Differential Urinary Proteome Analysis for Predicting Prognosis in Type 2 Diabetes Patients with and without Renal Dysfunction

Ahn, Hee‐Sung; Kim, Jong Ho; Jeong, Hee Jong; Yu, Jeesuk; Yeom, Jeonghun; Song, Sang Heon; Kim, Sang Soo; Kim, In Joo; Kim, Kyunggon

doi:10.3390/ijms21124236

Cited by 41 publications

(38 citation statements)

References 67 publications

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“…LC-MS analysis was performed as described in our previous analysis [ 16 ]. In brief, peptide mixture was trapped and separated on a reversed-phase C18 column (precolumn: Acclaim PepMap, 100 μm × 20 mm, 5 μm, 100 Å, separation column: Acclaim PepMap, 75 μm × 500 mm, 2 μm, 100 Å, Thermo Fisher Scientific) equipped with the Dionex UltiMate 3000 RSLCnano System (Thermo Fisher Scientific, Bremen, Germany).…”

Section: Methodsmentioning

confidence: 99%

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CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

Kim

Lim

et al. 2021

PLoS ONE

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Objective The molecular mechanisms of the degeneration of the aortic wall in abdominal aortic aneurysm (AAA) are poorly understood. The monomeric form of C-reactive protein (mCRP) is deposited in damaged cardiovascular organs and aggravates the prognosis; however, it is unknown whether mCRP is deposited in the degenerated aorta of abdominal aortic aneurysm (AAA). We investigated whether mCRP is deposited in AAA and examined the associated pathogenic signaling pathways. Methods Twenty-four cases of AAA were analyzed and their histological features were compared according to the level of serum CRP and the degree of mCRP deposition. Proteomic analysis was performed in AAA cases with strong and diffuse CRP immunopositivity (n = 7) and those with weak, focal, and junctional CRP immunopositivity (n = 3). Results mCRP was deposited in the aortic specimens of AAA in a characteristic pattern that coincided with the lesion of the diminished elastic layer of the aortic wall. High serum CRP level was associated with stronger mCRP immunopositivity and a larger maximal diameter of aortic aneurysm. Proteomic analysis in AAA showed that multiple proteins were differentially expressed according to mCRP immunopositivity. Also, ingenuity pathway analysis showed that pathways associated with atherosclerosis, acute phase response, complement system, immune system, and coagulation were enriched in AAA cases with high mCRP immunopositivity. Conclusions AAA showed a characteristic deposition of mCRP, and multiple potentially pathologic signaling pathways were upregulated in AAA cases with strong CRP immunopositivity. mCRP and the aforementioned pathological pathways may serve as targets for managing the progression of AAA.

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Section: Methodsmentioning

confidence: 99%

“…The database search was performed as described in our previous study [ 16 ]. The acquired spectra were applied on the SequestHT embedded in the Proteome Discoverer (version 2.2, Thermo Fisher Scientific), and the human proteome sequence database (SwissProt database (May 2019)) was used.…”

Section: Methodsmentioning

confidence: 99%

CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

Kim

Lim

et al. 2021

PLoS ONE

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“…Combined eluates were dried using a speed vacuum and stored at -20C for liquid chromatography with tandem mass spectrometry (LC-MS) analysis. The overview of the method is depicted in Supplementary Fig S2. LC-MS analysis was performed as described in our previous analysis [16]. In brief, peptide mixture was trapped and separated on a reversed-phase C18 column (precolumn: Acclaim…”

Section: Patient Selection and Sample Preparation For Ffpe Proteomementioning

confidence: 99%

CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

Kim

Lim

et al. 2020

Preprint

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ObjectiveThe molecular mechanisms of the degeneration of the aortic wall in abdominal aortic aneurysm (AAA) are poorly understood. The monomeric form of C-reactive protein (mCRP) is deposited in damaged cardiovascular organs and aggravates the prognosis; however, it is unknown whether mCRP is deposited in the degenerated aorta of abdominal aortic aneurysm (AAA). We investigated whether mCRP is deposited in AAA and examined the associated pathogenic signaling pathways.MethodsTwenty-four cases of AAA were analyzed and their histological features were compared according to the level of serum CRP and the degree of mCRP deposition. Proteomic analysis was performed in AAA cases with strong and diffuse CRP immunopositivity (n=7) and those with weak, focal, and junctional CRP immunopositivity (n=3).ResultsmCRP was deposited in the aortic specimens of AAA in a characteristic pattern that coincided with the lesion of the diminished elastic layer of the aortic wall. High serum CRP level was associated with stronger mCRP immunopositivity and a larger maximal diameter of aortic aneurysm. Proteomic analysis in AAA showed that multiple proteins were differentially expressed according to mCRP immunopositivity. Also, ingenuity pathway analysis showed that pathways associated with atherosclerosis, acute phase response, complement system, immune system, and coagulation were enriched in AAA cases with high mCRP immunopositivity.ConclusionsAAA showed a characteristic deposition of mCRP, and multiple potentially pathologic signaling pathways were upregulated in AAA cases with strong CRP immunopositivity. mCRP and the aforementioned pathological pathways may serve as targets for managing the progression of AAA.

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“…The geometric mean of the six ratios of the sample was then used as the normalization scaling factor (NSF) for that sample. The details of this method are also provided in previous studies [ 83 , 84 ].…”

Section: Methodsmentioning

confidence: 99%

Plasma Protein Biomarkers Associated with Higher Ovarian Cancer Risk in BRCA1/2 Carriers

Ahn

et al. 2021

Cancers

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Ovarian cancer (OC) is the most lethal gynecologic malignancy and in-time diagnosis is limited because of the absence of effective biomarkers. Germline BRCA1/2 genetic alterations are risk factors for hereditary OC; risk-reducing salpingo-oophorectomy (RRSO) is pursued for disease prevention. However, not all healthy carriers develop the disease. Therefore, identifying predictive markers in the BRCA1/2 carrier population could help improve the identification of candidates for preventive RRSO. In this study, plasma samples from 20 OC patients (10 patients with BRCA1/2 wild type (wt) and 10 with the BRCA1/2 variant (var)) and 20 normal subjects (10 subjects with BRCA1/2wt and 10 with BRCA1/2var) were analyzed for potential biomarkers of hereditary OC. We applied a bottom-up proteomics approach, using nano-flow LC-MS to analyze depleted plasma proteome quantitatively, and potential plasma protein markers specific to the BRCA1/2 variant were identified from a comparative statistical analysis of the four groups. We obtained 1505 protein candidates from the 40 subjects, and SPARC and THBS1 were verified by enzyme-linked immunosorbent assay. Plasma SPARC and THBS1 concentrations in healthy BRCA1/2 carriers were found to be lower than in OC patients with BRCA1/2var. If plasma SPARC concentrations increase over 337.35 ng/ml or plasma THBS1 concentrations increase over 65.28 mg/ml in a healthy BRCA1/2 carrier, oophorectomy may be suggested.

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Differential Urinary Proteome Analysis for Predicting Prognosis in Type 2 Diabetes Patients with and without Renal Dysfunction

Cited by 41 publications

References 67 publications

CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm

Plasma Protein Biomarkers Associated with Higher Ovarian Cancer Risk in BRCA1/2 Carriers

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