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Article ; Online: Integrated Data Analysis Uncovers New COVID-19 Related Genes and Potential Drug Re-Purposing Candidates.

Xenos, Alexandros / Malod-Dognin, Noël / Zambrana, Carme / Pržulj, Nataša

International journal of molecular sciences

2023 Volume 24, Issue 2

Abstract: The COVID-19 pandemic is an acute and rapidly evolving global health crisis. To better understand this disease's molecular basis and design therapeutic strategies, we built upon the recently proposed concept of an integrated cell, iCell, fusing three ... ...

Abstract	The COVID-19 pandemic is an acute and rapidly evolving global health crisis. To better understand this disease's molecular basis and design therapeutic strategies, we built upon the recently proposed concept of an integrated cell, iCell, fusing three omics, tissue-specific human molecular interaction networks. We applied this methodology to construct infected and control iCells using gene expression data from patient samples and three cell lines. We found large differences between patient-based and cell line-based iCells (both infected and control), suggesting that cell lines are ill-suited to studying this disease. We compared patient-based infected and control iCells and uncovered genes whose functioning (wiring patterns in iCells) is altered by the disease. We validated in the literature that 18 out of the top 20 of the most rewired genes are indeed COVID-19-related. Since only three of these genes are targets of approved drugs, we applied another data fusion step to predict drugs for re-purposing. We confirmed with molecular docking that the predicted drugs can bind to their predicted targets. Our most interesting prediction is artenimol, an antimalarial agent targeting ZFP62, one of our newly identified COVID-19-related genes. This drug is a derivative of artemisinin drugs that are already under clinical investigation for their potential role in the treatment of COVID-19. Our results demonstrate further applicability of the iCell framework for integrative comparative studies of human diseases.
MeSH term(s)	Humans ; COVID-19/genetics ; Molecular Docking Simulation ; Pandemics ; Drug Repositioning
Language	English
Publishing date	2023-01-11
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms24021431
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Article ; Online: Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates.

Zambrana, Carme / Xenos, Alexandros / Böttcher, René / Malod-Dognin, Noël / Pržulj, Nataša

Scientific reports

2021 Volume 11, Issue 1, Page(s) 18985

Abstract: The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize ... ...

Abstract	The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize it on new omics data on viral-host interactions, human protein interactions, and drugs to better understand SARS-CoV-2 infection mechanisms and predict new drug-target interactions for COVID-19. We discover that in the human interactome, the human proteins targeted by SARS-CoV-2 proteins and the genes that are differentially expressed after the infection have common neighbors central in the interactome that may be key to the disease mechanisms. We uncover 185 new drug-target interactions targeting 49 of these key genes and suggest re-purposing of 149 FDA-approved drugs, including drugs targeting VEGF and nitric oxide signaling, whose pathways coincide with the observed COVID-19 symptoms. Our integrative methodology is universal and can enable insight into this and other serious diseases.
MeSH term(s)	Antiviral Agents/therapeutic use ; Artificial Intelligence ; COVID-19/genetics ; COVID-19/metabolism ; Drug Evaluation, Preclinical/methods ; Drug Repositioning/methods ; Gene Regulatory Networks/genetics ; Humans ; Models, Theoretical ; Pandemics ; Pharmaceutical Preparations ; SARS-CoV-2/drug effects ; SARS-CoV-2/genetics ; SARS-CoV-2/pathogenicity ; Signal Transduction/genetics ; COVID-19 Drug Treatment
Chemical Substances	Antiviral Agents ; Pharmaceutical Preparations
Language	English
Publishing date	2021-09-23
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-021-98289-x
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Article ; Online: Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates

Carme Zambrana / Alexandros Xenos / René Böttcher / Noël Malod-Dognin / Nataša Pržulj

Scientific Reports, Vol 11, Iss 1, Pp 1-

2021 Volume 15

Abstract: Abstract The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and ...

Abstract	Abstract The COVID-19 pandemic is raging. It revealed the importance of rapid scientific advancement towards understanding and treating new diseases. To address this challenge, we adapt an explainable artificial intelligence algorithm for data fusion and utilize it on new omics data on viral–host interactions, human protein interactions, and drugs to better understand SARS-CoV-2 infection mechanisms and predict new drug–target interactions for COVID-19. We discover that in the human interactome, the human proteins targeted by SARS-CoV-2 proteins and the genes that are differentially expressed after the infection have common neighbors central in the interactome that may be key to the disease mechanisms. We uncover 185 new drug–target interactions targeting 49 of these key genes and suggest re-purposing of 149 FDA-approved drugs, including drugs targeting VEGF and nitric oxide signaling, whose pathways coincide with the observed COVID-19 symptoms. Our integrative methodology is universal and can enable insight into this and other serious diseases.
Keywords	Medicine ; R ; Science ; Q
Subject code	572
Language	English
Publishing date	2021-09-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Disability, Human Resources and Behavioral Economics: The Labour Inclusion Case of Ilunion Hotels of the Costa del Sol (Spain).

Cruz-Morato, Marco Antonio / Dueñas-Zambrana, Carmen / García-Mestanza, Josefa

International journal of environmental research and public health

2021 Volume 18, Issue 15

Abstract: The situation of labour inclusion of people with disabilities in Spain is still too negative, in spite of the different efforts carried out by public and private sector. Previous research points to social discrimination as one of the main causes of the ... ...

Abstract	The situation of labour inclusion of people with disabilities in Spain is still too negative, in spite of the different efforts carried out by public and private sector. Previous research points to social discrimination as one of the main causes of the situation. Ilunion Hotels is one of the most important hotel companies in Spain focused on labour inclusion of people with disabilities. The objective of this paper is to explore the social inclusion case of Ilunion Hotels of the Costa del Sol, the actions that they have developed to improve the labour integration of this collective, based on a behavioral economics theoretical model (with a high relevance of the influence of social stigma, stress theories and coping to stress responses). We look into the specific situation of two of the three hotels developed as Special Employment Centres (sheltered employment contexts defined by Spanish legislation) and the possible impact of their Support Units for Professional Activity. Case study methodology is considered the most appropriate, according to the research objective, supported by semi-structured interviews with the hotel managers. The results show that, although Special Employment Centres are effective in improving labour integration in the short term and could contribute to change the long-term social perspectives about workers with disabilities, they could be also reinforcing the social stigma existing in the ordinary market.
MeSH term(s)	Disabled Persons ; Economics ; Economics, Behavioral ; Employment ; Humans ; Spain ; Workforce
Language	English
Publishing date	2021-07-27
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2175195-X
ISSN	1660-4601 ; 1661-7827
ISSN (online)	1660-4601
ISSN	1661-7827
DOI	10.3390/ijerph18157932
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Article ; Online: Successful Pregnancy and Cancer Outcomes With Ipilimumab and Nivolumab for Metastatic Renal Cell Carcinoma: Case Report and Review of the Literature.

Zambrana, Francisco / Barbancho, Carmen / Huelves, Miriam / García de Santiago, Belén / Martín, Yolanda / Muñoz de Lengaria, Marta / de Velasco, Guillermo

Journal of immunotherapy (Hagerstown, Md. : 1997)

2022 Volume 46, Issue 1, Page(s) 27–28

Abstract: Pregnancy and cancer share CTLA-4 and PD-1/PD-L1 as some of the immunomodulatory pathways that reshape the immune system from a destructive response to a state of tolerance to the fetus and the tumor, respectively. Ipilimumab (anti-CTLA-4 inhibitor) and ... ...

Abstract	Pregnancy and cancer share CTLA-4 and PD-1/PD-L1 as some of the immunomodulatory pathways that reshape the immune system from a destructive response to a state of tolerance to the fetus and the tumor, respectively. Ipilimumab (anti-CTLA-4 inhibitor) and nivolumab (anti-PD-1 inhibitor) are used in combination for the treatment of metastatic renal cell carcinoma, and their use could theoretically result in an immune response against the fetus. Furthermore, these immune checkpoint inhibitors are immunoglobulin G antibodies that transfer from the mother to the fetus and may cause a direct toxicity. We present the first report of a metastatic renal cell carcinoma patient in which ipilimumab and nivolumab were successfully used starting in her first trimester of pregnancy, with sufficient follow-up to show favorable outcomes for both the mother and the child. We describe our management of this challenging case and we review the available evidence, coming from Developmental and Reproductive Toxicology Studies and case reports of metastatic melanoma patients.
MeSH term(s)	Humans ; Child ; Pregnancy ; Female ; Ipilimumab/adverse effects ; Nivolumab/therapeutic use ; Carcinoma, Renal Cell/diagnosis ; Carcinoma, Renal Cell/drug therapy ; Kidney Neoplasms/diagnosis ; Kidney Neoplasms/drug therapy
Chemical Substances	Ipilimumab ; Nivolumab (31YO63LBSN)
Language	English
Publishing date	2022-11-04
Publishing country	United States
Document type	Review ; Case Reports ; Journal Article
ZDB-ID	1064067-8
ISSN	1537-4513 ; 1053-8550 ; 1524-9557
ISSN (online)	1537-4513
ISSN	1053-8550 ; 1524-9557
DOI	10.1097/CJI.0000000000000448
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Article ; Online: Disability, Human Resources and Behavioral Economics

Marco Antonio Cruz-Morato / Carmen Dueñas-Zambrana / Josefa García-Mestanza

International Journal of Environmental Research and Public Health, Vol 18, Iss 7932, p

The Labour Inclusion Case of Ilunion Hotels of the Costa del Sol (Spain)

2021 Volume 7932

Abstract	The situation of labour inclusion of people with disabilities in Spain is still too negative, in spite of the different efforts carried out by public and private sector. Previous research points to social discrimination as one of the main causes of the situation. Ilunion Hotels is one of the most important hotel companies in Spain focused on labour inclusion of people with disabilities. The objective of this paper is to explore the social inclusion case of Ilunion Hotels of the Costa del Sol, the actions that they have developed to improve the labour integration of this collective, based on a behavioral economics theoretical model (with a high relevance of the influence of social stigma, stress theories and coping to stress responses). We look into the specific situation of two of the three hotels developed as Special Employment Centres (sheltered employment contexts defined by Spanish legislation) and the possible impact of their Support Units for Professional Activity. Case study methodology is considered the most appropriate, according to the research objective, supported by semi-structured interviews with the hotel managers. The results show that, although Special Employment Centres are effective in improving labour integration in the short term and could contribute to change the long-term social perspectives about workers with disabilities, they could be also reinforcing the social stigma existing in the ordinary market.
Keywords	disability ; human resources ; behavioral economics ; social inclusion ; hotel industry ; labour inclusion ; Medicine ; R
Subject code	910
Language	English
Publishing date	2021-07-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Special Employment Centres, Time Factor and Sustainable Human Resources Management in Spanish Hotel Industry

Marco Antonio Cruz-Morato / Josefa García-Mestanza / Carmen Dueñas-Zambrana

Sustainability, Vol 13, Iss 10710, p

Can Corporate Social Marketing Improve the Labour Situation of People with Disabilities?

2021 Volume 10710

Abstract: Background: Low-quality jobs, long working hours and difficult scheduling of hours have been usually reported in the hotel industry. The situation is more difficult for people with disabilities (PWD), even more in the COVID-19 crisis, especially in terms ...

Abstract	Background: Low-quality jobs, long working hours and difficult scheduling of hours have been usually reported in the hotel industry. The situation is more difficult for people with disabilities (PWD), even more in the COVID-19 crisis, especially in terms of labour inclusion (due to the labour discrimination usually suffered by this collective). Thus, Special Employment Centres (SEC) have been created in Spain to spread protected employment of PWD. Although they are improving the situation in the short term, the long-term impact developing sustainable employment is not clear. The objective of this paper is to analyze the Spanish situation, the possible differences between sheltered employment and the ordinary labour market, how SEC could be improving (or not) their labour situation in the hotel sector in the long term, and the potential of incorporating Corporate Social Marketing to overcome the problem. Methods: A content bibliographic analysis has been carried out according to the latest research about this topic, using a ProKnow-C methodology. Results: There seems to be two different groups of papers (supply and demand sides), being the supply side one (focused on HR practices about PWD inclusion and managers’ perceptions of workers with disabilities) more related to our research objective. Furthermore, few articles were found about SEC and Corporate Social Marketing in relation to this topic, highlighting the originality of this research approach. Conclusions: According to our bibliographic portfolio, the presence of labour discrimination in the regular market is more evident; and, in the long term, two opposite situations could be happening simultaneously: (a) SEC would be reinforcing the social stigma, hindering the labour situation of PWD; (b) SEC could be changing the social perspectives of clients and all society in a positive manner. Therefore, it would be necessary to go in-depth into the present subject, from an academic but also practical perspective, incorporating an innovative Corporate Social ...
Keywords	Special Employment Centres ; people with disabilities ; hotel industry ; human resources ; labour inclusion ; discrimination ; Environmental effects of industries and plants ; TD194-195 ; Renewable energy sources ; TJ807-830 ; Environmental sciences ; GE1-350
Subject code	910
Language	English
Publishing date	2021-09-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Author Correction

Paula R. Prist / Florencia Sangermano / Allison Bailey / Victoria Bugni / María del Carmen Villalobos-Segura / Nataly Pimiento-Quiroga / Peter Daszak / Carlos Zambrana-Torrelio

Communications Earth & Environment, Vol 4, Iss 1, Pp 1-

Protecting Brazilian Amazon Indigenous territories reduces atmospheric particulates and avoids associated health impacts and costs

2023 Volume 1

Keywords	Geology ; QE1-996.5 ; Environmental sciences ; GE1-350
Language	English
Publishing date	2023-04-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Protecting Brazilian Amazon Indigenous territories reduces atmospheric particulates and avoids associated health impacts and costs

Paula R. Prist / Florencia Sangermano / Allison Bailey / Victoria Bugni / María del Carmen Villalobos-Segura / Nataly Pimiento-Quiroga / Peter Daszak / Carlos Zambrana-Torrelio

Communications Earth & Environment, Vol 4, Iss 1, Pp 1-

2023 Volume 12

Abstract: Abstract Indigenous territories are considered important for conservation, but little is known about their role in maintaining human health. Here we quantified the potential human health and economic benefits of protecting these territories in the ... ...

Abstract	Abstract Indigenous territories are considered important for conservation, but little is known about their role in maintaining human health. Here we quantified the potential human health and economic benefits of protecting these territories in the Brazilian Amazon, by using cardiovascular and respiratory diseases cases, pollutant and forest cover data. Between 2010 and 2019, 1.68 tons of Particulate Matter of small size (PM2.5) were released every year, with negative effects for human health. A lower number of diseases and infections was also found in municipalities with more forested areas, and with a low level of fragmentation, which probably is related to the potential capacity of the Amazon Forest to absorb PM2.5 (26,376.66 tons year−1, 27% of this absorption capacity in Indigenous territories). Our estimates indicate that by protecting Amazon Indigenous territories, over 15 million of respiratory and cardiovascular cases could be avoided every year, with ~$2 billion USD being saved only in health costs.
Keywords	Geology ; QE1-996.5 ; Environmental sciences ; GE1-350
Subject code	333
Language	English
Publishing date	2023-04-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Diagnostic performance of transvaginal gray-scale ultrasound for specific diagnosis of benign ovarian cysts in relation to menopausal status.

Alcázar, Juan Luis / Guerriero, Stefano / Laparte, Carmen / Ajossa, Silvia / Ruiz-Zambrana, Alvaro / Melis, Gian-Benedetto

Maturitas

2011 Volume 68, Issue 2, Page(s) 182–188

Abstract: In this study we aimed to assess the diagnostic accuracy of transvaginal ultrasound for assigning a specific diagnosis to benign adnexal masses in pre- and postmenopausal women. The study comprised 2146 adnexal masses in 1980 women. 1420 women were ... ...

Abstract	In this study we aimed to assess the diagnostic accuracy of transvaginal ultrasound for assigning a specific diagnosis to benign adnexal masses in pre- and postmenopausal women. The study comprised 2146 adnexal masses in 1980 women. 1420 women were premenopausal and 560 were postmenopausal. Specific diagnosis of presumed histology of the lesion using gray-scale ultrasound findings was provided based on examiner's impression. Definitive diagnosis was obtained in all cases. Sensitivity and specificity for each diagnosis were calculated in both pre and postmenopausal women. Specificity for malignant tumors was significantly higher in premenopausal women (p<0.001). Sensitivity for endometrioma (p<0.05) and hemorrhagic cyst (p<0.01) was significantly higher in premenopausal women. There was a trend for a higher sensitivity for serous cyst in postmenopausal women (p=0.09). We conclude that the diagnostic performance of transvaginal gray-scale ultrasound for specific diagnosis of adnexal masses based on examiner's impression is different in premenopausal and postmenopausal women.
MeSH term(s)	Adolescent ; Adult ; Aged ; Aged, 80 and over ; Diagnosis, Differential ; Endometriosis/diagnostic imaging ; Endometriosis/pathology ; Female ; Humans ; Middle Aged ; Ovarian Cysts/diagnostic imaging ; Ovarian Cysts/pathology ; Ovarian Neoplasms/diagnostic imaging ; Ovarian Neoplasms/pathology ; Ovary/diagnostic imaging ; Ovary/pathology ; Postmenopause ; Premenopause ; Sensitivity and Specificity ; Ultrasonography ; Vagina/diagnostic imaging ; Young Adult
Language	English
Publishing date	2011-02
Publishing country	Ireland
Document type	Comparative Study ; Journal Article
ZDB-ID	80460-5
ISSN	1873-4111 ; 0378-5122
ISSN (online)	1873-4111
ISSN	0378-5122
DOI	10.1016/j.maturitas.2010.09.013
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