Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT
Само за регистроване кориснике
2018
Аутори
Jovanović, Ivan G.Živković, Maja
Kostić, Mirjana M.
Krstić, Zoran
Đurić, Tamara
Licastro, Danilo
Meroni, Germana
Alavantić, Dragan
Stanković, Aleksandra
Чланак у часопису (Објављена верзија)
,
© 2018 Elsevier Inc.
Метаподаци
Приказ свих података о документуАпстракт
Aims: (1) to identify the most dysregulated genes in ureter tissue affected by congenital anomalies of the kidney and urinary tract (CAKUT) and to extract the biological meaning of these markers; (2) to describe the key molecular networks in CAKUT and to provide expression validation of the genes selected from these networks. Main methods: Transcriptome data was obtained from ureter samples of CAKUT patients and controls by Illumina iScan microarray. Identification of differentially expressed genes was coupled with subsequent bioinformatics analyses. Expression of candidate genes was validated by qRT-PCR. Key findings: Analysis of the transcriptome led to the identification of 78 commonly dysregulated genes in CAKUT tissue compared to controls. Integrative bioinformatic analyses of differentially expressed genes identified 7 major networks. The targets for qRT-PCR validation were selected as members of the major molecular networks in CAKUT, which had both, the significant high fold cha...nge and biological relevance for CAKUT. By qRT-PCR the substantial increase of LCN2, PROM1, SOSTDC1, and decrease of INA, RASD1 and TAC3 mRNA levels was confirmed. Significance: Since CAKUT is a leading cause of end-stage renal disease in children, the search for molecular targets for postnatal therapy is of particular interest. Data described in this study represents the gene expression profile and significant molecular networks specific to human ureter affected by CAKUT. The discovery of impaired molecular factors and processes is the step towards the uncovering of the key mechanisms that reflect CAKUT postnatally and could lead to the affected tissue deterioration and end organ damage. © 2018 Elsevier Inc.
Кључне речи:
CAKUT / Microarray / Bioinformatics / Molecular network / Gene expressionИзвор:
Life Sciences, 2018, 212, 1-8Финансирање / пројекти:
- Интегрална студија идентификације регионалних генетских фактора ризика и фактора ризика животне средине за масовне незаразне болести хумане популације у Србији - INGEMA_S (RS-MESTD-Integrated and Interdisciplinary Research (IIR or III)-41028)
- Генетска основа хуманих васкуларних и инфламаторних болести (RS-MESTD-Basic Research (BR or ON)-175085)
DOI: 10.1016/j.lfs.2018.09.042
ISSN: 0024-3205; 1879-0631
PubMed: 30261159
WoS: 000447649400001
Scopus: 2-s2.0-85053844406
URI
https://linkinghub.elsevier.com/retrieve/pii/S0024320518305940https://vinar.vin.bg.ac.rs/handle/123456789/7891
Колекције
Институција/група
VinčaTY - JOUR AU - Jovanović, Ivan G. AU - Živković, Maja AU - Kostić, Mirjana M. AU - Krstić, Zoran AU - Đurić, Tamara AU - Licastro, Danilo AU - Meroni, Germana AU - Alavantić, Dragan AU - Stanković, Aleksandra PY - 2018 UR - https://linkinghub.elsevier.com/retrieve/pii/S0024320518305940 UR - https://vinar.vin.bg.ac.rs/handle/123456789/7891 AB - Aims: (1) to identify the most dysregulated genes in ureter tissue affected by congenital anomalies of the kidney and urinary tract (CAKUT) and to extract the biological meaning of these markers; (2) to describe the key molecular networks in CAKUT and to provide expression validation of the genes selected from these networks. Main methods: Transcriptome data was obtained from ureter samples of CAKUT patients and controls by Illumina iScan microarray. Identification of differentially expressed genes was coupled with subsequent bioinformatics analyses. Expression of candidate genes was validated by qRT-PCR. Key findings: Analysis of the transcriptome led to the identification of 78 commonly dysregulated genes in CAKUT tissue compared to controls. Integrative bioinformatic analyses of differentially expressed genes identified 7 major networks. The targets for qRT-PCR validation were selected as members of the major molecular networks in CAKUT, which had both, the significant high fold change and biological relevance for CAKUT. By qRT-PCR the substantial increase of LCN2, PROM1, SOSTDC1, and decrease of INA, RASD1 and TAC3 mRNA levels was confirmed. Significance: Since CAKUT is a leading cause of end-stage renal disease in children, the search for molecular targets for postnatal therapy is of particular interest. Data described in this study represents the gene expression profile and significant molecular networks specific to human ureter affected by CAKUT. The discovery of impaired molecular factors and processes is the step towards the uncovering of the key mechanisms that reflect CAKUT postnatally and could lead to the affected tissue deterioration and end organ damage. © 2018 Elsevier Inc. T2 - Life Sciences T1 - Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT VL - 212 SP - 1 EP - 8 DO - 10.1016/j.lfs.2018.09.042 ER -
@article{ author = "Jovanović, Ivan G. and Živković, Maja and Kostić, Mirjana M. and Krstić, Zoran and Đurić, Tamara and Licastro, Danilo and Meroni, Germana and Alavantić, Dragan and Stanković, Aleksandra", year = "2018", abstract = "Aims: (1) to identify the most dysregulated genes in ureter tissue affected by congenital anomalies of the kidney and urinary tract (CAKUT) and to extract the biological meaning of these markers; (2) to describe the key molecular networks in CAKUT and to provide expression validation of the genes selected from these networks. Main methods: Transcriptome data was obtained from ureter samples of CAKUT patients and controls by Illumina iScan microarray. Identification of differentially expressed genes was coupled with subsequent bioinformatics analyses. Expression of candidate genes was validated by qRT-PCR. Key findings: Analysis of the transcriptome led to the identification of 78 commonly dysregulated genes in CAKUT tissue compared to controls. Integrative bioinformatic analyses of differentially expressed genes identified 7 major networks. The targets for qRT-PCR validation were selected as members of the major molecular networks in CAKUT, which had both, the significant high fold change and biological relevance for CAKUT. By qRT-PCR the substantial increase of LCN2, PROM1, SOSTDC1, and decrease of INA, RASD1 and TAC3 mRNA levels was confirmed. Significance: Since CAKUT is a leading cause of end-stage renal disease in children, the search for molecular targets for postnatal therapy is of particular interest. Data described in this study represents the gene expression profile and significant molecular networks specific to human ureter affected by CAKUT. The discovery of impaired molecular factors and processes is the step towards the uncovering of the key mechanisms that reflect CAKUT postnatally and could lead to the affected tissue deterioration and end organ damage. © 2018 Elsevier Inc.", journal = "Life Sciences", title = "Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT", volume = "212", pages = "1-8", doi = "10.1016/j.lfs.2018.09.042" }
Jovanović, I. G., Živković, M., Kostić, M. M., Krstić, Z., Đurić, T., Licastro, D., Meroni, G., Alavantić, D.,& Stanković, A.. (2018). Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT. in Life Sciences, 212, 1-8. https://doi.org/10.1016/j.lfs.2018.09.042
Jovanović IG, Živković M, Kostić MM, Krstić Z, Đurić T, Licastro D, Meroni G, Alavantić D, Stanković A. Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT. in Life Sciences. 2018;212:1-8. doi:10.1016/j.lfs.2018.09.042 .
Jovanović, Ivan G., Živković, Maja, Kostić, Mirjana M., Krstić, Zoran, Đurić, Tamara, Licastro, Danilo, Meroni, Germana, Alavantić, Dragan, Stanković, Aleksandra, "Transcriptome-driven integrative exploration of functional state of ureter tissue affected by CAKUT" in Life Sciences, 212 (2018):1-8, https://doi.org/10.1016/j.lfs.2018.09.042 . .