The Human Protein Atlas – an important resource for basic and clinical research

Lindskog, Cecilia

doi:10.1080/14789450.2016.1199280

Cited by 31 publications

(27 citation statements)

References 20 publications

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“…In addition, overall survival and disease-free survival of patients with PAC were evaluated using Log-rank test according to the default settings on the GEPIA website online. The expression of KRT17 protein in PAC and non-tumor tissues was also compared using The Human Protein Atlas website (35)(36)(37).…”

Section: Methodsmentioning

confidence: 99%

Silencing of keratin 17 by lentivirus‑mediated short hairpin RNA inhibits the proliferation of PANC‑1 human pancreatic cancer cells

et al. 2020

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, KRT17 knockdown inhibited in vivo tumor growth. KRT17 knockdown induced dysregulation of ERK1/2 and upregulation of the pro-apoptotic Bcl-2 protein Bad. In conclusion, the present study demonstrated that elevated KRT17 levels are positively associated with pancreatic cancer progression; KRT17 knockdown suppressed cell growth, colony formation, migration and tumor growth, and induced apoptosis and cell cycle arrest, affecting ERK1/2/Bad signaling. Therefore, the results of the present study suggested that KRT17 may be a potential target for the treatment of pancreatic cancer.

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Section: Methodsmentioning

confidence: 99%

Silencing of keratin 17 by lentivirus‑mediated short hairpin RNA inhibits the proliferation of PANC‑1 human pancreatic cancer cells

et al. 2020

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“…We repeated a similar analysis using protein-protein interaction data from the Human Protein Atlas Yu et al 2015;Lindskog 2016;Thul and Lindskog 2018) in all four tissues. We again found that genes whose expression patterns are consistent with selection have more annotated proteinprotein interactions (P < 0.05 in all eight comparisons) ( Fig.…”

Section: Functional Analysis Of Gene Regulatory Differencesmentioning

confidence: 99%

A comparison of gene expression and DNA methylation patterns across tissues and species

et al. 2020

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Previously published comparative functional genomic data sets from primates using frozen tissue samples, including many data sets from our own group, were often collected and analyzed using nonoptimal study designs and analysis approaches. In addition, when samples from multiple tissues were studied in a comparative framework, individuals and tissues were confounded. We designed a multitissue comparative study of gene expression and DNA methylation in primates that minimizes confounding effects by using a balanced design with respect to species, tissues, and individuals. We also developed a comparative analysis pipeline that minimizes biases attributable to sequence divergence. Thus, we present the most comprehensive catalog of similarities and differences in gene expression and DNA methylation levels between livers, kidneys, hearts, and lungs, in humans, chimpanzees, and rhesus macaques. We estimate that overall, interspecies and inter-tissue differences in gene expression levels can only modestly be accounted for by corresponding differences in promoter DNA methylation. However, the expression pattern of genes with conserved inter-tissue expression differences can be explained by corresponding interspecies methylation changes more often. Finally, we show that genes whose tissue-specific regulatory patterns are consistent with the action of natural selection are highly connected in both gene regulatory and protein-protein interaction networks.

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“…This database offered the cell-specific localization information across 44 different normal tissues and organs, as well as 20 most common types of cancer [30]. In addition, IHC-based protein expression patterns in normal human tissues and tumor tissues were used to generate an expression map by using data from HPA [31].…”

Section: Methodsmentioning

confidence: 99%

The prognostic values of the peroxiredoxins family in ovarian cancer

Zhu

2018

Bioscience Reports

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Purpose: Peroxiredoxins (PRDXs) are a family of antioxidant enzymes with six identified mammalian isoforms (PRDX1–6). PRDX expression is up-regulated in various types of solid tumors; however, individual PRDX expression, and its impact on prognostic value in ovarian cancer patients, remains unclear.Methods: PRDXs family protein expression profiles in normal ovarian tissues and ovarian cancer tissues were examined using the Human Protein Atlas database. Then, the prognostic roles of PRDX family members in several sets of clinical data (histology, pathological grades, clinical stages, and applied chemotherapy) in ovarian cancer patients were investigated using the Kaplan–Meier plotter.Results: PRDXs family protein expression in ovarian cancer tissues was elevated compared with normal ovarian tissues. Meanwhile, elevated expression of PRDX3, PRDX5, and PRDX6 mRNAs showed poorer overall survival (OS); PRDX5 and PRDX6 also predicted poor progression-free survival (PFS) for ovarian cancer patients. Furthermore, PRDX3 played significant prognostic roles, particularly in poor differentiation and late-stage serous ovarian cancer patients. Additionally, PRDX5 predicted a lower PFS in all ovarian cancer patients treated with Platin, Taxol, and Taxol+Platin chemotherapy. PRDX3 and PRDX6 also showed poor PFS in patients treated with Platin chemotherapy. Furthermore, PRDX3 and PRDX5 indicated lower OS in patients treated with these three chemotherapeutic agents. PRDX6 predicted a poorer OS in patients treated with Taxol and Taxol+Platin chemotherapy.Conclusion: These results suggest that there are distinct prognostic values of PRDX family members in patients with ovarian cancer, and that the expression of PRDX3, PRDX5, and PRDX6 mRNAs are a useful prognostic indicator in the effect of chemotherapy in ovarian cancer patients.

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The Human Protein Atlas – an important resource for basic and clinical research

Cited by 31 publications

References 20 publications

Silencing of keratin 17 by lentivirus‑mediated short hairpin RNA inhibits the proliferation of PANC‑1 human pancreatic cancer cells

Silencing of keratin 17 by lentivirus‑mediated short hairpin RNA inhibits the proliferation of PANC‑1 human pancreatic cancer cells

A comparison of gene expression and DNA methylation patterns across tissues and species

The prognostic values of the peroxiredoxins family in ovarian cancer

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