QIAGEN Digital Insights Publication Roundup (Spring 2020)

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QIAGEN Digital Insights

QIAGEN Digital Insights Publication Roundup (Spring 2020)

Researchers across the world are using QIAGEN Digital Insights solutions to accelerate their work in a variety of applications

Powerful insights help innovate, integrate and translate scientific results into impactful discoveries. Many noteworthy papers cite QIAGEN Digital Insights solutions and demonstrate how our tools help drive research insights and discoveries. These papers use QIAGEN Ingenuity Pathway Analysis (IPA),  QIAGEN CLC and/or QIAGEN OmicSoft to help drive success. The QIAGEN Digital Insights portfolio encompasses a comprehensive, easy-to-use toolbox that ensures continuity in NGS workflow. Here, we have curated a selection of just a few recent papers to offer a sense of the diversity of the research for which QIAGEN Digital Insights solutions makes a difference. 

QIAGEN Ingenuity Pathway Analysis (QIAGEN IPA)


Next-generation sequencing profiles of the methylome and transcriptome in peripheral blood mononuclear cells of rheumatoid arthritis

First author: Chia-Chun Tseng

In honor of World Autoimmune Arthritis Day (May 20), check out this exciting research by C. Tseng and colleagues from Kaohsiung Medical University who use next-generation sequencing to understand how the methylome and transcriptome contribute to rheumatoid arthritis. Learn how they use QIAGEN IPA to investigate the interaction between genetics and epigenetics. Dig into their research paper here.


Interferon-β corrects massive gene dysregulation in multiple sclerosis: Short-term and long-term effects on immune regulation and neuroprotection

First author: Xuan Feng

Excellent research by Xuan Feng and colleagues at the University of Chicago who study the effects of interferon-β on correcting gene dysregulation in multiple sclerosis. Discover how the team uses QIAGEN IPA to investigate the short-term and long-term impact of IFN-β on immune regulation and neuroprotection. Check out their research here.


Cellular and molecular characterization of multiplex autism in human induced pluripotent stem cell-derived neurons

First author: Emily M. A. Lewis

Dr. E. Lewis and colleagues from Washington University School of Medicine attempt to model multiplex autism using iPS cells derived from a family with autism. Learn how the team uses QIAGEN IPA to uncover the significance of unique genetic signatures contributing to polygenic autism. Read their paper here.


Pathogenic pathways in early-onset autosomal recessive Parkinson’s disease discovered using isogenic human dopaminergic neurons

First author: Tim Ahfeldt

Fascinating research by Dr. T. Ahfeldt and colleagues at the Icahn School of Medicine at Mount Sinai who try to understand the pathogenic pathways involved in early-onset autosomal recessive Parkinson’s disease. See how they use QIAGEN IPA to understand the significance of these pathways in causing Parkinson’s in isogenic human pluripotent stem cell lines. Read their research here.


Comparative profiling of the synaptic proteome from Alzheimer’s disease patients with focus on the APOE genotype

First author: Raphael Hesse

Exciting Research by R. Hesse and Colleagues at the University of Edinburgh who start and end with QIAGEN NGS solutions from Sample to Insight. See how the QIAamp DNA Mini Kit helps extract DNA from brain tissue and how QIAGEN IPA helps the team understand the pathways involved in Alzheimer’s disease pathophysiology. Delve into the details in their paper here.

Tuberculous meningitis in children is characterized by compartmentalized immune responses and neural excitotoxicity

First author: Ursula K. Rohlwink

Tuberculous meningitis is the most severe form of TB with a high mortality rate. See how U. Rohlwink and colleagues at the University of Cape Town use QIAGEN IPA to help understand how the disease affects different compartments of the brain differently and cause neurotoxicity. Read the full Nature Communications article here.


De novo variants in exomes of congenital heart disease patients identify risk genes and pathways

First author: Cigdem Sevim Bayrak

Genetically heterogeneous diseases such as congenital heart disease (CHD) are ideally suited for pathway analysis to identify statistically significant key genes and their role in the disease pathogenesis.  In this study, Bayrak and colleagues leverage QIAGEN IPA’s ability to take variant data from CHD patients to identify enriched pathways and develop a prioritized list of genes.  Read the paper here.


Multi-‘omics approach for studying tears in treatment-naïve glaucoma patients

First author: Claudia Rossi

Researchers use QIAGEN IPA to analyze the tears of glaucoma patients in this multi-‘omics study aimed at better understanding primary open-angle glaucoma (PAOG).  The team performed metabolomics and proteomics analyses to identify potential biomarkers that could help screen for this disease, which is the leading cause of irreversible blindness. Read the paper here.


Discovery and preclinical evaluation of anti-miR-17 oligonucleotide RGLS4326 for the treatment of polycystic kidney disease

First author: Edmund C. Lee

A team from Regulus Therapeutics use QIAGEN IPA to identify an anti-miRNA as a possible therapeutic in the treatment of autosomal dominant polycystic kidney disease (ADPSK), which is generally caused by mutations in PKD1 or PKD2. Discover how the team leveraged QIAGEN IPA’s extensive database of molecular interactions and biological findings to develop putative gene networks and pathways from gene expression data comparing disease data against their anti-microRNA treatment.  Read the full Nature Communications paper here.


The circadian clock mutation promotes intestinal dysbiosis

First Author: Robin M. Voigt

Getting a good night’s sleep may be more important than you think.  Fascinating research by Dr. R. Voight and colleagues at Rush University looks at the connection between sleep and intestinal dysfunction. Discover how the team uses QIAGEN IPA to tease out the relationship between the circadian rhythm and intestinal hyperpermeability.  Read the full paper here.


Compromised metabolic reprogramming is an early indicator of CD8+ T cell dysfunction during chronic Mycobacterium tuberculosis infection

First author: Shannon L Russell

In honor of World Tuberculosis Day, check out this important research from the Africa Health Research Institute (AHRI) in Durban. They use QIAGEN IPA to look at how compromised metabolism can cause subpar T cell immunity against tuberculosis, and how pharmacological agents can help. Read the paper here.


Epigenetics meets proteomics in an epigenome-wide association study with circulating blood plasma protein traits

First author: Shaza B Zaghlool

Fascinating research by Dr. S. Zhaglool and colleagues at Weill-Cornell Medical College in Qatar, where they look at the connection between epigenetics and proteomics in an epigenome-wide study. See how the team uses QIAGEN IPA to understand the connection between DNA methylation and blood circulating proteins involved with inflammation control.  Read the full Nature Communications article here.

QIAGEN CLC


Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins

First author: Tommy Tsan-Yuk Lam

Coronavirus researchers from Hong Kong University use QIAGEN extraction kits and QIAGEN CLC Genomics Workbench to identify SARS-CoV-2 in Malayan pangolins. Their research helps reveal how pangolins may have facilitated the coronavirus transfer to humans, causing the COVID-19 disease.  Read their Nature publication here.


Influenza A viruses are transmitted via the air from the nasal respiratory epithelium of ferrets

First author: Mathilde Richard

In honor of Global Hand Hygiene Day, remember to wash your hands! Check out this paper by researchers at Erasmus University Medical Center, who use QIAGEN CLC Genomics Workbench to investigate how influenza and other respiratory viruses are transmitted from nasal tracts using ferrets as a model.  Read their full paper in Nature Communications.


Discovery of a subgenotype of human coronavirus NL63 associated with severe lower respiratory tract infection in China, 2018

First author: Yangun Wang

Learn about the critical research by Dr. Y. Wang and team from Guangzhou Medical University who studied a subgenotype of human coronavirus, NL63. They used QIAGEN CLC Genomics Workbench to investigate how this virus undergoes continuous mutation and has the potential to cause severe lower respiratory tract infection in humans. Read their research here.


Discovery of bat coronaviruses through surveillance and probe capture-based next-generation sequencing

First author: Bei Li

Dr. B. Li and colleagues from Wuhan Institute of Virology have been observing bats for potential coronavirus outbreaks after the SARS and MERS incidents. With the current pandemic, better surveillance practices are necessary to predict and mitigate the emergence of these viruses in humans. See how the team uses QIAGEN CLC Genomics Workbench and QIAGEN extraction kits in a capture-based NGS approach to overcome cost challenges. Discover their research here.


The splicing factor hnRNP M is a critical regulator of innate immune gene expression in macrophages

First author: Kelsi O. West

Great research from Texas A&M HSC where K. West and colleagues look at how pre-mRNA splicing decisions influence or are affected by macrophage activation. See how they use QIAGEN CLC Genomics and QIAGEN IPA to understand this link to the innate immune response in this Cell reports paper.


Microbiota dysbiosis and its pathophysiological significance in bowel obstruction

First author: Shrilakshmi Hedge

April is IBS awareness month. Check out this intriguing research by S. Hegde and colleagues from UTMB who look at how bowel obstruction may cause changes to the gut microbiota composition. See how the team utilizes a complete Sample to Insight approach using QIAGEN’s extraction kits for bacterial DNA and RNA and QIAGEN CLC Microbial Genomics Module to identify bacterial species affected


Encapsulation boosts islet-cell signature in differentiating human induced pluripotent stem cells via integrin signaling

First author: Thomas Aga Legøy

Exciting research from the University of Bergen, where a team uses every part of the QIAGEN RNA-seq solution from Sample to Insight. See how QIAGEN CLC Genomics Workbench, QIAGEN IPA and other QIAGEN products help the team understand the development process of human-induced pluripotent stem cells into pancreatic islet cells.  You can access the full Scientific Reports paper here.

Genetic aberrations in iPSCs are introduced by a transient G1/S cell cycle checkpoint deficiency

First author: Ryoko Araki

Crucial research for cell replacement therapy by Dr. R. Araki and colleagues from the National Institute of Radiological Sciences (NIRS) in Japan where they study how point mutations in reprogrammed pluripotent stem cells prevent their therapeutic application. Learn how the team uses QIAGEN CLC Genomics Workbench to understand how a cell cycle checkpoint deficiency causes a cancer-like state in these cells. Read the full Nature Sciences article here.

QIAGEN OmicSoft


Immunomodulatory activity of humanized anti–IL-7R monoclonal antibody RN168 in subjects with type 1 diabetes

First author: Kevan C. Herold

Diabetes breakthrough research by Dr. K Herold and team in collaboration with Pfizer at the Yale School of Medicine who used a humanized monoclonal antibody to block cytokine IL-7, which is critical for T cell development and function. Learn how the team used QIAGEN OmicSoft Array Suite to investigate how blocking IL-7 affects immune cells and could help treat diabetes. Get the details by accessing the full paper here.


Nucleus accumbens pathways control cell-specific gene expression in the medial prefrontal cortex

First author: Takatoshi Hikida

Hikida and colleagues at Osaka University try to tease out the molecular connections between different regions of the brain. Learn how the team uses QIAGEN OmicSoft Suite and QIAGEN IPA to understand how knocking down gene expression of D1 and D2 receptors in the neurons of the nucleus accumbens affects gene expression in the neurons of the medial prefrontal cortex. Get the details in this Scientific Reports paper.


Bleomycin hydrolase regulates the release of chemokines important for inflammation and wound healing by keratinocytes

First author: Rebecca Riise

A team at AstraZeneca use QIAGEN OmicSoft DiseaseLand to help them study the role of bleomycin hydrolase in inflammation and wound healing. Find out how they discover a novel role for this cysteine protease in the regulation of cytokine secretion. Read this Scientific Reports paper here.

To request information on the QIAGEN Digital Insight Solutions, contact bioinformaticssales@qiagen.com.