TY  - JOUR
AU  - Bajić, Vladan P.
AU  - Salhi, Adil
AU  - Lakota, Katja
AU  - Radovanović, Aleksandar
AU  - Razali, Rozaimi
AU  - Živković, Lada
AU  - Spremo-Potparević, Biljana
AU  - Uludag, Mahmut
AU  - Tifratene, Faroug
AU  - Motwalli, Olaa
AU  - Marchand, Benoit
AU  - Bajić, Vladimir
AU  - Gojobori, Takashi
AU  - Isenović, Esma R.
AU  - Essack, Magbubah
PY  - 2022
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/10387
AB  - More than 30 types of amyloids are linked to close to 50 diseases in humans, the most prom- inent being Alzheimer’s disease (AD). AD is brain-related local amyloidosis, while another amyloidosis, such as AA amyloidosis, tends to be more systemic. Therefore, we need to know more about the biological entities’ influencing these amyloidosis processes. However, there is currently no support system developed specifically to handle this extraordinarily complex and demanding task. To acquire a systematic view of amyloidosis and how this may be relevant to the brain and other organs, we needed a means to explore "amyloid net- work systems" that may underly processes that leads to an amyloid-related disease. In this regard, we developed the DES-Amyloidoses knowledgebase (KB) to obtain fast and rele- vant information regarding the biological network related to amyloid proteins/peptides and amyloid-related diseases. This KB contains information obtained through text and data min- ing of available scientific literature and other public repositories. The information compiled into the DES-Amyloidoses system based on 19 topic-specific dictionaries resulted in 796,409 associations between terms from these dictionaries. Users can explore this infor- mation through various options, including enriched concepts, enriched pairs, and semantic similarity. We show the usefulness of the KB using an example focused on inflammasome- amyloid associations. To our knowledge, this is the only KB dedicated to human amyloid- related diseases derived primarily through literature text mining and complemented by data mining that provides a novel way of exploring information relevant to amyloidoses.
T2  - PLoS ONE
T1  - DES-Amyloidoses “Amyloidoses through thelooking-glass”: A knowledgebase developedfor exploring and linking information relatedto human amyloid-related diseases
VL  - 17
IS  - 7
DO  - 10.1371/journal.pone.0271737
ER  - 

@article{
author = "Bajić, Vladan P. and Salhi, Adil and Lakota, Katja and Radovanović, Aleksandar and Razali, Rozaimi and Živković, Lada and Spremo-Potparević, Biljana and Uludag, Mahmut and Tifratene, Faroug and Motwalli, Olaa and Marchand, Benoit and Bajić, Vladimir and Gojobori, Takashi and Isenović, Esma R. and Essack, Magbubah",
year = "2022",
abstract = "More than 30 types of amyloids are linked to close to 50 diseases in humans, the most prom- inent being Alzheimer’s disease (AD). AD is brain-related local amyloidosis, while another amyloidosis, such as AA amyloidosis, tends to be more systemic. Therefore, we need to know more about the biological entities’ influencing these amyloidosis processes. However, there is currently no support system developed specifically to handle this extraordinarily complex and demanding task. To acquire a systematic view of amyloidosis and how this may be relevant to the brain and other organs, we needed a means to explore "amyloid net- work systems" that may underly processes that leads to an amyloid-related disease. In this regard, we developed the DES-Amyloidoses knowledgebase (KB) to obtain fast and rele- vant information regarding the biological network related to amyloid proteins/peptides and amyloid-related diseases. This KB contains information obtained through text and data min- ing of available scientific literature and other public repositories. The information compiled into the DES-Amyloidoses system based on 19 topic-specific dictionaries resulted in 796,409 associations between terms from these dictionaries. Users can explore this infor- mation through various options, including enriched concepts, enriched pairs, and semantic similarity. We show the usefulness of the KB using an example focused on inflammasome- amyloid associations. To our knowledge, this is the only KB dedicated to human amyloid- related diseases derived primarily through literature text mining and complemented by data mining that provides a novel way of exploring information relevant to amyloidoses.",
journal = "PLoS ONE",
title = "DES-Amyloidoses “Amyloidoses through thelooking-glass”: A knowledgebase developedfor exploring and linking information relatedto human amyloid-related diseases",
volume = "17",
number = "7",
doi = "10.1371/journal.pone.0271737"
}

Bajić, V. P., Salhi, A., Lakota, K., Radovanović, A., Razali, R., Živković, L., Spremo-Potparević, B., Uludag, M., Tifratene, F., Motwalli, O., Marchand, B., Bajić, V., Gojobori, T., Isenović, E. R.,& Essack, M.. (2022). DES-Amyloidoses “Amyloidoses through thelooking-glass”: A knowledgebase developedfor exploring and linking information relatedto human amyloid-related diseases. in PLoS ONE, 17(7).
https://doi.org/10.1371/journal.pone.0271737

Bajić VP, Salhi A, Lakota K, Radovanović A, Razali R, Živković L, Spremo-Potparević B, Uludag M, Tifratene F, Motwalli O, Marchand B, Bajić V, Gojobori T, Isenović ER, Essack M. DES-Amyloidoses “Amyloidoses through thelooking-glass”: A knowledgebase developedfor exploring and linking information relatedto human amyloid-related diseases. in PLoS ONE. 2022;17(7).
doi:10.1371/journal.pone.0271737 .

Bajić, Vladan P., Salhi, Adil, Lakota, Katja, Radovanović, Aleksandar, Razali, Rozaimi, Živković, Lada, Spremo-Potparević, Biljana, Uludag, Mahmut, Tifratene, Faroug, Motwalli, Olaa, Marchand, Benoit, Bajić, Vladimir, Gojobori, Takashi, Isenović, Esma R., Essack, Magbubah, "DES-Amyloidoses “Amyloidoses through thelooking-glass”: A knowledgebase developedfor exploring and linking information relatedto human amyloid-related diseases" in PLoS ONE, 17, no. 7 (2022),
https://doi.org/10.1371/journal.pone.0271737 . .

TY  - JOUR
AU  - Zarić, Božidarka
AU  - Radovanović, Jelena N.
AU  - Gluvić, Zoran
AU  - Stewart, Alan J.
AU  - Essack, Magbubah
AU  - Motwalli, Olaa
AU  - Gojobori, Takashi
AU  - Isenović, Esma R.
PY  - 2020
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/9681
AB  - Cardiovascular disease is the leading global health concern and responsible for more deaths worldwide than any other type of disorder. Atherosclerosis is a chronic inflammatory disease in the arterial wall, which underpins several types of cardiovascular disease. It has emerged that a strong relationship exists between alterations in amino acid (AA) metabolism and the development of atherosclerosis. Recent studies have reported positive correlations between levels of branched-chain amino acids (BCAAs) such as leucine, valine, and isoleucine in plasma and the occurrence of metabolic disturbances. Elevated serum levels of BCAAs indicate a high cardiometabolic risk. Thus, BCAAs may also impact atherosclerosis prevention and offer a novel therapeutic strategy for specific individuals at risk of coronary events. The metabolism of AAs, such as L-arginine, homoarginine, and L-tryptophan, is recognized as a critical regulator of vascular homeostasis. Dietary intake of homoarginine, taurine, and glycine can improve atherosclerosis by endothelium remodeling. Available data also suggest that the regulation of AA metabolism by indoleamine 2,3-dioxygenase (IDO) and arginases 1 and 2 are mediated through various immunological signals and that immunosuppressive AA metabolizing enzymes are promising therapeutic targets against atherosclerosis. Further clinical studies and basic studies that make use of animal models are required. Here we review recent data examining links between AA metabolism and the development of atherosclerosis.
T2  - Frontiers in Immunology
T1  - Atherosclerosis Linked to Aberrant Amino Acid Metabolism and Immunosuppressive Amino Acid Catabolizing Enzymes
VL  - 11
SP  - 2341
DO  - 10.3389/fimmu.2020.551758
ER  - 

@article{
author = "Zarić, Božidarka and Radovanović, Jelena N. and Gluvić, Zoran and Stewart, Alan J. and Essack, Magbubah and Motwalli, Olaa and Gojobori, Takashi and Isenović, Esma R.",
year = "2020",
abstract = "Cardiovascular disease is the leading global health concern and responsible for more deaths worldwide than any other type of disorder. Atherosclerosis is a chronic inflammatory disease in the arterial wall, which underpins several types of cardiovascular disease. It has emerged that a strong relationship exists between alterations in amino acid (AA) metabolism and the development of atherosclerosis. Recent studies have reported positive correlations between levels of branched-chain amino acids (BCAAs) such as leucine, valine, and isoleucine in plasma and the occurrence of metabolic disturbances. Elevated serum levels of BCAAs indicate a high cardiometabolic risk. Thus, BCAAs may also impact atherosclerosis prevention and offer a novel therapeutic strategy for specific individuals at risk of coronary events. The metabolism of AAs, such as L-arginine, homoarginine, and L-tryptophan, is recognized as a critical regulator of vascular homeostasis. Dietary intake of homoarginine, taurine, and glycine can improve atherosclerosis by endothelium remodeling. Available data also suggest that the regulation of AA metabolism by indoleamine 2,3-dioxygenase (IDO) and arginases 1 and 2 are mediated through various immunological signals and that immunosuppressive AA metabolizing enzymes are promising therapeutic targets against atherosclerosis. Further clinical studies and basic studies that make use of animal models are required. Here we review recent data examining links between AA metabolism and the development of atherosclerosis.",
journal = "Frontiers in Immunology",
title = "Atherosclerosis Linked to Aberrant Amino Acid Metabolism and Immunosuppressive Amino Acid Catabolizing Enzymes",
volume = "11",
pages = "2341",
doi = "10.3389/fimmu.2020.551758"
}

Zarić, B., Radovanović, J. N., Gluvić, Z., Stewart, A. J., Essack, M., Motwalli, O., Gojobori, T.,& Isenović, E. R.. (2020). Atherosclerosis Linked to Aberrant Amino Acid Metabolism and Immunosuppressive Amino Acid Catabolizing Enzymes. in Frontiers in Immunology, 11, 2341.
https://doi.org/10.3389/fimmu.2020.551758

Zarić B, Radovanović JN, Gluvić Z, Stewart AJ, Essack M, Motwalli O, Gojobori T, Isenović ER. Atherosclerosis Linked to Aberrant Amino Acid Metabolism and Immunosuppressive Amino Acid Catabolizing Enzymes. in Frontiers in Immunology. 2020;11:2341.
doi:10.3389/fimmu.2020.551758 .

Zarić, Božidarka, Radovanović, Jelena N., Gluvić, Zoran, Stewart, Alan J., Essack, Magbubah, Motwalli, Olaa, Gojobori, Takashi, Isenović, Esma R., "Atherosclerosis Linked to Aberrant Amino Acid Metabolism and Immunosuppressive Amino Acid Catabolizing Enzymes" in Frontiers in Immunology, 11 (2020):2341,
https://doi.org/10.3389/fimmu.2020.551758 . .