Screening of disease-related biomarkers related to neuropathic pain (NP) after spinal cord injury (SCI)

Abstract Background Based on the molecular expression level, this paper compares lncRNA and mRNA expressions respectively in peripheral blood samples of the patients after SCI with NP and without NP, and screens disease-related biomarkers related to NP after SCI in peripheral blood samples of patients. Method The expression spectrum of 25 human peripheral blood samples (12 samples of refractory NP patients after SCI) was downloaded and data were normalized. Screening of GO annotations significantly associated with significant differentially expressed mRNAs and significant involvement of the KEGG pathway. The WGCNA algorithm was used to screen for modules and RNAs that were significantly associated with disease characterization. A co-expression network was constructed to extract the genes involved in the disease pathway from the co-expression network, construct a network of SCI pain-related pathways, and screen important disease-related biomarkers. Quantitative real-time PCR was used to detect the mRNA expression of hub genes. Results Data were normalized and re-annotated by detection of platform information, resulting in a total of 289 lncRNA and 18197 mRNAs. Screening resulted in 338 significant differentially expressed RNAs that met the threshold requirements. Differentially expressed RNAs were significantly enriched with the brown and magenta modules. Six KEGG signaling pathways were screened in the co-expression network, and three KEGG pathways with direct neuropathic pain were identified. The expression levels of E2F1, MAX, MITF, CTNNA1, and ADORA2B in the disease group were all significantly upregulated (p < 0.01). Compared with the normal group, the expression of OXTR was upregulated. Conclusion We speculate that there are 7 genes and 2 lncRNAs directly involved in the pain pathway: E2F1, MAX, MITF, CTNNA1, ADORA2B, GRIK3, OXTR, LINC01119, and LINC02447. These molecules may be important for NP after SCI.

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Detection, sorting, and immortalization of dual expresser lymphocytes from human peripheral blood samples

STAR Protocols ◽

10.1016/j.xpro.2021.100925 ◽

2021 ◽

Vol 2 (4) ◽

pp. 100925

Author(s):

Rizwan Ahmed ◽

Kusuma Ananth ◽

Zahra Omidian ◽

Neha Majety ◽

Hao Zhang ◽

...

Keyword(s):

Peripheral Blood ◽

Human Peripheral Blood ◽

Blood Samples

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Recovery of MicroRNA from Stored Human Peripheral Blood Samples

Biopreservation and Biobanking ◽

10.1089/bio.2010.0026 ◽

2011 ◽

Vol 9 (1) ◽

pp. 29-33 ◽

Cited By ~ 3

Author(s):

Eric Seelenfreund ◽

Steven E. Robinson ◽

Carol M. Amato ◽

Lynne T. Bemis ◽

William A. Robinson

Keyword(s):

Peripheral Blood ◽

Human Peripheral Blood ◽

Blood Samples

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Association between Neuropathic Pain Characteristics and DNA Methylation of TRPA1 in Human Peripheral Blood

10.20944/preprints201911.0101.v1 ◽

2019 ◽

Author(s):

Shiho Takenaka ◽

Norihiko Sukenaga ◽

Mai Imasaka ◽

Masaki Ohmuraya ◽

Yuka Matsuki ◽

...

Keyword(s):

Dna Methylation ◽

Chronic Pain ◽

Neuropathic Pain ◽

Peripheral Blood ◽

Transient Receptor Potential ◽

Cpg Island ◽

Human Peripheral Blood ◽

Chronic Pain Patients ◽

Pain Characteristics ◽

Pain Patients

Background: Elucidation of epigenetic mechanisms correlating with neuropathic pain in humans is crucial for the prevention and treatment of this treatment-resistant pain state. In the present study, associations between neuropathic pain characteristics and DNA methylation of the transient receptor potential ankyrin 1(TRPA1) gene were evaluated in chronic pain patients and preoperative patients. Methods: Pain and psychological states were prospectively assessed in patients who suffered chronic pain or were scheduled for thoracic surgery. Neuropathic characteristics were assessed using the Douleur Neuropathique 4 (DN4) questionnaire. DNA methylation levels of the CpG island in the TRPA1 gene were examined using whole blood. Results: Forty-eight adult patients were enrolled in this study. Increases in DNA methylation rates at CpG -51 showed positive correlations with increases in the DN4 score both in preoperative and chronic pain patients. Combined methylation rates at CpG -51 also significantly increased together with increase in DN4 scores. Conclusions: Neuropathic pain characteristics are likely associated with methylation rates at the promoter region of the TRPA1 gene in human peripheral blood.

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RNA-seq transcriptome analysis reveals LTR-retrotransposons modulation in Human Peripheral Blood Mononuclear Cells (PBMCs) after in vivo Lipopolysaccharides (LPS) injection

10.1101/2019.12.20.884494 ◽

2019 ◽

Author(s):

Maria Paola Pisano ◽

Olivier Tabone ◽

Maxime Bodinier ◽

Nicole Grandi ◽

Julien Textoris ◽

...

Keyword(s):

Peripheral Blood Mononuclear Cells ◽

Peripheral Blood ◽

Mononuclear Cells ◽

Human Peripheral Blood ◽

Differentially Expressed ◽

Ltr Retrotransposons ◽

Rna Seq ◽

Peripheral Blood Mononuclear ◽

Blood Mononuclear Cells

AbstractHuman Endogenous Retroviruses (HERVs) and Mammalian apparent LTR-retrotransposons (MaLRs) are retroviral sequences that integrated into the germline cells millions year ago. Transcripts of these LTR-retrotransposons are present in several tissues, and their expression is modulated in pathological conditions, although their function remains often far from being understood. In this work, we focused on the HERVs/MaLRs expression and modulation in a scenario of immune system activation. We used a public dataset of Human Peripheral Blood Mononuclear Cells (PBMCs) RNA-seq from 15 healthy participants to a clinical trial before and after the exposure to Lipopolysaccharide (LPS), for which we established an RNA-seq workflow for the identification of expressed and modulated cellular genes and LTR-retrotransposon elements.ImportanceWe described the HERV and MaLR transcriptome in PBMCs, finding that about 8.4 % of the LTR-retrotransposons loci were expressed, and identifying the betaretrovirus-like HERVs as those with the highest percentage of expressed loci. We found 4,607 HERVs and MaLRs loci that were modulated as a result of in vivo stimulation with LPS. The HERV-H group showed the highest number of differentially expressed most intact proviruses. We characterized the HERV and MaLR loci differentially expressed checking their genomic context of insertion and, interestingly, we found a general co-localization with genes that are involved and modulated in the immune response, as consequence of LPS stimulation. The analyses of HERVs and MaLRs expression and modulation show that this LTR-retrotransposons are expressed in PBMCs and regulated in inflammatory settings. The similar regulation of HERVs/MaLRs and genes after LPS stimulation suggests possible interactions of LTR-retrotransposons and the immune host response.

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Association between neuropathic pain characteristics and DNA methylation of transient receptor potential ankyrin 1 in human peripheral blood

Medicine ◽

10.1097/md.0000000000019325 ◽

2020 ◽

Vol 99 (8) ◽

pp. e19325 ◽

Cited By ~ 3

Author(s):

Shiho Takenaka ◽

Norihiko Sukenaga ◽

Masaki Ohmuraya ◽

Yuka Matsuki ◽

Lynn Maeda ◽

...

Keyword(s):

Dna Methylation ◽

Neuropathic Pain ◽

Peripheral Blood ◽

Transient Receptor Potential ◽

Human Peripheral Blood ◽

Receptor Potential ◽

Pain Characteristics ◽

Transient Receptor

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Analysis of Human Peripheral Blood Samples from Fatal and Nonfatal Cases of Ebola (Sudan) Hemorrhagic Fever: Cellular Responses, Virus Load, and Nitric Oxide Levels

Journal of Virology ◽

10.1128/jvi.78.19.10370-10377.2004 ◽

2004 ◽

Vol 78 (19) ◽

pp. 10370-10377 ◽

Cited By ~ 183

Author(s):

Anthony Sanchez ◽

Matthew Lukwiya ◽

Daniel Bausch ◽

Siddhartha Mahanty ◽

Angela J. Sanchez ◽

...

Keyword(s):

Nitric Oxide ◽

T Cells ◽

Peripheral Blood ◽

Ebola Virus ◽

Fas Ligand ◽

Mononuclear Cells ◽

Human Peripheral Blood ◽

Blood Levels ◽

Blood Samples ◽

Virus Load

ABSTRACT Peripheral blood samples obtained from patients during an outbreak of Ebola virus (Sudan species) disease in Uganda in 2000 were used to phenotype peripheral blood mononuclear cells (PBMC), quantitate gene expression, measure antigenemia, and determine nitric oxide levels. It was determined that as the severity of disease increased in infected patients, there was a corresponding increase in antigenemia and leukopenia. Blood smears revealed thrombocytopenia, a left shift in neutrophils (in some cases degenerating), and atypical lymphocytes. Infected patients who died had reduced numbers of T cells, CD8+ T cells, and activated (HLA-DR+) CD8+ T cells, while the opposite was noted for patients who survived the disease. Expression levels of cytokines, Fas antigen, and Fas ligand (TaqMan quantitation) in PBMC from infected patients were not significantly different from those in uninfected patients (treated in the same isolation wards), nor was there a significant increase in expression compared to healthy volunteers (United States). This unresponsive state of PBMC from infected patients despite high levels of circulating antigen and virus replication suggests that some form of immunosuppression had developed. Ebola virus RNA levels (virus load) in PBMC specimens were found to be much higher in infected patients who died than patients who survived the disease. Similarly, blood levels of nitric oxide were much higher in fatal cases (increasing with disease severity), and extremely elevated levels (≥150 μM) would have negatively affected vascular tone and contributed to virus-induced shock.

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