31 results on '"de Juan D"'
Search Results
2. Liver iron concentration in patients referred for hyperferritinemia: multicenter analysis of the different groups according to HFE mutations and transferrin saturation index, prediction of liver iron overload in Southern Europe
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Zubiaurre, L., primary, Castiella, A., additional, Zapata, E., additional, Urreta, I., additional, Otazua, P., additional, Alustiza, J.M., additional, De Juan, D., additional, Salvador, E., additional, Letamendi, G., additional, Arrizabalaga, B., additional, Iribarren, A., additional, and Emparanza, J.I., additional
- Published
- 2017
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- View/download PDF
3. THU-393 - Liver iron concentration in patients referred for hyperferritinemia: multicenter analysis of the different groups according to HFE mutations and transferrin saturation index, prediction of liver iron overload in Southern Europe
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Zubiaurre, L., Castiella, A., Zapata, E., Urreta, I., Otazua, P., Alustiza, J.M., De Juan, D., Salvador, E., Letamendi, G., Arrizabalaga, B., Iribarren, A., and Emparanza, J.I.
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- 2017
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4. Una contribución al estudio de la solubilidad del CuSO4∙5H2O en medio acuoso
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de Juan, D., Messenguer, V. F., and Lozano, L. J.
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Zinc ,Cobre ,Sulfato de cobre ,Solubility ,Copper sulphate ,Solubilidad ,Copper - Abstract
Pentahydrate copper sulphate (Blue vitriol) is a copper salt used in minerallurgy as activator reagent in concentration methods by flotation for sulphide ores. In this work, crystallization conditions of copper sulphate solutions have been determined as a function of both temperature and sulphuric acidity. The results obtained showed that Cu2+ concentration in the solution is mainly a direct function of the logarithm of temperature and the sulfuric acid concentration. The influence of Zn2+ presence in copper sulphate solubility has been also studied at ambient temperature. Results obtained led to a multiple linear regression between Cu2+ concentration in the solution and sulphuric acid and Zn2+ concentrations in the medium. Finally, a comparison between the results obtained and data available in the literature is made. El sulfato de cobre pentahidratado (vitriolo azul, vitriolo de Venus, caparrosa azul) es una sal de cobre que se suele emplear en mineralurgia como reactivo activador en los métodos de concentración por flotación de los minerales sulfurados. En el presente trabajo se han determinado las condiciones de cristalización de las disoluciones de sulfato de cobre a distintas temperaturas en función de la acidez sulfúrica presente. Se ha encontrado que la concentración de Cu2+ en la disolución, es principalmente función directa del logaritmo de la temperatura y de la concentración de ácido sulfúrico presente. También se ha estudiado la influencia de la presencia del ion Zn2+ en la solubilidad del CuSO4∙5H2O a temperatura ambiente, hallándose una relación lineal múltiple entre la concentración de Cu2+ y las concentraciones de ácido sulfúrico y Zn2+ en la disolución. Por último, se realiza una comparación de los resultados obtenidos con los datos disponibles en la bibliografía.
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- 1999
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5. Extracción de cromo con disolventes orgánicos. III parte. Aplicación al tratamiento de residuos polimetálicos industriales
- Author
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de Juan, D., Meseguer, V., and Lozano, L. J.
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Chromium ,Solvent extraction ,Extracción con disolventes ,Tratamiento de residuos ,Polymetallic residues ,Residuos polimetálicos ,Cromo ,Waste treatment - Abstract
The use of Primene 81R as extraction agent of chromium present in solid wastes containing nickel, iron and copper has been studied. The waste was leached with a sulphuric acid solution up to pH 3 and oxidation of Cr(III) to Cr(VI) with Caro acid was also studied. Because of the negative result of oxidation, the treatment was applied on Cr(III) directly. Extraction/scrubbing/stripping process was studied in the leach. The composition of organic phase used in the extraction step was 10 % v/v Primene 81R, 10 % isodecanol and kerosene. All the iron, 91 % Cr, 10 % Ni and large part of the copper contained in the initial leach solution are recovered in the organic phase. In the scrubbing stage (with a sulphuric acid solution at pH 1,4), all the copper and nickel and 30 % Cr go to the washing liquor, while all the iron and 70 % Cr remained in the organic phase. In the stripping stage (with a 2N NH4OH or 2N NaOH solution) all the iron and chromium are recovered as a precipitate of highly absorbent hydroxides. After the treatment mentioned, 63 % Cr and 100 % Fe are recovered as a mixture of hydroxides, and 28 % of the initial chromium, all the nickel and the copper are found in the washing liquor. Se estudia la aplicación del Primene 81R como agente de extracción del cromo presente en residuos sólidos que poseen níquel, hierro y cobre. El residuo se lixivió con disolución de ácido sulfúrico hasta pH 3 y se investigó la oxidación del Cr(III) a Cr(VI) con ácido de Caro. Ante el nulo resultado en la oxidación, se actuó directamente sobre el Cr(III). Se estudió el proceso de extracción/lavado/reextracción sobre la lejía de lixiviación. La fase orgánica empleada en la extracción estaba constituida por 10 % v/v de Primene 81R, 10 % de isodecanol y queroseno. En la fase orgánica se recupera todo el hierro, el 91 % Cr, el 10 % Ni y gran parte del cobre contenidos en la lejía de partida. En la etapa de lavado (con disolución de ácido sulfúrico de pH 1,4), todo el cobre y el níquel y el 30 % Cr pasan a las aguas de lavado, quedando en la fase orgánica todo el hierro y el 70 % Cr. En la reextracción (con NH4OH 2 N o con NaOH 2 N) se recupera todo el hierro y el cromo como un precipitado de hidróxidos altamente absorbente. Después del tratamiento indicado se consigue recuperar el 63 % Cr y el 100 % Fe como una mezcla de hidróxidos, y en el agua de lavado se encuentra el 28 % Cr inicial, así como todo el níquel y el cobre.
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- 1998
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6. Extracción de cromo con disolventes orgánicos. I parte. Extracción con DEHPA
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de Juan, D., Meseguer, V., and Lozano, L. J.
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Chromium ,Solvent extraction ,DEHPA ,Extracción con disolventes ,Cromo ,Tratamiento de efluentes ,Waste treatment - Abstract
Chromium and its compounds give toxic and/or hazardous characteristics to all those industrial wastes, solids or liquids, that contain them. Organic solvent extraction is a technique that allows the recovery of chromium contained in these residues. In this work the extraction of Cr(III) from aqueous solutions with solutions of a cationic reactive (DEHPA) in kerosene is studied. In the same way the stripping process was studied. It has been found that Cr(III) and DEHPA react in a 1/1 molar ratio, being the extraction kinetics very fast. Final aqueous phase final pH influence extraction yield, so that it is necessary to work with pH values between 3 and 4. It must be added a modifier (isodecanol) to the organic phase to avoid the formation of a third phase in the stripping process. The concentration of isodecanol has to be higher than 15 %, so the organic phase used was a solution of 12.5 % v/v DEHPA in kerosene and 20 % v/v isodecanol. The stripping process is slow and must be carried out in an oxidant alkalyne medium, thus an aqueous solution of NaOH and H2O2 was used. An increase in the concentration of NaOH and H2O2 leads to an increase in the stripping yield initially, and becomes stable when concentrations of NaOH and H2O2 used are higher than 0.45 N and 4 % v/v respectively. El cromo y sus compuestos confieren un carácter tóxico y/o peligroso a los residuos industriales, sólidos o líquidos, que los contienen. Una técnica que permite recuperar el cromo existente en estas sustancias es la extracción con disolventes orgánicos. En el presente trabajo se estudia la extracción del Cr(III) presente en disoluciones acuosas con disoluciones de un reactivo de carácter catiónico (DEHPA) en queroseno. Igualmente se estudia el proceso de reextracción. Se ha encontrado que el Cr(III) y el DEHPA reaccionan mol a mol, siendo la cinética de extracción muy rápida. El pH final de la fase acuosa influye considerablemente sobre el rendimiento de extracción, por lo que es conveniente trabajar con valores del pH comprendidos entre 3 y 4. Para evitar la formación de tercera fase en reextracción se debe adicionar un modificador (isodecanol) a la fase orgánica en una concentración superior al 15 %, por lo que la fase orgánica empleada fue una disolución de DEHPA 12,5 % v/v en queroseno e isodecanol 20 % v/v. El proceso de reextracción es lento y se debe realizar en medio alcalino oxidante, para lo que se empleó una disolución acuosa de NaOH y H2O2. El rendimiento de reextracción aumenta inicialmente al aumentar las concentraciones de NaOH y de H2O2 y permanece prácticamente constante para concentraciones en NaOH y H2O2 superiores a 0,45 N y 4 % v/v respectivamente.
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- 1998
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7. Extracción de cromo con disolventes orgánicos. II parte. Extracción con TBP y con Primene 81R
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de Juan, D., Meseguer, V., and Lozano, L. J.
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Extracción con disolventes ,Solvent extraction Chromium ,Cromo ,Primene 81R ,Tratamiento de efluentes ,TBP ,Waste treatment - Abstract
The use of a neutral reactive (TBP) and an alkalyne one (Primene 81R) in order to carry out the extraction of chromium from aqueous solutions was studied. The following systems were tested: Cr(VI)/TBP, Cr(III)/Primene 81R, Cr(VI)/Primene 81R. In the same way the stripping of both systems were studied. TBP can easily extract Cr(VI) using pure TBP as organic phase and an aqueous phase with a concentration of sulphuric acid between 0.5 and 2 N. The kinetics of the process is very fast. NaOH solutions were used for stripping, reaching maximum yields with IN NaOH solutions. Primene 81R can extract not only Cr(III) but also Cr(VI). Extraction of Cr(III) must be made at values of pH around 6; this value has to be reached by addition of extraction agent. Extraction of Cr(VI) must be made at values of pH between 3 and 5. Extraction kinetics of Cr(III) and Cr(VI) are both fast. In order to carry out the reextraction, NaOH solutions can be used. Cr(III) is recovered as a chromium hydroxide precipitate if final pH is alkalyne; solutions of NaOH with a concentration equal or higher than 4N must be used for the stripping of Cr(VI), and the solution obtained contains chromium as Cr(III) and Cr(VI). Se estudia el empleo de un reactivo de carácter neutro (TBP) y otro de carácter básico (Primene 81R) para llevar a cabo la extracción del cromo presente en disoluciones acuosas. Los sistemas investigados han sido el Cr(VI)/TBP, el Cr(III)/Primene 81R y el Cr(VI)/Primene 81R. Asimismo, se abordan los procesos de reextracción en dichos sistemas. El TBP ha demostrado su capacidad para extraer el Cr(VI), debiendo estar constituida la fase orgánica por TBP puro y la fase acuosa poseer una concentración en ácido sulfúrico entre 0,5 y 2 N. La cinética del proceso es rápida. Se han empleado disoluciones de NaOH para proceder a la reextracción, alcanzándose el máximo rendimiento con disoluciones de NaOH 1N. El Primene 81R puede extraer tanto al Cr(III) como al Cr(VI). La extracción del Cr(III) se debe realizar a valores del pH próximos a 6, valor que se debe alcanzar por adición del agente de extracción. La extracción del Cr(VI) se debe realizar a pH claramente ácido (3-5). Las cinéticas de extracción del Cr(III) y del Cr(VI) son rápidas. Para la reextracción se pueden emplear disoluciones de NaOH. En el caso del Cr(III), si el pH final es básico, se recupera un precipitado de hidróxido de cromo(III); para el Cr(VI) se deben utilizar disoluciones de NaOH de concentración igual o mayor a 4 N, obteniéndose una disolución donde el cromo se encuentra en los estados de oxidación (III) y (VI).
- Published
- 1998
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8. Tratamiento metalúrgico de los óxidos Waelz mediante lixiviación alcalina utilizando carbonato amónico
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Meseguer, V., Lozano, L. J., and de Juan, D.
- Subjects
Lixiviación ,Tratamiento de residuos ,Ammonium carbonate ,Leaching ,Óxidos Waelz ,Carbonato amónico ,Zinc recovery ,Waelz oxides ,Recuperación de cinc ,Waste treatment - Abstract
A method to carry out the treatment of the Waelz oxides is proposed, and the principal stages implicated are studied laboratory-scale. The process consists of the oxides leaching with an ammonium carbonate/ammonia solution, followed the recovery of the zinc leached by means of its precipitation as zinc basic carbonate. The process stages that have been studied are: Waelz oxides leaching, loaded leach purification, zinc precipitation, zinc basic carbonate washing and zinc basic carbonate transformation. The designed treatment presents a null environmental impact, and more than 90 % of the zinc contained in the Waelz oxides, as well as 80 % of the copper and cadmium contents could be recovered. Also, the process presents great flexibility as soon as zinc could be recovered in the most convenient form (zinc metal, oxide or salt). Se propone un método para el tratamiento de los óxidos Waelz, y se estudian, a nivel de laboratorio, las principales etapas implicadas en el mismo. El proceso consiste básicamente en la lixiviación de los óxidos con una disolución de carbonato amónico/amoniaco, y posterior recuperación del cinc lixiviado mediante su precipitación como carbonato básico de cinc. Las etapas que constituyen el proceso y que han sido objeto de estudio son: lixiviación de los óxidos Waelz, purificación de la lejía concentrada de lixiviación, precipitación del cinc, lavado del carbonato básico de cinc precipitado y transformación del carbonato básico de cinc. El tratamiento diseñado presenta un impacto ambiental prácticamente nulo, y con el mismo se puede recuperar más del 90 % del cinc contenido en los óxidos Waelz, así como el 80 % del cobre y del cadmio. Además, el proceso presenta gran versatilidad en cuanto que el cinc se puede recuperar en el estado más conveniente (cinc metal, óxido o sal).
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- 1997
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9. Un método para el tratamiento de las pilas y baterías domésticas usadas de tamaño medio. I Parte. Generalidades y valoración del mercado español
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de Juan, D., Meseguer, V., Perales, A., and Lozano, L. J.
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Treatment of wastes ,Electric batteries and cells ,Tratamiento de residuos ,Mercado español de pilas ,Spanish market of electric cells ,Solid wastes ,Residuos sólidos ,Pilas eléctricas - Abstract
The harmful impact on the environment caused by the unreasonable abandonment of used domestic electric cells and batteries, excluding little size batteries or cells, is discussed. Some techniques developed for their treatment in the latest years are presented. As base of the work, a evaluation of the Spanish market of used electric cells and batteries is made, reckoning that there is a potential market of around 350-106 electric cells per year, equivalent to a weight of about 10.000 t/y of used electric cells and batteries, with a potential economic value of around 340 million PTA/y. Se discute el impacto nocivo que el abandono indiscriminado de las pilas y baterías domésticas usadas, a excepción de las pilas de pequeño tamaño o pilas botón, tiene sobre el medio ambiente. Se presentan algunas técnicas desarrolladas en los últimos años para su tratamiento. Como base del trabajo, se realiza una valoración del mercado español de pilas y baterías domésticas usadas, determinando que existe un mercado potencial de unos 350-106 pilas/año, equivalentes a un peso aproximado de 10.000 t/año, de elementos usados, con un valor económico potencial de unos 340 millones PT A/año.
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- 1996
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10. Un método para el tratamiento de las pilas y baterías domésticas usadas de tamaño medio. III Parte. Propuesta de un método para su tratamiento
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de Juan, D., Maseguer, V., Perales, A., and Lozano, L. J.
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Treatment of wastes ,Metals recovery ,Extractive metallurgy ,Tratamiento de residuos ,Solid wastes ,Residuos sólidos ,Recuperación de metales ,Pilas eléctricas ,Metalurgia extractiva ,Electric cells and batteries - Abstract
A method for the primary treatment of spent batteries and domestic cells is proposed. Basic processes for the secondary treatment, metals recovering and detoxifying wastes are developed. Iron is directly recovered in the primary treatment as a ferrous scrap. Zinc is recovered from ammoniacal solution obtained in primary treatment by means of a hydrothermal process. For recovering cadmium, copper and nickel, a cementation with zinc dusts is proposed along with the application of the COCADEX process. Detoxifying the fraction bioxide obtained and the mercury recovered are made by heat treatment at 300- 400°C. The heat treatment wastes and the non ferrous fraction can be treated in a Waelz furnace, for the simultaneous recovery of zinc and cadmium contained in the waste as a Waelz oxide. Se propone un método para llevar a cabo el tratamiento primario de las pilas y baterías domésticas usadas. Se desarrollan los procesos necesarios para realizar el tratamiento secundario, recuperar los metales contenidos y separar los componentes tóxicos de los residuos. En el tratamiento primario se recupera el hierro directamente como una chatarra férrea. El cinc se recupera de la disolución amoniacal procedente del tratamiento primario mediante un proceso hidrotermal. Para la recuperación del cadmio, cobre y níquel se propone su cementación con polvo de cinc y posterior aplicación del proceso COCADEX. La eliminación de los productos tóxicos de la fracción bióxido resultante, así como la recuperación del mercurio se realizan mediante calcinación a 300-400 °C. El residuo de calcinación y la fracción no férrea se pueden tratar conjuntamente en un horno Waelz para recuperar simultáneamente el cinc y el cadmio residual como óxido Waelz.
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- 1996
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11. Un método para el tratamiento de las pilas y baterías domésticas usadas de tamaño medio. II Parte. Desarrollo de un método para su tratamiento
- Author
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de Juan, D., Meseguer, V., Perales, A., and Lozano, L. J.
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Treatment of wastes ,Electric batteries and cells ,Extractive metallurgy ,Metals ,Tratamiento de residuos ,Residuos sólidos ,recovery. Solid wastes ,Recuperación de metales ,Pilas eléctricas ,Metalurgia extractiva - Abstract
Two basic schemes are proposed and studied for the primary treatment of spent batteries and domestic cells. The first one of them is based on an acid leaching method; the second is based on an alkaline leaching method. Results are presented and discussed in both cases, being the alkaline leaching method the best scheme for this process. Se proponen y estudian dos esquemas básicos para realizar el tratamiento primario de las pilas y baterías domésticas usadas. El primero de ellos se basa en una lixiviación de tipo ácido y el segundo consiste en una lixiviación de tipo alcalino. Se presentan y comparan los resultados obtenidos en ambos casos, encontrándose que el mejor esquema de trabajo es el basado en la lixiviación de tipo alcalino.
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- 1996
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12. Genes related to iron metabolism and susceptibility to Alzheimer's disease in Basque population
- Author
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Blázquez, L., De Juan, D., Ruiz-Martínez, J., Emparanza, J.I., Sáenz, A., Otaegui, D., Sistiaga, A., Martínez-Lage, P., Lamet, I., Samaranch, L., Buiza, C., Etxeberria, I., Arriola, E., Cuadrado, E., Urdaneta, E., Yanguas, J., and López de Munain, A.
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- 2007
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13. TreeDet: a web server to explore sequence space
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Carro, A., primary, Tress, M., additional, de Juan, D., additional, Pazos, F., additional, Lopez-Romero, P., additional, del Sol, A., additional, Valencia, A., additional, and Rojas, A. M., additional
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- 2006
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14. A framework for computational and experimental methods: Identifying dimerization residues in CCR chemokine receptors
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de Juan, D., primary, Mellado, M., additional, Rodriguez-Frade, J. M., additional, Hernanz-Falcon, P., additional, Serrano, A., additional, del Sol, A., additional, Valencia, A., additional, Martinez-A, C., additional, and Rojas, A. M., additional
- Published
- 2005
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15. Metals recovery: spent household batteries and cells.
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De Juan D., Clean technology for the mining industry Santiago, Chile 15-May-9617-May-96, Lozano L.J., Meseguer V., Perales A., De Juan D., Clean technology for the mining industry Santiago, Chile 15-May-9617-May-96, Lozano L.J., Meseguer V., and Perales A.
- Abstract
A flowsheet is proposed which combines physical concentration methods with hydrometallurgical extraction. During experimental development the batteries were crushed and leached with 2.5 M ammonium carbonate solution, adjusted to pH 10.2 by adding 25% of ammonia. Screening, dry magnetic grooving, density separation and washing separated the products into a loaded alkaline leach, manganese dioxide, ferrous and non-ferrous scrap and a paper/plastics residue. Zinc recovery was only 70.39%, with 27.07% remaining in the dioxide fraction. Iron recovery to ferrous scrap was 88%. Copper behaved similarly to zinc, but cadmium and nickel had low solubility in the alkaline leach: Cd accumulated in the dioxide fraction and Ni in the ferrous scrap. Almost all the manganese formed very fine dioxides, as did all the mercury except for 7.2% in the non-ferrous scrap. Further treatments for the fractions are suggested., A flowsheet is proposed which combines physical concentration methods with hydrometallurgical extraction. During experimental development the batteries were crushed and leached with 2.5 M ammonium carbonate solution, adjusted to pH 10.2 by adding 25% of ammonia. Screening, dry magnetic grooving, density separation and washing separated the products into a loaded alkaline leach, manganese dioxide, ferrous and non-ferrous scrap and a paper/plastics residue. Zinc recovery was only 70.39%, with 27.07% remaining in the dioxide fraction. Iron recovery to ferrous scrap was 88%. Copper behaved similarly to zinc, but cadmium and nickel had low solubility in the alkaline leach: Cd accumulated in the dioxide fraction and Ni in the ferrous scrap. Almost all the manganese formed very fine dioxides, as did all the mercury except for 7.2% in the non-ferrous scrap. Further treatments for the fractions are suggested.
- Published
- 1996
16. The alkaline leaching: an alternative for the hydrometallurgical treatment of Waelz oxides.
- Author
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De Juan D., Clean technology for the mining industry Santiago, Chile 15-May-9617-May-96, Lozano L.J., Meseguer V., Perales A., Puche M.A., De Juan D., Clean technology for the mining industry Santiago, Chile 15-May-9617-May-96, Lozano L.J., Meseguer V., Perales A., and Puche M.A.
- Abstract
If flue dusts from the steel industry, which amount to 700 000-800 000 t/a in the EC alone, are to be treated by the Waelz process then a method must be found for processing the resulting Waelz oxides. Feed to the Imperial Smelting process can only include 10-15% of Waelz oxides, allowing worldwide treatment of only 200 000-300 000 t/a. As an alternative, leaching with ammonium carbonate and ammonia solution is proposed, followed by recovery of zinc from the leach as a basic carbonate. Experiments were carried out on countercurrent leaching in 2.5 M ammonium carbonate with the pH fixed at 10.1-10.5 by the addition of ammonia solution. The solid/liquid ratio was 1/5 and separation was achieved by settling with a cation flocculant. Zinc recovery was over 90%. Cu, Cd and Pb were removed from the loaded leach by cementation and Fe by precipitation and vacuum filtration., If flue dusts from the steel industry, which amount to 700 000-800 000 t/a in the EC alone, are to be treated by the Waelz process then a method must be found for processing the resulting Waelz oxides. Feed to the Imperial Smelting process can only include 10-15% of Waelz oxides, allowing worldwide treatment of only 200 000-300 000 t/a. As an alternative, leaching with ammonium carbonate and ammonia solution is proposed, followed by recovery of zinc from the leach as a basic carbonate. Experiments were carried out on countercurrent leaching in 2.5 M ammonium carbonate with the pH fixed at 10.1-10.5 by the addition of ammonia solution. The solid/liquid ratio was 1/5 and separation was achieved by settling with a cation flocculant. Zinc recovery was over 90%. Cu, Cd and Pb were removed from the loaded leach by cementation and Fe by precipitation and vacuum filtration.
- Published
- 1996
17. Una contribución al estudio de la solubilidad del CuSO4∙5H2O en medio acuoso
- Author
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Messenguer, V. F., primary, De Juan, D., additional, and Lozano, L. J., additional
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- 1999
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18. The contribution of the HLA‐A, ‐B, ‐C and ‐DR, ‐DQ DNA typing to the study of the origins of Spaniards and Basques
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Martinez‐Laso, J., primary, De Juan, D., additional, Martinez‐Quiles, N., additional, Gomez‐Casado, E., additional, Cuadrado, E., additional, and Arnaiz‐Villena, A., additional
- Published
- 1995
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19. CAAStools: a toolbox to identify and test Convergent Amino Acid Substitutions.
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Barteri F, Valenzuela A, Farré X, de Juan D, Muntané G, Esteve-Altava B, and Navarro A
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- Phylogeny, Amino Acid Substitution, Documentation, Computational Biology, Software
- Abstract
Motivation: Coincidence of Convergent Amino Acid Substitutions (CAAS) with phenotypic convergences allow pinpointing genes and even individual mutations that are likely to be associated with trait variation within their phylogenetic context. Such findings can provide useful insights into the genetic architecture of complex phenotypes., Results: Here we introduce CAAStools, a set of bioinformatics tools to identify and validate CAAS in orthologous protein alignments for predefined groups of species representing the phenotypic values targeted by the user., Availability and Implementation: CAAStools source code is available at http://github.com/linudz/caastools, along with documentation and examples., (© The Author(s) 2023. Published by Oxford University Press.)
- Published
- 2023
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20. Reconstructing Denisovan Anatomy Using DNA Methylation Maps.
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Gokhman D, Mishol N, de Manuel M, de Juan D, Shuqrun J, Meshorer E, Marques-Bonet T, Rak Y, and Carmel L
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- 2020
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21. Reconstructing Denisovan Anatomy Using DNA Methylation Maps.
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Gokhman D, Mishol N, de Manuel M, de Juan D, Shuqrun J, Meshorer E, Marques-Bonet T, Rak Y, and Carmel L
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- Animals, Base Sequence, Databases, Genetic, Extinction, Biological, Fossils, Genome, Human genetics, Humans, Polymorphism, Single Nucleotide genetics, Skeleton, Skull, DNA Methylation genetics, Neanderthals anatomy & histology, Neanderthals genetics, Pan troglodytes anatomy & histology, Pan troglodytes genetics, Phenotype
- Abstract
Denisovans are an extinct group of humans whose morphology remains unknown. Here, we present a method for reconstructing skeletal morphology using DNA methylation patterns. Our method is based on linking unidirectional methylation changes to loss-of-function phenotypes. We tested performance by reconstructing Neanderthal and chimpanzee skeletal morphologies and obtained >85% precision in identifying divergent traits. We then applied this method to the Denisovan and offer a putative morphological profile. We suggest that Denisovans likely shared with Neanderthals traits such as an elongated face and a wide pelvis. We also identify Denisovan-derived changes, such as an increased dental arch and lateral cranial expansion. Our predictions match the only morphologically informative Denisovan bone to date, as well as the Xuchang skull, which was suggested by some to be a Denisovan. We conclude that DNA methylation can be used to reconstruct anatomical features, including some that do not survive in the fossil record., (Copyright © 2019 Elsevier Inc. All rights reserved.)
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- 2019
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22. Emerging methods in protein co-evolution.
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de Juan D, Pazos F, and Valencia A
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- Animals, Humans, Models, Genetic, Models, Molecular, Mutation, Phylogeny, Proteins classification, Computational Biology methods, Evolution, Molecular, Protein Structure, Tertiary, Proteins chemistry, Proteins genetics
- Abstract
Co-evolution is a fundamental component of the theory of evolution and is essential for understanding the relationships between species in complex ecological networks. A wide range of co-evolution-inspired computational methods has been designed to predict molecular interactions, but it is only recently that important advances have been made. Breakthroughs in the handling of phylogenetic information and in disentangling indirect relationships have resulted in an improved capacity to predict interactions between proteins and contacts between different protein residues. Here, we review the main co-evolution-based computational approaches, their theoretical basis, potential applications and foreseeable developments.
- Published
- 2013
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23. HLA-DRB1*15:01 and multiple sclerosis: a female association?
- Author
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Irizar H, Muñoz-Culla M, Zuriarrain O, Goyenechea E, Castillo-Triviño T, Prada A, Saenz-Cuesta M, De Juan D, Lopez de Munain A, Olascoaga J, and Otaegui D
- Subjects
- Adult, Case-Control Studies, Chi-Square Distribution, Female, Gene Expression Regulation, Gene Frequency, Genetic Predisposition to Disease, Haplotypes, Humans, Male, Middle Aged, Multiple Sclerosis immunology, Odds Ratio, Phenotype, Polymerase Chain Reaction, Receptors, Calcitriol genetics, Risk Assessment, Risk Factors, Sex Factors, Spain, Genetic Variation, HLA-DRB1 Chains genetics, Multiple Sclerosis genetics
- Abstract
Background: The association between multiple sclerosis (MS) and the HLA-DRB1*15:01 haplotype has been proven to be strong, but its molecular basis remains unclear. Vitamin D receptor (VDR) gene variants and sex have been proposed to modulate this association., Objectives: 1) Test the association of MS with *15:01 and VDR variants; 2) check whether VDR variants and/or sex modulate the risk conferred by *15:01; 3) study whether *15:01, VDR variants and/or sex affect HLA II gene expression., Methods: Peripheral blood from 364 MS patients and 513 healthy controls was obtained and DNA and total RNA were extracted from leukocytes. HLA-DRB1, DRB5 and DQA1 gene expression measurements and *15:01 genotyping were performed by qPCR. VDR variants were genotyped by PCR-RFLP., Results: Our data confirms that the *15:01 haplotype confers a higher risk of suffering from MS (OR = 1.364; 95% CI = 1.107-1.681). No association was found between VDR variants and MS, but they were shown to moderately modulate the risk conferred by *15:01. Sex confers a much stronger modulation and the *15:01-MS association seems to be female specific. A higher *15:01 frequency has been observed in Basques (45.1%). *15:01 positive samples showed a significant overexpression of DRB1 (p < 0.001), DRB5 (p < 0.001) and DQA1 (p = 0.004) in patients. DRB1 (p = 0.004) and DRB5 (p < 0.001) were also overexpressed in *15:01 controls., Conclusions: We confirm the *15:01-MS association and support that it is female specific. The relevance of ethnic origin on association studies has also been highlighted. HLA-DRB1*15:01 seems to be a haplotype consistently linked to high HLA II gene expression.
- Published
- 2012
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24. Mirroring co-evolving trees in the light of their topologies.
- Author
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Hajirasouliha I, Schönhuth A, de Juan D, Valencia A, and Sahinalp SC
- Subjects
- Animals, Humans, Protein Structure, Tertiary, Proteins chemistry, Software, Algorithms, Phylogeny, Proteins genetics
- Abstract
Motivation: Determining the interaction partners among protein/domain families poses hard computational problems, in particular in the presence of paralogous proteins. Available approaches aim to identify interaction partners among protein/domain families through maximizing the similarity between trimmed versions of their phylogenetic trees. Since maximization of any natural similarity score is computationally difficult, many approaches employ heuristics to evaluate the distance matrices corresponding to the tree topologies in question. In this article, we devise an efficient deterministic algorithm which directly maximizes the similarity between two leaf labeled trees with edge lengths, obtaining a score-optimal alignment of the two trees in question., Results: Our algorithm is significantly faster than those methods based on distance matrix comparison: 1 min on a single processor versus 730 h on a supercomputer. Furthermore, we outperform the current state-of-the-art exhaustive search approach in terms of precision, while incurring acceptable losses in recall., Availability: A C implementation of the method demonstrated in this article is available at http://compbio.cs.sfu.ca/mirrort.htm
- Published
- 2012
- Full Text
- View/download PDF
25. Uncovering the molecular machinery of the human spindle--an integration of wet and dry systems biology.
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Rojas AM, Santamaria A, Malik R, Jensen TS, Körner R, Morilla I, de Juan D, Krallinger M, Hansen DA, Hoffmann R, Lees J, Reid A, Yeats C, Wehner A, Elowe S, Clegg AB, Brunak S, Nigg EA, Orengo C, Valencia A, and Ranea JA
- Subjects
- Data Mining, Databases, Protein, HeLa Cells, Humans, Microscopy, Fluorescence, Plasmids genetics, Protein Structure, Tertiary, PubMed, RNA, Small Interfering genetics, Sensitivity and Specificity, Transfection, Cell Cycle Proteins metabolism, Computational Biology methods, Protein Interaction Mapping methods, Proteomics methods, Spindle Apparatus metabolism
- Abstract
The mitotic spindle is an essential molecular machine involved in cell division, whose composition has been studied extensively by detailed cellular biology, high-throughput proteomics, and RNA interference experiments. However, because of its dynamic organization and complex regulation it is difficult to obtain a complete description of its molecular composition. We have implemented an integrated computational approach to characterize novel human spindle components and have analysed in detail the individual candidates predicted to be spindle proteins, as well as the network of predicted relations connecting known and putative spindle proteins. The subsequent experimental validation of a number of predicted novel proteins confirmed not only their association with the spindle apparatus but also their role in mitosis. We found that 75% of our tested proteins are localizing to the spindle apparatus compared to a success rate of 35% when expert knowledge alone was used. We compare our results to the previously published MitoCheck study and see that our approach does validate some findings by this consortium. Further, we predict so-called "hidden spindle hub", proteins whose network of interactions is still poorly characterised by experimental means and which are thought to influence the functionality of the mitotic spindle on a large scale. Our analyses suggest that we are still far from knowing the complete repertoire of functionally important components of the human spindle network. Combining integrated bio-computational approaches and single gene experimental follow-ups could be key to exploring the still hidden regions of the human spindle system.
- Published
- 2012
- Full Text
- View/download PDF
26. Scoring docking models with evolutionary information.
- Author
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Tress M, de Juan D, Graña O, Gómez MJ, Gómez-Puertas P, González JM, López G, and Valencia A
- Subjects
- Algorithms, Animals, Computer Simulation, Databases, Protein, Dimerization, Humans, Macromolecular Substances, Models, Molecular, Models, Statistical, Molecular Conformation, Mutation, Protein Conformation, Protein Folding, Protein Structure, Tertiary, Reproducibility of Results, Software, Static Electricity, Structural Homology, Protein, Computational Biology methods, Evolution, Molecular, Protein Interaction Mapping methods, Proteomics methods
- Abstract
We have developed methods for the extraction of evolutionary information from multiple sequence alignments for use in the study of the evolution of protein interaction networks and in the prediction of protein interaction. For Rounds 3, 4, and 5 of the CAPRI experiment, we used scores derived from the analysis of multiple sequence alignments to submit predictions for 7 of the 12 targets. Our docking models were generated with Hex and GRAMM, but all our predictions were selected using methods based on multiple sequence alignments and on the available experimental evidence. With this approach, we were able to predict acceptable level models for 4 of the targets, and for a fifth target, we located the residues involved in the binding surface. Here we detail our successes and highlight several of the limitations and problems that we faced while dealing with particular docking cases.
- Published
- 2005
- Full Text
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27. HFE gene mutations analysis in Basque hereditary haemochromatosis patients and controls.
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de Juan D, Reta A, Castiella A, Pozueta J, Prada A, and Cuadrado E
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- Adult, Aged, DNA Mutational Analysis, Female, Gene Frequency, Genetic Predisposition to Disease, Hemochromatosis epidemiology, Hemochromatosis Protein, Humans, Male, Middle Aged, Prevalence, Spain epidemiology, HLA Antigens genetics, Hemochromatosis genetics, Histocompatibility Antigens Class I genetics, Membrane Proteins
- Abstract
C282Y/C282Y genotype is the prevalent genotype in Hereditary Haemochromatosis (HH), however, other genotypes have been associated with the disease. The objective of our study was to analyse the frequency of the three main mutations of HFE gene in HH patients and controls from the Basque population with differential genetic characteristics. Thirty five HH patients and 116 controls were screened for C282Y, H63D and S65C mutations using a PCR-RFLP technique. The association of HLA-A and-B alleles and HFE mutations was also studied in Basque controls. The frequency of C282Y homozygotes in the group of patients was only 57%. The rest of the patients presented heterogeneous genotypes, including compound heterozygotes: 11% of them were C282Y/H63D; and 2.85% were H63D/S65C. H63D or S65C heterozygotes had a frequency of 11% and 2.85 respectively and 5.71% patients lacked any mutation The high frequency of H63D in the healthy Basque population is confirmed in this study. A considerable incidence of S65C is observed either in controls and in HH (3%) or in iron overloaded patients. The peculiar genetic characteristics of Basques could explain the heterogeneity of genotypes in HH patients of this group. Further studies should be carried out to confirm these findings although the implication of other genetic or external factors in the development of HH is suggested.
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- 2001
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28. Distribution of the CCR5 gene 32 base pair deletion and SDF1-3'A variant in healthy individuals from different populations.
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Magierowska M, Lepage V, Boubnova L, Carcassi C, de Juan D, Djoulah S, El Chenawi F, Grunnet N, Hallé L, Ivanova R, Jungerman M, Naumova E, Petrany G, Sonnerborg A, Stavropoulos C, Thorsby E, Vu-Trieu A, Debré P, Theodorou I, and Charron D
- Subjects
- Base Pairing, Chemokine CXCL12, Genetic Variation, Genetics, Population, Humans, Chemokines, CXC genetics, Receptors, CCR5 genetics, Sequence Deletion
- Published
- 1998
- Full Text
- View/download PDF
29. HLA class I, class II, and class III antigen sharing is not found in couples with unexplained infertility.
- Author
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Martín-Villa JM, De Juan D, Vicario JL, Luque IM, Alvarez E, Cortés-Prieto J, and Arnaiz-Villena A
- Subjects
- Antilymphocyte Serum blood, Autoantibodies analysis, Complement Factor B genetics, Female, Gene Frequency, HLA Antigens genetics, HLA-A Antigens analysis, HLA-A Antigens genetics, HLA-B Antigens analysis, HLA-B Antigens genetics, HLA-C Antigens analysis, HLA-C Antigens genetics, HLA-DR Antigens analysis, HLA-DR Antigens genetics, Humans, Immunophenotyping, Infertility genetics, Isoantigens analysis, Lactoylglutathione Lyase genetics, Lymphocyte Culture Test, Mixed, Male, Spermatozoa immunology, Complement Factor B analysis, HLA Antigens analysis, Infertility immunology, Lactoylglutathione Lyase analysis
- Abstract
Objective: To find the degree of HLA antigen sharing in couples with infertility of unknown etiology and compare it with that in couples with infertility of known etiology as well as couples with normal fertility., Subjects: Eleven couples with infertility of unknown etiology, 26 with infertility of known etiology, and 31 fertile couples were tested for HLA class I (A, B, C), class II (DR, MLC), and class III (Bf) antigens and GLO alleles. HLA lymphocytotoxic antibodies and anti-sperm antibodies in both partners were also searched., Results: Gene frequencies and the number of HLA antigens shared between the two members of the couple were similar in all groups. When "intra-couple" MLC reactivity was measured, no quantitative differences were found in the infertile group with unknown etiology, as compared to the group of known etiology: spouses in couples of either group usually reacted in both ways as expected for unrelated individuals" lymphocytes. Lymphocytotoxic antibody frequency did not differ between the nonfertile groups, and anti-sperm antibodies, found in ten patients in the group of known etiology, were not associated with any HLA antigen. In spite of that, GLO and all the HLA antigen classes described (I, II and III) were analyzed., Conclusions: Although the results are negative, these and others' (negative) results concerning couples with infertility of unknown etiology do not disprove that HLA has a role in fertilization, because HLA-related factors still unknown may exist. Exhaustive HLA available marker typing in international cooperative efforts may be needed to reach a significant number of carefully selected couples fully HLA typed to elucidate this problem.
- Published
- 1993
30. Differential contribution of C4 and HLA-DQ genes to systemic lupus erythematosus susceptibility.
- Author
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De Juan D, Martín-Villa JM, Gómez-Reino JJ, Vicario JL, Corell A, Martínez-Laso J, Benmammar D, and Arnaiz-Villena A
- Subjects
- Disease Susceptibility, Genetic Linkage, Humans, Major Histocompatibility Complex, Polymorphism, Restriction Fragment Length, Complement C4 genetics, HLA-DQ Antigens genetics, Lupus Erythematosus, Systemic genetics
- Abstract
The particular histocompatability antigen (HLA) gene(s) that may confer systemic lupus erythematosus (SLE) susceptibility remains unknown. In the present study, 58 unrelated patients and 69 controls have been analyzed for their class I and class II serologic antigens, class II (DR and DQ) DNA restriction fragment length polymorphism, their deduced DQA1 and B1 exon 2 nucleotide sequences and their corresponding amino acid residues. By using the etiologic fraction (delta) as an almost absolute measure of the strongest linkage disequilibrium of an HLA marker to the putative SLE susceptibility locus, it has been found that the strength of association of the HLA marker may be quantified as follows: DQA1*0501 (associated to DR3) or DQB1*0201 (associated to DR3) > non Asp 57 beta DQ/Arg 52 alpha DQ > DR3 > non Asp 57 beta DQ. Thus, molecular HLA DQ markers tend to be more accurate as susceptibility markers than the classical serologic markers (DR3). However, dominant or recessive non Asp 57 beta DQ susceptibility theories, as previously postulated for insulin-dependent diabetes mellitus, do not hold in our SLE nephritic population; indeed, three patients bear neither Arg 52 alpha DQ nor Asp 57 beta DQ suscepibility factors. On the other hand, nonsusceptibility factors are included in our population in the A30B18CF130-DR3DQ2(Dw25) haplotype and not in A1B8CS01-DR3DQ2(Dw24); this distinctive association has also been recorded in type I diabetes mellitus and may reflect the existence of common pathogenic HLA-linked factors for both diseases only in the A30B18CF10DR3DQ2(Dw25) haplotype. Finally, the observed increase of deleted C4 genes (and not 'null' C4 proteins) in nephritic patients shows that C4 genes are disease markers, but probably without a pathogenic role.
- Published
- 1993
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31. T-lymphocyte dysfunctions occurring together with apical gut epithelial cell autoantibodies.
- Author
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Martín-Villa JM, Regueiro JR, de Juan D, Pérez-Aciego P, Pérez Blas M, Manzanares J, Varela G, and Arnaiz-Villena A
- Subjects
- Adult, Autoimmune Diseases immunology, Child, Child, Preschool, Complement Fixation Tests, Dysgammaglobulinemia immunology, Epithelial Cells, Epithelium immunology, Female, Fluorescent Antibody Technique, Humans, IgA Deficiency, IgG Deficiency, Intestinal Diseases immunology, Male, T-Lymphocytes immunology, Autoantibodies analysis, Intestines immunology, T-Lymphocytes physiology
- Abstract
Gut epithelial cell autoantibodies have been considered a hallmark of autoimmune enteropathy, a disorder occurring in children with protracted diarrhea of unknown etiology. Four patients (two male and two female) with such autoantibodies were studied. Immunofluorescence analysis showed two different disjunctive staining patterns: complement-fixing apical (three of four) and cytoplasmic (the remaining fourth one), which are shown to be directed against different structures. All three patients positive for complement-fixing apical gut epithelial cell autoantibodies had abnormal T-cell responses in vitro, one of them with an immunoglobulin G2 immunoglobulin deficiency and another with an immunoglobulin A deficiency. An immunoglobulin A deficiency without T-cell alterations was also diagnosed in the cytoplasmic gut epithelial cell autoantibody-positive patient. These findings suggest that different immunologic alterations (either a T-cell abnormality or immunoglobulin deficiency) may favor the appearance of gut epithelial cell autoantibodies (complement-fixing apical or cytoplasmic, respectively). Furthermore, these autoantibodies should not be considered a specific marker of autoimmune enteropathy, because they may not always be associated with such a disease: two patients with apical gut epithelial cell autoantibodies showed no signs of intestinal lesion or diarrhea.
- Published
- 1991
- Full Text
- View/download PDF
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