoSmithKline, and Sanofi. The remaining authors have no conflicts of interest to report., (Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved.)- Published
- 2024
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39. Adolescents and Vaping: The Essentials.
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Hernández-Suárez HR, Bartha I, Lasa-Luaces E, Rodríguez-Álvarez M, and Garriga-Baraut T
- Published
- 2024
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40. Follow-up to Adolescence after Early Peanut Introduction for Allergy Prevention.
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Du Toit G, Huffaker MF, Radulovic S, Feeney M, Fisher HR, Byron M, Dunaway L, Calatroni A, Johnson M, Foong RX, Marques-Mejias A, Bartha I, Basting M, Brough HA, Baloh C, Laidlaw TM, Bahnson HT, Roberts G, Plaut M, Wheatley LM, and Lack G
- Subjects
- Humans, Follow-Up Studies, Female, Male, Child, Preschool, Infant, Adolescent, Immunoglobulin E blood, Immunoglobulin E immunology, Child, Immune Tolerance, Peanut Hypersensitivity prevention & control, Peanut Hypersensitivity immunology, Peanut Hypersensitivity epidemiology, Arachis immunology
- Abstract
Background: A randomized trial demonstrated consumption of peanut from infancy to age 5 years prevented the development of peanut allergy. An extension of that trial demonstrated the effect persisted after 1 year of peanut avoidance. This follow-up trial examined the durability of peanut tolerance at age 144 months after years of ad libitum peanut consumption., Methods: Participants from a randomized peanut consumption trial were assessed for peanut allergy following an extended period of eating or avoiding peanuts as desired. The primary end point was the rate of peanut allergy at age 144 months., Results: We enrolled 508 of the original 640 participants (79.4%); 497 had complete primary end point data. At age 144 months, peanut allergy remained significantly more prevalent in participants in the original peanut avoidance group than in the original peanut consumption group (15.4% [38 of 246 participants] vs. 4.4% [11 of 251 participants]; P<0.001). Participants in both groups reported avoiding peanuts for prolonged periods of time between 72 and 144 months. Participants at 144 months in the peanut consumption group had levels of Ara h2-specific immunoglobulin E (a peanut allergen associated with anaphylaxis) of 0.03 ± 3.42 kU/l and levels of peanut-specific immunoglobulin G4 of 535.5 ± 4.98 μg/l, whereas participants in the peanut avoidance group had levels of Ara h2-specific immunoglobulin E of 0.06 ± 11.21 kU/l and levels of peanut-specific immunoglobulin G4 of 209.3 ± 3.84 μg/l. Adverse events were uncommon, and the majority were related to the food challenge., Conclusions: Peanut consumption, starting in infancy and continuing to age 5 years, provided lasting tolerance to peanut into adolescence irrespective of subsequent peanut consumption, demonstrating that long-term prevention and tolerance can be achieved in food allergy. (Funded by the National Institute of Allergy and Infectious Diseases and others; ITN070AD, ClinicalTrials.gov number, NCT03546413.).
- Published
- 2024
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41. Feast for thought: A comprehensive review of food allergy 2021-2023.
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Bartha I, Almulhem N, and Santos AF
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- Child, Adult, Humans, Allergens, Skin Tests, Basophil Degranulation Test, Immunoglobulin E therapeutic use, Food Hypersensitivity epidemiology, Food Hypersensitivity therapy, Food Hypersensitivity diagnosis
- Abstract
A review of the latest publications in food allergy over the past couple of years confirmed that food allergy is a major public health concern, affecting about 8% of children and 10% of adults in developed countries. The prevalence of food allergy varies around the world, with the increase being driven mainly by environmental factors, possibly together with genetic susceptibility to environmental changes. A precise diagnosis of food allergy is extremely important. Both new tests (eg, the basophil activation test) and improved optimization of information provided by existing tests (eg, the skin prick test and measurement of specific IgE level) can contribute to improving the accuracy and patients' comfort of food allergy diagnosis. Understanding the underlying immune mechanisms is fundamental to designing allergen-specific treatments that can be safe and effective in the long term. New discoveries of the immune response to food allergens, including T-cell and B-cell responses, have emerged. Novel therapeutic approaches are being trialed at various stages of development as attempts to allow for more active intervention to treat food allergy. Prevention is key to reducing the increase in prevalence. Early introduction of allergenic foods seems to be the most effective intervention, but others are being studied, and will, it is hoped, lead to modification of the epidemiologic trajectory of food allergy over time., (Copyright © 2023 The Authors. Published by Elsevier Inc. All rights reserved.)
- Published
- 2024
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42. Partial Egg Consumption Modifies the Diagnostic Performance of Allergy Tests to Predict Outcome of Double-Blind Placebo-Controlled Food Challenges to Egg.
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Marques-Mejias A, Radulovic S, Foong RX, Bartha I, Krawiec M, Kwok M, Jama Z, Harrison F, Ricci C, Lack G, Du Toit G, and Santos AF
- Subjects
- Child, Humans, Egg White, Ovomucin, Immunoglobulin E, Skin Tests, Allergens, Immunoglobulin G, Eggs adverse effects, Egg Hypersensitivity diagnosis
- Abstract
Background: Many children are consuming some egg when they are diagnosed with egg allergy. We hypothesized that egg consumption could modify the diagnostic performance of allergy tests., Objective: To stratify diagnostic performance of tests according to egg consumption status., Methods: The BAT2 study (NCT03309488) participants underwent oral food challenge (OFC), food-frequency questionnaires, skin prick test (SPT), specific immunoglobulin E (sIgE) and specific immunoglobulin G4 (sIgG4) and basophil activation test (BAT)., Results: At study entry, 45% of participants reported partial egg consumption ("consumers") and 55% were avoiding egg strictly ("avoiders"). Avoiders had larger SPT (P < .001), higher BAT to egg (P < .001), sIgE to egg white (EW; P = .001) and to ovalbumin (OVA; P = .001), but not to ovomucoid (P = .231). Consumers had higher levels of sIgG4 to all egg allergens (P < .001) than avoiders. In consumers, the test with the best diagnostic performance was BAT (area under the curve [AUC] = .912) followed by SPT to raw egg (AUC = 0.805), EW-sIgE (AUC = 0.738), and OVA-sIgE (AUC = 0.732). In avoiders, the best tests were BAT (AUC = 0.834) and EW-sIgE (AUC = 0.833) followed by OVA-sIgE (AUC = 0.793) and SPT to EW (AUC=0.789). Using 100% sensitivity and 100% specificity cut-offs, the proportion of patients requiring OFC were 33% for BAT, 53% for SPT to raw egg, 61% for OVA-sIgE, and 73% for EW-sIgE for consumers; and 73% for BAT, 79% for EW-sIgE, and 93% for SPT to EW for avoiders., Conclusions: The diagnostic performance of tests is influenced by the immunomodulatory effect of egg consumption. BAT is the most reliable test and reduced the need for OFC, particularly in partial egg consumers., (Copyright © 2024 The Authors. Published by Elsevier Inc. All rights reserved.)
- Published
- 2024
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43. Basophil activation test as predictor of severity and threshold of allergic reactions to egg.
- Author
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Radulovic S, Foong RX, Bartha I, Marques-Mejias A, Krawiec M, Kwok M, Jama Z, Harrison F, Ricci C, Lack G, Du Toit G, and Santos AF
- Subjects
- Child, Humans, Allergens, Immunoglobulin E, Ovomucin, Skin Tests, Double-Blind Method, Basophil Degranulation Test, Egg Hypersensitivity diagnosis
- Abstract
Background: Identifying patients at risk of severe allergic reactions and/or low threshold of reactivity is very important, particularly for staple foods like egg., Methods: One hundred and fifty children underwent double-blind placebo-controlled food challenge (DBPCFC) to baked egg (BE), skin prick testing and blood collection for serology and basophil activation test (BAT). Patients who passed BE DBPCFC underwent loosely cooked egg (LCE) DBPCFC. Severity of allergic reactions was classified following Practall guidelines and threshold dose was determined during DBPCFC., Results: Sixty out of 150 (40%) children reacted to BE and 16 out of 77 (21%) to LCE on DBPCFC. Considering DBPCFC to BE, 23 children (38%) had severe reactions and 33 (55%) reacted to 0.13 g or less of egg protein (low threshold group). Two children (2 out of 16 = 12%) had severe reactions to LCE. Demographic, clinical and most immunological features were not significantly different between severe/non-severe BE reactors or low/high threshold groups. Severe BE reactors had higher ovomucoid-sIgE (p = .009) and higher BAT to BE (p = .001). Patients with lower threshold to BE had higher IgE-specific activity (p = .027) and BAT to egg (p = .007) but lower severity score (p = .008). Optimal cut-offs for ovomucoid-sIgE had 100% sensitivity, 35% specificity and 60% accuracy and for BAT 76% sensitivity, 74% specificity and 75% accuracy to identify BE severe reactors. Optimal cut-offs for specific activity had 70% sensitivity, 68% specificity and 69% accuracy and for BAT 70% sensitivity, 72% specificity and 71% accuracy to identify low threshold patients., Conclusions: BAT was the best biomarker to predict severity and threshold of allergic reactions to BE and can be useful when making decisions about management of egg allergy., (© 2023 The Authors. Allergy published by European Academy of Allergy and Clinical Immunology and John Wiley & Sons Ltd.)
- Published
- 2024
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44. Systematic review and meta-analyses on the accuracy of diagnostic tests for IgE-mediated food allergy.
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Riggioni C, Ricci C, Moya B, Wong D, van Goor E, Bartha I, Buyuktiryaki B, Giovannini M, Jayasinghe S, Jaumdally H, Marques-Mejias A, Piletta-Zanin A, Berbenyuk A, Andreeva M, Levina D, Iakovleva E, Roberts G, Chu D, Peters R, du Toit G, Skypala I, and Santos AF
- Subjects
- Female, Animals, Cattle, Humans, Child, Middle Aged, Skin Tests methods, Immunoglobulin E, Allergens, Arachis, Diagnostic Tests, Routine, Randomized Controlled Trials as Topic, Egg Hypersensitivity diagnosis, Food Hypersensitivity diagnosis
- Abstract
The European Academy of Allergy and Clinical Immunology (EAACI) is updating the Guidelines on Food Allergy Diagnosis. We aimed to undertake a systematic review of the literature with meta-analyses to assess the accuracy of diagnostic tests for IgE-mediated food allergy. We searched three databases (Cochrane CENTRAL (Trials), MEDLINE (OVID) and Embase (OVID)) for diagnostic test accuracy studies published between 1 October 2012 and 30 June 2021 according to a previously published protocol (CRD42021259186). We independently screened abstracts, extracted data from full texts and assessed risk of bias with QUADRAS 2 tool in duplicate. Meta-analyses were undertaken for food-test combinations for which three or more studies were available. A total of 149 studies comprising 24,489 patients met the inclusion criteria and they were generally heterogeneous. 60.4% of studies were in children ≤12 years of age, 54.3% were undertaken in Europe, ≥95% were conducted in a specialized paediatric or allergy clinical setting and all included oral food challenge in at least a percentage of enrolled patients, in 21.5% double-blind placebo-controlled food challenges. Skin prick test (SPT) with fresh cow's milk and raw egg had high sensitivity (90% and 94%) for milk and cooked egg allergies. Specific IgE (sIgE) to individual components had high specificity: Ara h 2-sIgE had 92%, Cor a 14-sIgE 95%, Ana o 3-sIgE 94%, casein-sIgE 93%, ovomucoid-sIgE 92/91% for the diagnosis of peanut, hazelnut, cashew, cow's milk and raw/cooked egg allergies, respectively. The basophil activation test (BAT) was highly specific for the diagnosis of peanut (90%) and sesame (93%) allergies. In conclusion, SPT and specific IgE to extracts had high sensitivity whereas specific IgE to components and BAT had high specificity to support the diagnosis of individual food allergies., (© 2023 The Authors. Allergy published by European Academy of Allergy and Clinical Immunology and John Wiley & Sons Ltd.)
- Published
- 2024
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45. The influence of air pollution on gestational age at delivery and birthweight in patients with or without respiratory allergy: A nested case-control study.
- Author
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Bartha I, De La Fuente M, Martinez-Sanchez N, De La Calle M, Martin Boado E, and Bartha JL
- Subjects
- Humans, Female, Pregnancy, Birth Weight, Case-Control Studies, Retrospective Studies, Nitrogen Dioxide, Gestational Age, China, Air Pollution adverse effects, Air Pollutants adverse effects, Air Pollutants analysis, Hypersensitivity epidemiology, Hypersensitivity etiology
- Abstract
Introduction: Air pollution is a current major health issue. The burden of airborne pollutants and aeroallergen levels varies throughout the year, as well as their interaction and consequences. Prenatal exposure during pregnancy has been associated with adverse perinatal outcomes. The aim of this study was to evaluate the impact of air pollutants on perinatal outcomes in patients with or without respiratory allergy., Material and Methods: Nested case-control retrospective study on 3006 pregnant women. Correlations between concentrations of common pollutants in each trimester of pregnancy and on average during the whole pregnancy and both gestational age at delivery and birthweight were studied. Pearson's correlation coefficient and binary logistic regression were used., Results: In general, pollutants correlated more strongly with birthweight than with gestational age at delivery. Nine-month NO
2 , SO2 , CO, and benzene, and second-trimester CO negatively correlated with birthweight, whereas only first-trimester NO2 showed a very mild correlation with gestational age at delivery. Negative correlations between pollutants and birthweight were much stronger in the respiratory allergy group (n = 43; 1.4%) than in the non-allergic group. After adjustments, the most significant predictive pollutant of birthweight was SO2 in both groups. The best predictive model was much stronger in the allergic group for third-trimester SO2 (R2 = 0.12, p = 0.02) than in the non-allergic group for total SO2 (R2 = 0.002, p = 0.02). For each unit that SO2 increased, birthweight reduced by 3.22% vs. 1.28% in each group, respectively., Conclusions: Air pollutant concentrations, especially SO2 , negatively influenced birthweight. The impact of this association was much stronger and more relevant in the group of women with respiratory allergies., (© 2023 The Authors. Acta Obstetricia et Gynecologica Scandinavica published by John Wiley & Sons Ltd on behalf of Nordic Federation of Societies of Obstetrics and Gynecology (NFOG).)- Published
- 2023
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46. Author Correction: Africa-specific human genetic variation near CHD1L associates with HIV-1 load.
- Author
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McLaren PJ, Porreca I, Iaconis G, Mok HP, Mukhopadhyay S, Karakoc E, Cristinelli S, Pomilla C, Bartha I, Thorball CW, Tough RH, Angelino P, Kiar CS, Carstensen T, Fatumo S, Porter T, Jarvis I, Skarnes WC, Bassett A, DeGorter MK, Sathya Moorthy MP, Tuff JF, Kim EY, Walter M, Simons LM, Bashirova A, Buchbinder S, Carrington M, Cossarizza A, De Luca A, Goedert JJ, Goldstein DB, Haas DW, Herbeck JT, Johnson EO, Kaleebu P, Kilembe W, Kirk GD, Kootstra NA, Kral AH, Lambotte O, Luo M, Mallal S, Martinez-Picado J, Meyer L, Miro JM, Moodley P, Motala AA, Mullins JI, Nam K, Obel N, Pirie F, Plummer FA, Poli G, Price MA, Rauch A, Theodorou I, Trkola A, Walker BD, Winkler CA, Zagury JF, Montgomery SB, Ciuffi A, Hultquist JF, Wolinsky SM, Dougan G, Lever AML, Gurdasani D, Groom H, Sandhu MS, and Fellay J
- Published
- 2023
- Full Text
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47. Diagnostic utility of allergy tests to predict baked egg and lightly cooked egg allergies compared to double-blind placebo-controlled food challenges.
- Author
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Krawiec M, Radulovic S, Foong RX, Marques-Mejias A, Bartha I, Kwok M, Jama Z, Harrison F, Ricci C, Lack G, Du Toit G, and Santos AF
- Subjects
- Child, Child, Preschool, Humans, Allergens, Basophil Degranulation Test, Immunoglobulin E, Skin Tests methods, Infant, Adolescent, Egg Hypersensitivity diagnosis, Food Hypersensitivity diagnosis
- Abstract
Background: Double-blind placebo-controlled food challenges (DBPCFC) are the gold-standard to diagnose food allergy. However, they can cause allergic reactions of unpredictable severity. We assessed accuracy of current and new diagnostic tests compared to DBPCFC to baked egg (BE) and to lightly cooked egg (LCE)., Methods: Children aged 6 months to 15 years were assessed for possible egg allergy as part of the BAT2 study (NCT03309488). They underwent clinical assessment, skin prick test (SPT), specific IgE (sIgE) and basophil activation test (BAT). The results of the tests were compared with DBPCFC outcomes to both BE and LCE., Results: A total of 150 children underwent DBPCFC to BE, 60 (40%) reacted to and 85 (57%) tolerated BE and 5 (3%) had inconclusive oral food challenges (OFC). Seventy-seven children tolerant to BE had DBPCFC to LCE and 16 reacted. The test within each modality with the best diagnostic performance for BE allergy was as follows: SPT to egg white (EW) (AUC = 0.726), sIgE to EW (AUC = 0.776) and BAT to egg (AUC = 0.783). BAT (AUC = 0.867) was the best test in the younger than 2 years age group. Applying 100% sensitivity and 100% specificity cut-offs, followed by OFC, resulted in 100% diagnostic accuracy. BAT enabled the greatest reduction in OFC (41%). Using sIgE followed by BAT allowed to reduce the number of BATs performed by about 30% without significantly increasing the number of OFC., Conclusions: The best diagnostic test was BAT to egg in terms of diagnostic accuracy and reduction in number of OFC. Using sIgE to EW followed by BAT required fewer BATs with sustained OFC reduction and diagnostic accuracy., (© 2023 The Authors. Allergy published by European Academy of Allergy and Clinical Immunology and John Wiley & Sons Ltd.)
- Published
- 2023
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48. Africa-specific human genetic variation near CHD1L associates with HIV-1 load.
- Author
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McLaren PJ, Porreca I, Iaconis G, Mok HP, Mukhopadhyay S, Karakoc E, Cristinelli S, Pomilla C, Bartha I, Thorball CW, Tough RH, Angelino P, Kiar CS, Carstensen T, Fatumo S, Porter T, Jarvis I, Skarnes WC, Bassett A, DeGorter MK, Sathya Moorthy MP, Tuff JF, Kim EY, Walter M, Simons LM, Bashirova A, Buchbinder S, Carrington M, Cossarizza A, De Luca A, Goedert JJ, Goldstein DB, Haas DW, Herbeck JT, Johnson EO, Kaleebu P, Kilembe W, Kirk GD, Kootstra NA, Kral AH, Lambotte O, Luo M, Mallal S, Martinez-Picado J, Meyer L, Miro JM, Moodley P, Motala AA, Mullins JI, Nam K, Obel N, Pirie F, Plummer FA, Poli G, Price MA, Rauch A, Theodorou I, Trkola A, Walker BD, Winkler CA, Zagury JF, Montgomery SB, Ciuffi A, Hultquist JF, Wolinsky SM, Dougan G, Lever AML, Gurdasani D, Groom H, Sandhu MS, and Fellay J
- Subjects
- Humans, Cell Line, Africa, Chromosomes, Human, Pair 1 genetics, Alleles, RNA, Long Noncoding genetics, Virus Replication, DNA Helicases genetics, DNA Helicases metabolism, DNA-Binding Proteins genetics, DNA-Binding Proteins metabolism, Genetic Variation, HIV Infections genetics, HIV-1 growth & development, HIV-1 physiology, Viral Load genetics
- Abstract
HIV-1 remains a global health crisis
1 , highlighting the need to identify new targets for therapies. Here, given the disproportionate HIV-1 burden and marked human genome diversity in Africa2 , we assessed the genetic determinants of control of set-point viral load in 3,879 people of African ancestries living with HIV-1 participating in the international collaboration for the genomics of HIV3 . We identify a previously undescribed association signal on chromosome 1 where the peak variant associates with an approximately 0.3 log10 -transformed copies per ml lower set-point viral load per minor allele copy and is specific to populations of African descent. The top associated variant is intergenic and lies between a long intergenic non-coding RNA (LINC00624) and the coding gene CHD1L, which encodes a helicase that is involved in DNA repair4 . Infection assays in iPS cell-derived macrophages and other immortalized cell lines showed increased HIV-1 replication in CHD1L-knockdown and CHD1L-knockout cells. We provide evidence from population genetic studies that Africa-specific genetic variation near CHD1L associates with HIV replication in vivo. Although experimental studies suggest that CHD1L is able to limit HIV infection in some cell types in vitro, further investigation is required to understand the mechanisms underlying our observations, including any potential indirect effects of CHD1L on HIV spread in vivo that our cell-based assays cannot recapitulate., (© 2023. The Author(s), under exclusive licence to Springer Nature Limited.)- Published
- 2023
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49. A framework for future national pediatric pandemic respiratory disease severity triage: The HHS pediatric COVID-19 data challenge.
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Bergquist T, Wax M, Bennett TD, Moffitt RA, Gao J, Chen G, Telenti A, Maher MC, Bartha I, Walker L, Orwoll BE, Mishra M, Alamgir J, Cragin BL, Ferguson CH, Wong HH, Deslattes Mays A, Misquitta L, DeMarco KA, Sciarretta KL, and Patel SA
- Abstract
Introduction: With persistent incidence, incomplete vaccination rates, confounding respiratory illnesses, and few therapeutic interventions available, COVID-19 continues to be a burden on the pediatric population. During a surge, it is difficult for hospitals to direct limited healthcare resources effectively. While the overwhelming majority of pediatric infections are mild, there have been life-threatening exceptions that illuminated the need to proactively identify pediatric patients at risk of severe COVID-19 and other respiratory infectious diseases. However, a nationwide capability for developing validated computational tools to identify pediatric patients at risk using real-world data does not exist., Methods: HHS ASPR BARDA sought, through the power of competition in a challenge, to create computational models to address two clinically important questions using the National COVID Cohort Collaborative: (1) Of pediatric patients who test positive for COVID-19 in an outpatient setting, who are at risk for hospitalization? (2) Of pediatric patients who test positive for COVID-19 and are hospitalized, who are at risk for needing mechanical ventilation or cardiovascular interventions?, Results: This challenge was the first, multi-agency, coordinated computational challenge carried out by the federal government as a response to a public health emergency. Fifty-five computational models were evaluated across both tasks and two winners and three honorable mentions were selected., Conclusion: This challenge serves as a framework for how the government, research communities, and large data repositories can be brought together to source solutions when resources are strapped during a pandemic., Competing Interests: The views expressed are solely those of the authors and do not necessarily represent those of the U.S. Department of Health and Human Services. Timothy Bergquist, Tellen Bennett, and Richard Moffitt disclosed that this work was performed by Sage Bionetworks and its subcontractors under a grant with the National Institute of Health (U24TR002306). Additional funding for Timothy Bergquist was provided through the Bill and Melinda Gates Foundation (INV- 018455). Marie Wax and Hui-Hsing Wong disclose that they are government support contractors employed by Aveshka Inc. and Tunnell Government Services Inc. respectively, which receives funds from the U.S. government under contract to provide technical and programmatic support for HHS-BARDA. Joy Alamgir discloses that he is a founder and a shareholder of ARIScience. Tellen Bennett has received funding from the National Institutes of Health – NCATS, Eunice Kennedy Shriver NICHD, and National Heart, Lung and Blood Institute (NHLBI)., (© The Author(s) 2023.)
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- 2023
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50. Author Correction: A pan-influenza antibody inhibiting neuraminidase via receptor mimicry.
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Momont C, Dang HV, Zatta F, Hauser K, Wang C, di Iulio J, Minola A, Czudnochowski N, De Marco A, Branch K, Donermeyer D, Vyas S, Chen A, Ferri E, Guarino B, Powell AE, Spreafico R, Yim SS, Balce DR, Bartha I, Meury M, Croll TI, Belnap DM, Schmid MA, Schaiff WT, Miller JL, Cameroni E, Telenti A, Virgin HW, Rosen LE, Purcell LA, Lanzavecchia A, Snell G, Corti D, and Pizzuto MS
- Published
- 2023
- Full Text
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