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Archives of Proteomics and Bioinformatics
ISSN: 2767-391X
Volume 2, Issue 1, p1-55
Articles published in this issue are Open Access and licensed under Creative Commons Attribution License (CC BY NC) where the readers can reuse, download, distribute the article in whole or part by mentioning proper credits to the authors.
Possible Functions of the Conserved Peptides Encoded by the RNA - precursors of miRNAs in Plants
MicroRNAs (miRNAs) are short double-stranded regulatory molecules derived from precursor transcripts called primary miRNAs (pri-miRNAs) and transcribing in the nucleus from chromosomal DNA by the RNA polymerase II. These pri-miRNAs were shown to contain internal imperfect hairpin structures which are processed by DCL (dicer-like) enzyme
Arch Proteom and Bioinform, 2021, Volume 2, Issue 1, p1-3 | DOI: 10.33696/Proteomics.2.006
Antisense Inhibition of accA in E. coli Suppressed luxS Expression and Increased Antibiotic Susceptibility
Multidrug resistant (MDR) bacteria, which are resistant to more than one antibiotic, present an enormous challenge for medical communities and organizations worldwide. For example, Acinetobacter baumannii is a highly contagious MDR gram-negative bacterium (GNB) that inhabits hospitals and causes 64% of urinary tract infections associated with the use of catheters. Alexopoulou et al. found that there were more healthcare-associated infections caused by GNB than Gram-positive Cocci (GPC) bacte
Arch Proteom and Bioinform, 2021, Volume 2, Issue 1, p4-19 | DOI: 10.33696/Proteomics.2.007
Do Support Vector Machines Play a Role in Stratifying Patient Population Based on Cancer Biomarkers
Cancer is a worldwide public health issue that affects millions of people every year. In 2018 there were 17 million newly documented cases of cancer globally (8.8 million in men and 8.2 million in women), leading to 9.6 million deaths. Cancer is a vastly heterogeneous disease, with over 100 different types of cancer currently identified in humans; the most common types of cancer are lung, female breast, bowel and prostate, these four types account for more than 40% of all new cancer case
Arch Proteom and Bioinform, 2021, Volume 2, Issue 1, p20-38 | DOI: 10.33696/Proteomics.2.008
First In silico Structural Model of Glucokinase-1 from Phytophthora infestans Reveals a Possible Pyrophosphate Binding Site
Phytophthora infestans is the causal agent of late blight disease, which affects potato and tomato crops worldwide, that brings about significant economic losses in the production of these crops. The PITG_06016 gene codes for one of the 7 glucokinases present in this phytopathogen.
Arch Proteom and Bioinform, 2021, Volume 2, Issue 1, p39-46 | DOI: 10.33696/Proteomics.2.009
LINE-1 Retrotransposon-derived Proteins: The ORFull Truth?
In the last few decades there has been a growing interest in the role of transposable elements (TEs), colloquially referred to as “jumping genes” in human biology [1-4]. TEs, and a specific subset of this clade, retrotransposons, are widespread throughout eukaryote genomes. The socalled long interspersed elements-1 (LINE-1 or L1) are of especial interest because they represent the only class of retrotransposons in the human genome that are fully autonomous,
Arch Proteom and Bioinform, 2021, Volume 2, Issue 1, p47-55 | DOI: 10.33696/Proteomics.2.010
Comment on “Systematic Identification and Analysis of Light-responsive Circular RNA and Coexpression Networks in Lettuce (Lactuca sativa)”
Light is one of the most important environmental factors that affect plant growth and development, and it is also the main energy source for plants and other living things. Plants use light to assimilate inorganic matter into organic matter through photosynthesis and store them in the form of chemical energy. As an environmental signal, light mediates the
Circulating Cell-Free RNA: A New Perspective for Endometrial Cancer
In order to implement the knowledge of cancer to monitor its evolution and setting, in the last decade, new minimally invasive and repeatable samples collection have been developed such as liquid biopsy. Cancer biomarkers originating from tumors can represent the molecular status of the tumor or its metastases which release them directly into body fluids or indirectly due to disruption of tumor/metastatic tissue. These biomarkers are detectable in liquid biopsy.
DNA Nanotechnology Engineered Vesicle for Mimicking Biomolecular Signaling
Bio-inspired strategy is kind of interesting to fabricate devices and perform dynamic operations [1]. Various devices have been made, such as airplane, radar and submarine. In life science, as the fundamental entity, million years’ evolution enables cell becomes the most successful functionality.
Distinct Phosphorylation of STAT1 Confers Distinct DNA Binding and Gene-regulatory Properties
Signal transducer and activator of transcription 1 (STAT1) protein plays a pivotal role in various biological processes especially the regulation of innate and adaptive immune responses. Phosphorylation represents a key step in the activation of STAT1 and its transcriptional outcome. Binding of various extracellular ligands to their specific cell-surface receptors activates different phosphorylation of STAT1 followed by a distinct change of gene expression patterns.
How Well Do Hemodialysis Patients Respond to the BNT162b2 mRNA COVID-19 Vaccine?
In January 2020, the World Health Organization (WHO) classified COVID-19 to be a Public Health Emergency of International Concern and declared it a pandemic on March 11, 2020 [1]. Over one hundred and eighty-five million people have been infected by SARS-CoV-2 and roughly four million have died worldwide so far
Ramifications of the Diverse mRNA Patterns in Acanthamoeba royreba
Acanthamoeba was first described by Castellani and represents single-cell eukaryotes existing as either cellular trophozoites (25–40 ?m) or under adverse conditions (desiccation, lack of food, and extreme pH or temperature fluctuations), as dormant cysts (13–20 ?m). The cysts are known to be resistant to antibiotics, the effects of chlorine, and very low temperatures, and have been shown to maintain viability for over 20 years.
Possible Functions of the Conserved Peptides Encoded by the RNA - precursors of miRNAs in Plants
MicroRNAs (miRNAs) are short double-stranded regulatory molecules derived from precursor transcripts called primary miRNAs (pri-miRNAs) and transcribing in the nucleus from chromosomal DNA by the RNA polymerase II. These pri-miRNAs were shown to contain internal imperfect hairpin structures which are processed by DCL (dicer-like) enzyme
Antisense Inhibition of accA in E. coli Suppressed luxS Expression and Increased Antibiotic Susceptibility
Multidrug resistant (MDR) bacteria, which are resistant to more than one antibiotic, present an enormous challenge for medical communities and organizations worldwide. For example, Acinetobacter baumannii is a highly contagious MDR gram-negative bacterium (GNB) that inhabits hospitals and causes 64% of urinary tract infections associated with the use of catheters. Alexopoulou et al. found that there were more healthcare-associated infections caused by GNB than Gram-positive Cocci (GPC) bacte
Introducing the New Journal in Physical Medicine and Rehabilitation
It gives us great pleasure to introduce readers with our international peer-reviewed, open access journal. Journal of Physical Medicine and Rehabilitation is devoted to publish original research, reviews, and clinical reports on key areas of Physical Medicine and Rehabilitation and related fields.
Do Support Vector Machines Play a Role in Stratifying Patient Population Based on Cancer Biomarkers
Cancer is a worldwide public health issue that affects millions of people every year. In 2018 there were 17 million newly documented cases of cancer globally (8.8 million in men and 8.2 million in women), leading to 9.6 million deaths. Cancer is a vastly heterogeneous disease, with over 100 different types of cancer currently identified in humans; the most common types of cancer are lung, female breast, bowel and prostate, these four types account for more than 40% of all new cancer case
Healthy Fetal Outcomes Using a Novel Treatment for Maternal Lyme Disease and Babesiosis During Consecutive Pregnancies: A Case Study and Literature Review
Babesia is a single celled protozoan parasite which may be transmitted through the bite of an infected tick, blood transfusion and/ or maternal-fetal transmission. We describe the case of a woman previously treated for Lyme disease and babesiosis who relapsed with severe malaria-like symptoms during the 3rd trimester of two consecutive pregnancies.
First In silico Structural Model of Glucokinase-1 from Phytophthora infestans Reveals a Possible Pyrophosphate Binding Site
Phytophthora infestans is the causal agent of late blight disease, which affects potato and tomato crops worldwide, that brings about significant economic losses in the production of these crops. The PITG_06016 gene codes for one of the 7 glucokinases present in this phytopathogen.
Molecular Detection of Plasmid - Mediated Quinolone Resistant Genes in Uropathogenic E. coli from Tertiary Referral Hospital in Tehran , Iran
Fluoroquinolone antibiotics are usually used for the treatment of urinary tract infections. The aim of this study was to determine the prevalence and molecular characterization of Plasmid-Mediated Quinolone Resistance (PMQR) genes among ESBL-producing Escherichia coli isolates obtained from tertiary referral hospital in Tehran, Iran.
STARTTS Capoeira Angola Project Bantu: Combining Alternative Therapeutic Intervention with Sport for Traumatized Young Refugees: On the Way to Recovery
During the last decade, the world experienced an incredible increase in displaced populations; a staggering 70.8 million, which has been a direct outcome of war and human rights violations. This figure includes 25.9 million having been identified as refugees, and 51% constituting children below 18 years of age which has been documented as the highest figure in a decade.
LINE-1 Retrotransposon-derived Proteins: The ORFull Truth?
In the last few decades there has been a growing interest in the role of transposable elements (TEs), colloquially referred to as “jumping genes” in human biology [1-4]. TEs, and a specific subset of this clade, retrotransposons, are widespread throughout eukaryote genomes. The socalled long interspersed elements-1 (LINE-1 or L1) are of especial interest because they represent the only class of retrotransposons in the human genome that are fully autonomous,
Engineered Rh Nano-networks on DNA for SERS Applications
The study of surface and interfacial science via analytical techniques is a growing interest in the easy mode of diagnosing probe molecules adsorbed on the surface. In that line, Raman spectroscopy is an analytical method that is inefficient to carry the surface analysis employing their weak cross-sectional scattering until the discovery of Surface-Enhanced Raman Scattering (SERS) in late 1970s
In silico Analysis for the Repurposing of Broad-spectrum Antiviral Drugs against Multiple Targets from SARS-CoV-2: A Molecular Docking and ADMET Approach
SARS-CoV-2 belongs to the genus Beta of the Coronaviridae family of enveloped single-stranded, positive-sense ribonucleic acid (RNA) with a genome length of 30,000bp. The virion is composed of various non-structural (RNA dependent RNA polymerase also known as RdRp) and structural proteins such as Spike (S), Nucleocapsid (N), Matrix (M), and Envelope (E) proteins.
Using Mitochondrial Trifunctional Protein Deficiency to Understand Maternal Health
Fatty acid oxidation disorders unfortunately can result in the sudden unexplained death of infants. Mitochondrial trifunctional protein (MTP) deficiency is one such disease where long-chain fatty acids cannot be fully oxidized through beta-oxidation which, can lead to cardiac arrythmias in an infant.
How Traditional Healers Diagnose and Treat Diabetes Mellitus in the Pretoria Mamelodi Area and How Do These Purported Medications Comply with Complementary and Alternative Medicine Regulations
In South Africa, new amended regulations required a review of complementary and alternative medicine (CAMs) call-up for registration from November 2013. This impacted traditional healers (THs)’ compliance with the regulatory authorities’ on the good manufacturing practice which in return affected the public’s access to CAMs. This investigation embraces methods, THs use to diagnose and treat diabetes (DM) in Mamelodi. Furthermore, it assesses what their purported medications comprise of.
Salivary Protein Antigens for Breast Cancer Biomarkers
Breast Cancer is the most regularly diagnosed type of cancer in women in the world, making up on its own 25% of all cases, or nearly 2 million new cases in 2018, and 15% of all cancer related deaths, or around 626,700 deaths for that same year.
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