Friday, December 12, 2014

Published This Week (8th Dec - 12th Dec)

Kissing Bugs in the United States: Risk for Vector-Borne Disease in HumansWe are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Air, Soil and Water Research
Biological Approach for Recycling Waste Water in Iraq

Biomarkers in Cancer
Allele and Genotype Distributions of DNA Repair Gene Polymorphisms in South Indian Healthy Population

Deep Sequencing of Serum Small RNAs Identifies Patterns of 5' tRNA Half and YRNA Fragment Expression Associated with Breast Cancer

Cancer Growth and Metastasis
A Role for the Cavin-3/Matrix Metalloproteinase-9 Signaling Axis in the Regulation of PMA-Activated Human HT1080 Fibrosarcoma Cell Neoplastic Phenotype

Cancer Informatics
Bayesian Joint Selection of Genes and Pathways: Applications in Multiple Myeloma Genomics

Computational Construction of Antibody-Drug Conjugates Using Surface Lysines as the Antibody Conjugation Site and a Non-cleavable Linker

Semantically Linking In Silico Cancer Models

Normal Cell-Type Epigenetics and Breast Cancer Classification: A Case Study of Cell Mixture-Adjusted Analysis of DNA Methylation Data from Tumors

Growth Rate Analysis and Efficient Experimental Design for Tumor Xenograft Studies

Stratified Pathway Analysis to Identify Gene Sets Associated with Oral Contraceptive Use and Breast Cancer

CARAT-GxG: CUDA-Accelerated Regression Analysis Toolkit for Large-Scale Gene-Gene Interaction with GPU Computing System

Overcome Support Vector Machine Diagnosis Overfitting

Clinical Medicine Insights: Oncology
The Use of Pharmacogenomics for Selection of Therapy in Non-Small-Cell Lung Cancer

Micro-cost Analysis of ALK Rearrangement Testing by FISH to Determine Eligibility for Crizotinib Therapy in NSCLC: Implications for Cost Effectiveness of Testing and Treatment

Changes in Protein Level in the Cerebrospinal Fluid of a Patient with Cerebral Radiation Necrosis Treated with Bevacizumab

Drug Target Insights
Genome-wide Analysis of Mycoplasma hominis for the Identification of Putative Therapeutic Targets

Environmental Health
Environmental Changes Can Produce Shifts in Chagas Disease Infection Risk

Kissing Bugs in the United States: Risk for Vector-Borne Disease in Humans

Evolutionary Bioinformatics
Evaluating the Accuracy and Efficiency of Multiple Sequence Alignment Methods

In Silico Detection of Virulence Gene Homologues in the Human Pathogen Sphingomonas Spp.

Gene Regulation and Systems Biology
A Comprehensive Profile of ChIP-Seq-Based PU.1/Spi1 Target Genes in Microglia

International Journal of Insect Science
Effects of Delayed Mating and Access to Water on Oviposition and Longevity in Female Amyelois transitella

Tuesday, December 9, 2014

Public Science Insights article on the life history calendar and how can it be used to understand drug use and treatment

Addiction and public health researchers endeavor to understand the complex relationship between life events and substance using behaviors to better disentangle their interaction with access to health services and treatment outcomes.  Typically, this research relies on standardized questionnaires, which tend to overlook detailed lifetime experiences. Qualitative methods are one solution that allow for a more in-depth collection of individual experiences. However beneficial, these methods are more resource intensive than quantitative methods. Thus, obtaining a comprehensive picture of a person's patterns of drug use and treatment access poses methodological challenges to the public health researcher.  

Life event calendars and timelines are alternative methods used in health or social surveys that may provide the researcher with a feasible and efficient means for measuring detailed life events and their relationship with participant behavours, such as patterns of substance use, addiction treatment access and outcomes.  The life history calendar (LHC) is one example of a calendar and timeline instrument. This tool collects information on lifetime events and is used to identify the occurrence, timing, sequence and duration of events over the life course. 

The LHC has shown to improve the quality and completeness of the reported retrospective data.  A typical LHC uses a graphical display; the vertical axis shows the participant's life course or reference period of interest and the events are labeled on the horizontal axis. This graphical display facilitates memory recall of the timing and sequence of life events and is particularly useful for recalling less salient or more frequent events. The graphical display also allows interviewers to identify gaps in reported data. The accuracy of data is therefore greatly improved.

The LHC has been applied in the field of addictions, primarily to collect daily patterns of substance use, typically with a one-month follow-back time period. In addition, other studies have included questions in the LHC regarding substance use as one of the factors that could explain the health or social outcome of interest.  In our recent cross-sectional study among long-term opioid dependent (e.g., heroin) individuals, we used the LHC to strengthen quantitative data and to determine the relationship between life events (e.g., incarcerations, illnesses) with patterns of drug use and access to addiction treatment. Salient life events, such as the birth of a child, were used as reference points for recalling details surrounding drug use and treatment access. We were also able to determine transitions in the frequency and intensity of drug use and their relationship with life events and access to addiction treatment.

The primary challenge encountered was the use of a lifetime reference period for a large number of life events. To complete the LHC with accuracy and completeness, we emphasized the importance of the interviewer's role and training, as well as the use of complementary questionnaires. These questionnaires were used to refine the number of relevant life events.  Despite these challenges, detailed histories were collected and allowed us to uncover important time sensitive data on the relationship between events over the life course with patterns of substance use and access to addiction treatment. This data can explain relationships between these complex lifetime events otherwise not captured with questionnaires. Uncovering such complex relationships has the potential to improve addiction treatment outcomes in a number of capacities, and could be used for example, to inform timely interventions and to prevent relapses.

Kirsten Marchand, Heather Palis, Jill Fikowski, Eugenia Oviedo-Joekes are the authors of the recently published paper, Feasibility of Applying the Life History Calendar in a Population of Chronic Opioid Users to Identify Patterns of Drug Use and Addiction Treatment, available for download now in Substance Abuse: Research and Treatment

Friday, December 5, 2014

Published This Week (1st December - 5th December)

We are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Cancer Informatics
FocalCall: An R Package for the Annotation of Focal Copy Number Aberrations

Supervised Classification by Filter Methods and Recursive Feature Elimination Predicts Risk of Radiotherapy-Related Fatigue in Patients with Prostate Cancer

Health Information Technology in Oncology Practice: A Literature Review

Revealing Biological Pathways Implicated in Lung Cancer from TCGA Gene Expression Data Using Gene Set Enrichment Analysis

Assessment of Subnetwork Detection Methods for Breast Cancer

Streamlined Genome Sequence Compression using Distributed Source Coding

Trial Prospector: Matching Patients with Cancer Research Studies Using an Automated and Scalable Approach

A Pan-Cancer Analysis of Alternative Splicing Events Reveals Novel Tumor-Associated Splice Variants of Matriptase


Clinical Medicine Insights: Cardiology

Native T1 Mapping of the Heart - A Pictorial Review

Clinical Medicine Insights: Case Reports
Stiff Man Syndrome: A Diagnostic Dilemma in a Young Female with Diabetes Mellitus and Thyroiditis

Clinical Medicine Insights: Endocrinology and Diabetes
Plantar Pressure as a Risk Assessment Tool for Diabetic Foot Ulceration in Egyptian Patients with Diabetes

Monitoring HIV-infected Patients with Diabetes: Hemoglobin A1c, Fructosamine, or Glucose?

Clinical Medicine Insights: Oncology

Cancer-Associated Thrombosis: An Overview Oncology

 

Environmental Health Insights
Emergency Mosquito Control on a Selected Area in Eastern North Carolina After Hurricane Irene

Aedes aegypti and Aedes albopictus Habitat Preferences in South Texas, USA

Evolutionary Bioinformatics
SWAMP: Sliding Window Alignment Masker for PAML

International Journal of Tryptophan Research
Mechanisms of the Pellagragenic Effect of Leucine: Stimulation of Hepatic Tryptophan Oxidation by Administration of Branched-Chain Amino Acids to Healthy Human Volunteers and the Role of Plasma Free Tryptophan and Total Kynurenines

Journal of Medical Education and Curricular Development
Progress Testing for Medical Students at The University of Auckland: Results from The First Year of Assessments

Magnetic Resonance Insights
Investigation of Fat Metabolism during Antiobesity Interventions by Magnetic Resonance Imaging and Spectroscopy

Signal Transduction Insights
Prion Protein Signaling in the Nervous System-A Review and Perspective

Translational Oncogenomics

Evidence for the Influence of the Iron Regulatory MHC Class I Molecule HFE on Tumor Progression in Experimental Models and Clinical Populations

Tuesday, December 2, 2014

Interview with Dr Serena Delbue and Dr Pasquale Ferrante

This author interview is by Dr Serena Delbue and Dr Pasquale Ferrante, of the Department of Biomedical, Surgical and Dental Sciences, University of Milano, Milano, Italy. Their full paper, A Potential Linkage Between the JC and BK Polyomaviruses and Brain and Urinary Tract Tumors: A Review of the Literature, is available for download in Advances in Tumor Virology

First please summarise for readers the content of your article.

The potential association between infectious agents and human tumors is very relevant, since worldwide about 16.1% of cancers are related to the presence of bacteria and/or viruses. We focused our attention on the polyomaviruses, that are small DNA viruses, establishing latency in the human host. The name polyomavirus derived from the Greek roots poly-, which means "many", and -oma, which means "tumours". These viruses were originally isolated in mouse (mPyV) and in monkey (SV40). In 1971 the first human polyomaviruses BK and JC were isolated and subsequently demonstrated to be ubiquitous in the human population. JCV and BKV usually infect the human population during early childhood and primary infection is often asymptomatic. These viruses can remain latent in the kidney cells of the host until reactivation which occurs during immunodepression. JCV causes progressive multifocal leukoencephalopathy (PML) in cases of severe immunodeficiency, generally due to HIV infection, whereas BKV causes nephropathy in patients who have undergone to kidney transplants.

PyVs are also able to induce cell transformation when they infect non-permissive cells where viral replication is not supported; this is in contrast to permissive cells, where the virus can replicate. It has been demonstrated by several in vitro studies that the main factor implicated in cell transformation and tumour development is the early protein LTAg, a multifunctional protein, fundamental for the viral life cycle of polyomaviruses, because it regulates the viral genome replication and gene expression. Because of this, JCV and BKV are considered good candidates for playing a role in the pathogenesis of human tumors.

Consequently, it is not surprising that JCV DNA and BKV DNA has been identified mainly in central nervous system tumors (JCV) and urothelial carcinomas of the renal pelvis, prostate, and bladder as well as renal cell carcinomas (BKV).

In this paper we reviewed the published literature and we described the potential association between JCV and BKV with brain and urinary tract tumors, respectively.

How did you come to be involved in your area of study?

We have been studying JCV and BKV since twenty years ago, and we are interested in the different pathogenic manifestations of their infection in the human population. Our previous studies have provided evidences that JCV genome and proteins could be found in the brain tumoral tissues, and that BKV genome could be found in prostate cancer tissues. However, the significance of these findings is still under debate and the topic deserves in depth-analysis, starting from the detailed study of the published literature on the potential association between human polyomaviruses and different forms of malignancies.

What was previously known about the topic of your article?

The question related to the involvement of viral infections in the development of human tumors is still very controversial. This is due to the fact that the majority of the studies did not provide a definitive and proven association between the virus presence, the transforming mechanism and the cancer onset and/or progression. Consequently, even if a large body of data and results are widely diffused in literature, the knowledge on the viral etiology of the tumors is incomplete.

How has your work in this area advanced understanding of the topic?

Our work summarized and tried to critically analyse all the results that have been so far published regarding the presence and the expression of the genome of JCV and BKV in the clinical specimens collected from patients with CNS and urinary tract tumors, respectively. Our intent was to provide a starting point for further epidemiological studies, given the important role of the viral infections as risk factors for the tumor development in humans.

What do you regard as being the most important aspect of the results reported in the article?

Although a role for JCV and BKV in malignant transformation was proposed more than 40 years ago, and although in vitro studies supported the oncogenic properties of the T Ag protein, there is still insufficient evidence of a casual association between these human PyVs and solid cancer development. To settle this issue, JCV and BKV should fulfill criteria that have been fixed for establishing a causal relationship between a virus and a tumor. These criteria include the detection of the viral genome and/or proteins in cancerous tissues, proven molecular mechanisms for inducing tumorigenesis and consistency of association. So far, there are many doubts regarding the fulfillment of the first and the third criteria. However, despite the "inadequate evidence of carcinogenicity in humans", the WHO International Agency for Cancer Research Monograph Working Group decided to classify JCV and BKV as "possibly carcinogenic to humans", belonging to group 2B, on the basis of the "sufficient evidence in experimental animals". Therefore, only further solid, clear-cut epidemiologic, histopathologic and DNA evidence will ultimately settle this urgent issue and will help to answer the still unsolved question: "Do JCV and BKV cause tumors in the human population?" When a complete understanding is reached, a vaccination approach for the prevention of polyomavirus infection may be proposed.

Monday, December 1, 2014

Published During November

We are pleased to announce the publication of the following peer reviewed papers.  Sign up to receive email alerts to receive immediate notification of new papers.

Analytical Chemistry Insights

A Study of Method Development, Validation, and Forced Degradation for Simultaneous Quantification of Paracetamol and Ibuprofen in Pharmaceutical Dosage Form by RP-HPLC Method

Biochemistry Insights

Withaferin A Inhibits STAT3 and Induces Tumor Cell Death in Neuroblastoma and Multiple Myeloma

Bone and Tissue Regeneration Insights

Nanotechnology in the Regeneration of Complex Tissues 

Cancer Informatics

Conducting Retrospective Ontological Clinical Trials in ICD-9-CM in the Age of ICD-10-CM

Type I Error Control for Tree Classification

A Bayesian Framework to Improve MicroRNA Target Prediction by Incorporating External Information

Clinical Medicine Insights: Cardiology

Stroke Awareness in Luxemburg: Deficit Concerning Symptoms and Risk Factors

Atherosclerosis As a Possible Extrahepatic Manifestation of Chronic Hepatitis C Virus Infection

Transcatheter Aortic Valve Implantation (TAVI): Is it Time for This Intervention to be applied in a Lower Risk Population?

Clinical Medicine Insights: Case Reports

Acute Iodine Toxicity From a Suspected Oral Methamphetamine Ingestion

Switching from Nitrate Therapy to Ranolazine in Patients with Coronary Artery Disease Receiving Phosphodiesterase Type-5 Inhibitors for Erectile Dysfunction 

A Case of Fallopian Tube Adenofibroma: Difficulties Associated with Differentiation from Ectopic Pregnancy

Clinical Medicine Insights: Oncology

Phase II Clinical Trial of Gefitinib for the Treatment of Chemonaïve Patients with Advanced Non-small Cell Lung Cancer with Poor Performance Status 

Clinical Medicine Insights: Trauma and Intensive Medicine

The Management of Pediatric Polytrauma: Review  

Complex Tibial Fractures: Tips and Tricks for Intramedullary Nail Fixation

Environmental Health Insights

Magnetic Resonance Imaging of Graded Skeletal Muscle Injury in Live Rats 

Generation of Reactive Oxygen Species from Silicon Nanowires 

Temporal and Spatial Distribution of Tick-Borne Disease Cases among Humans and Canines in Illinois (2000–2009)

Potential Contribution of Work-Related Psychosocial Stress to the Development of Cardiovascular Disease and Type II Diabetes: A Brief Review

Drug Target Insights

The Expression of Serum Antibodies Against Gonadotropin-releasing Hormone (GnRH1), Progonadoliberin-2, Luteinizing Hormone (LH), and Related Receptors in Patients with Gastrointestinal Dysfunction or Diabetes Mellitus

Health Services Insights

The Lebanese Society of Cardiology: Plans and Perspectives, Navigating Against Contrary Winds and Progressing Against All Odds 

Immunology and Immunogenetics Insights

Cellular Responses to Cytosolic Double-stranded RNA—The Role of the Inflammasome

Journal of Medical Education and Curricular Development

A Pilot Study on the Use of Lecture Tools to Enhance the Teaching of Pharmacokinetics and Pharmacodynamics 

Lymphoma and Chronic Lymphocytic Leukemias

The Role of Functional Imaging in Lymphoma: Current Controversies and Future Directions

Magnetic Resonance Insights

Damage to the Optic Chiasm in Myelin Oligodendrocyte Glycoprotein–Experimental Autoimmune Encephalomyelitis Mice

Microbiology Insights

Evaluative Profiling of Arsenic Sensing and Regulatory Systems in the Human Microbiome Project Genomes

Genetic Diversity and Allelic Frequency of Glutamate-Rich Protein (GLURP) in Plasmodium falciparum Isolates from Sub-Saharan Africa

Friday, November 21, 2014

Published This Week (17th - 21st November)

We are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Analytical Chemistry Insights
A Study of Method Development, Validation, and Forced Degradation for Simultaneous Quantification of Paracetamol and Ibuprofen in Pharmaceutical Dosage Form by RP-HPLC Method


Cancer Informatics
Type I Error Control for Tree Classification

A Bayesian Framework to Improve MicroRNA Target Prediction by Incorporating External Information

Clinical Medicine Insights: Case Reports
Acute Iodine Toxicity From a Suspected Oral Methamphetamine Ingestion

Switching from Nitrate Therapy to Ranolazine in Patients with Coronary Artery Disease Receiving Phosphodiesterase Type-5 Inhibitors for Erectile Dysfunction

Clinical Medicine Insights: Trauma and Intensive Medicine
The Management of Pediatric Polytrauma: Review

Complex Tibial Fractures: Tips and Tricks for Intramedullary Nail Fixation

Environmental Health Insights
Magnetic Resonance Imaging of Graded Skeletal Muscle Injury in Live Rats

Health Services Insights
The Lebanese Society of Cardiology: Plans and Perspectives, Navigating Against Contrary Winds and Progressing Against All Odds

Lymphoma and Chronic Lymphocytic Leukemias
The Role of Functional Imaging in Lymphoma: Current Controversies and Future Directions 

Microbiology Insights
Genetic Diversity and Allelic Frequency of Glutamate-Rich Protein (GLURP) in Plasmodium falciparum Isolates from Sub-Saharan Africa

 

Thursday, November 20, 2014

Magdalena Kegel Discusses How The Kynurenine Pathway Affects Mental Health

Severe psychiatric disorders, such as schizophrenia, bipolar disorder and depression, are ruining the lives of millions of people worldwide. The kynurenine [kæjnurenin] pathway, unknown to most and difficult to pronounce, is increasingly being viewed as an important component in a multitude of physiological and pathological functions, including psychiatric disorders. So what is this pathway and how can it affect the way we feel and perceive the world surrounding us?

The kynurenine pathway, so called because of the sequential breakdown of compounds collectively known as kynurenines, stems from the dietary amino acid tryptophan. Tryptophan is mostly known as the compound initiating the production of the neurotransmitter serotonin, which is believed to play an important role in depression. Most of the tryptophan in the human body is however not converted to serotonin. As much as 95% of all tryptophan is utilized in the kynurenine pathway, giving rise to a number of compounds with the ability to alter the signaling of neurons in the brain. The pathway is divided into two main arms, branching off from the compound kynurenine. Kynurenic acid (KYNA) is the sole product of one branch. The other branch leads to a number of substances, among them the important quinolinic acid (QUIN). Our understanding is that the flow of kynurenine into one of these branches is increased in a number of disorders.

In the context of psychotic disorders, the compound KYNA has been most extensively studied. KYNA is found in elevated concentrations in patients with schizophrenia and bipolar disorder. Using experiments where researchers either increase or decrease the levels of KYNA in the brain of rodents, it has been shown that KYNA modulates the signaling by several important neurotransmitters in the brain, one of them being dopamine. Dopamine is in turn believed to underlie the development of both psychotic and manic symptoms as observed in schizophrenia and bipolar disorder. Increased levels of KYNA also decreases the levels of glutamate, another neurotransmitter with defect signaling in psychotic disorders. Furthermore, it produces cognitive deficits, such as working memory problems, in experimental animals. Cognition is under the control of both glutamate and acetylcholine neurotransmission, and the receptors for these neurotransmitters are the direct targets of KYNA in the brain. Compromised cognitive function in schizophrenia and bipolar disorder is considered to be a core feature of these disorders, and often presents a large barrier towards normal societal functioning for these patients.
Another compound of the kynurenine pathway, QUIN, is found in normal concentrations in patients with schizophrenia but is believed to play a role in unipolar depression. In two studies investigating patients who attempted suicide, of which approximately half the patients were depressed, researchers found elevated levels of QUIN.

QUIN is a known neurotoxin, involved in tissue destruction following traumatic brain injury or oxygen deprivation. As such, it has been implicated in a number of neurodegenerative disorders. Depression is a psychiatric disorder associated with reduced volume of brain tissue, specifically in regions associated with memory, as well as memory impairment. It is being investigated whether the increased levels of QUIN might cause the reduction in neural tissue and contribute to depressive symptoms. Drugs targeting the kynurenine pathway might hence provide novel opportunities for drug treatment in severe psychiatric disorders, specifically targeting symptoms not responding to the treatment available today in a satisfactory manner. Further research on the role of the kynurenine pathway in psychiatric disorders is therefore of utmost importance to all the people suffering psychiatric disorders today.

Magdalena Kegel is author of the recently published paper, Imbalanced kynurenine pathway in schizophrenia, available for download now in International Journal of Tryptophan Research.

Monday, November 17, 2014

Interview with Mrs Alyssa Brooks

This author interview is by Alyssa Brooks, of the National Institutes of Health. Mrs Brooks' full paper, Sleep Disturbances in Individuals with Alcohol-Related Disorders: A Review of Cognitive-Behavioral Therapy for Insomnia (CBT-I) and Associated Non-Pharmacological Therapies, is available for download in Substance Abuse: Research and Treatment.

First please summarise for readers the content of your article.
Our recently-published literature review examines the effectiveness of cognitive behavioural therapy for insomnia (CBT-I) and other behavioural interventions for those with alcohol-related disorders. Six articles were systematically reviewed and we discovered that the majority of studies demonstrated significant improvements in sleep efficiency among the treatment groups. A secondary goal of this review was to summarize various methods of behavioural / non-pharmacologic sleep intervention delivery, including therapy delivered by landline/smartphone or computer.

How did you come to be involved in your area of study?
I have been involved in alcohol research since I was an undergraduate at the Penn State Prevention Research Center. When I started graduate school at the University of Maryland, I simultaneously started working at the National Institutes of Health Clinical Center (NIH CC) as a pre-doctoral intramural research fellow. Through working on multiple projects examining health behaviour and chronic care management in diverse and vulnerable populations, I was constantly reminded of the concept of holistic and patient-centred care. Like other individuals with chronic and progressive diseases, alcoholics often struggle with a range of co-morbid conditions. At the NIH, I worked on a project examining the prevalence of sleep disturbances among alcoholics undergoing inpatient rehabilitation. Although sleep was not originally one of my research interests, I am learning the importance of quality sleep for relapse prevention and overall quality of life among alcoholics. This realization inspired my dissertation study, which utilizes mixed-methods to examine sleep disturbances and their role in relapse among recovering alcoholics during both the inpatient and outpatient phases of treatment.

What was previously known about the topic of your article?
Alcohol consumption and sleep disturbances frequently co-occur, and sleep disturbances are often associated with relapse. The evidence for CBT-I as an effective means for improving sleep duration and quality is building, but little research has been done specifically among alcoholics.

How has your work in this area advanced understanding of the topic?
This paper was meant to start the conversation on tailoring evidence-based sleep interventions to alcohol-dependent individuals. The unique needs of recovering are immensely important to identify, understand, and work with when designing interventions that are not only evidence-based but feasible and acceptable to the target population.

What do you regard as being the most important aspect of the results reported in the article?
Non-pharmacological sleep interventions may be effective, but should be tailored to recovering alcoholics. Thorough mixed-methods research is needed to inform these future interventions.

Alyssa Brooks' LinkedIn profile

Friday, November 14, 2014

Published Recently (10th November – 14th November)

We are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Biochemistry Insights
Withaferin A Inhibits STAT3 and Induces Tumor Cell Death in Neuroblastoma and Multiple Myeloma

Bone and Tissue Regeneration Insights
Nanotechnology in the Regeneration of Complex Tissues

Cancer Informatics
Conducting Retrospective Ontological Clinical Trials in ICD-9-CM in the Age of ICD-10-CM

Clinical Medicine Insights: Cardiology
Stroke Awareness in Luxemburg: Deficit Concerning Symptoms and Risk Factors

Atherosclerosis As a Possible Extrahepatic Manifestation of Chronic Hepatitis C Virus Infection

Transcatheter Aortic Valve Implantation (TAVI): Is it Time for This Intervention to be applied in a Lower Risk Population?

Environmental Health Insights
Generation of Reactive Oxygen Species from Silicon Nanowires

Temporal and Spatial Distribution of Tick-Borne Disease Cases among Humans and Canines in Illinois (2000-2009)

Drug Target Insights
The Expression of Serum Antibodies Against Gonadotropin-releasing Hormone (GnRH1), Progonadoliberin-2, Luteinizing Hormone (LH), and Related Receptors in Patients with Gastrointestinal Dysfunction or Diabetes Mellitus

Immunology and Immunogenetics Insights
Cellular Responses to Cytosolic Double-stranded RNA-The Role of the Inflammasome

Journal of Medical Education and Curricular Development
A Pilot Study on the Use of Lecture Tools to Enhance the Teaching of Pharmacokinetics and Pharmacodynamics

Magnetic Resonance Insights
Damage to the Optic Chiasm in Myelin Oligodendrocyte Glycoprotein-Experimental Autoimmune Encephalomyelitis Mice

Microbiology Insights
Evaluative Profiling of Arsenic Sensing and Regulatory Systems in the Human Microbiome Project Genomes

Friday, November 7, 2014

Published Recently (27th October - 7th November)

We are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Biomarkers in Cancer
A Standardized and Reproducible Urine Preparation Protocol for Cancer Biomarkers Discovery

Cancer Informatics
A Pan-Cancer Modular Regulatory Network Analysis to Identify Common and Cancer-Specific Network Components

Propensity Score Method for Partially Matched Omics Studies

A Novel Subset of Human Tumors That Simultaneously Overexpress Multiple E2F-responsive Genes Found in Breast, Ovarian, and Prostate Cancers

Predicting Cancer Prognosis Using Functional Genomics Data Sets

In Silico Prediction of Synthetic Lethality by Meta-Analysis of Genetic Interactions, Functions, and Pathways in Yeast and Human Cancer

Clinical Medicine Insights: Cardiology
Unusual Case of a Free-floating Ball Thrombus with Preserved Attachment to the Left Atrial Appendage Causing Recurrent Obstruction of the Left Ventricular Outflow Tract

Clinical Medicine Insights: Gastroenterology
Bupivacaine Lozenge Compared with Lidocaine Spray as Topical Pharyngeal Anesthetic before Unsedated Upper Gastrointestinal Endoscopy: A Randomized, Controlled Trial

Clinical Medicine Insights: Pediatrics
Safety and Tolerance Evaluation of Milk Fat Globule Membrane-Enriched Infant Formulas: A Randomized Controlled Multicenter Non-Inferiority Trial in Healthy Term Infants

Clinical Medicine Insights: Therapeutics
Perampanel for the Control of Drug-Resistant Partial-Onset Seizures in Patients 12 years and Older

Environmental Health Insights
Insights into Ebola and Other Emerging and Re-emerging Infectious Disease Risks

Investigations of Koutango Virus Infectivity and Dissemination Dynamics in Aedes aegypti Mosquitoes

Economic Evidence on the Health Impacts of Climate Change in Europe

Evolutionary Bioinformatics
Evolutionary Analysis and Prediction of Peptide Vaccine Candidates for Foot-and-Mouth-Disease Virus Types A and O in Bangladesh

Integrative Medicine Insights
Randomized Trial of Hypnosis as a Pain and Symptom Management Strategy in Adults with Sickle Cell Disease

Journal of Medical Education and Curricular Development
Evaluation of the Assessment Plan for Undergraduate Clerkship in Obstetrics and Gynecology, King Abdulaziz University

Substance Abuse: Research and Treatment
Feasibility of Applying the Life History Calendar in a Population of Chronic Opioid Users to Identify Patterns of Drug Use and Addiction Treatment

Thursday, November 6, 2014

Four Journals Now Indexed in DOAJ Database

We have recently had a number of our journals now indexed in the popular DOAJ (Directory of Open Access Journals) database.

The journals have passed through an extensive evaluation process prior to approval. DOAJ has thoroughly evaluated the journal's editorial and production processes and has confirmed that the journal is compliant with an extensive list of criteria.

The journals indexed with DOAJ are;

  • Journal of Genomes and Exomes

  • Healthy Aging & Clinical Care in the Elderly

  • Health Services Insights

  • Journal of Experimental Neuroscience

More information about the evaluation process and the standards that journals must meet for inclusion can be found on the DOAJ website.

Tuesday, November 4, 2014

Dr Abdul Hameed discusses Myeloma Bone Disease

Multiple myeloma (MM) is a type of blood cancer and is categorized as a plasma cell disorder. Plasma cells are one type of white blood cells involved in body defense (protecting us from infections). In a normal person, these cells produce antibodies (proteins which kill bacteria/germs). In MM, one type of these plasma cells (clonal), are produced in large number and they keep on multiplying out of control. The main bulk of plasma cells are found in bone marrow. The majority of MM patients suffer from bone damage because of this.

In healthy individuals there is a balance between the bone destruction and formation. Bone resorbing cells (osteoclasts) break old bone and bone formation cells (Osteoblasts) start repairing these areas. This balance is lost in MM. Plasma cells produce certain chemicals (cytokines) which in turn stimulate Osteoclasts and suppress Osteoblasts. Thus, in MM there is more bone breakdown than formation. This results in the development of bone disease in MM. Bones become weaker and break easily (fractures).

Due to bone disease, patients suffer from pain, reduced mobility and poor quality of life.

Plain X-Rays are routinely used for the detection of myeloma bone disease(MBD). Newer imaging modalities such as MRI/ Positron emission tomography CT are useful are better than X-rays for the evaluation of MBD. In certain circumstances these imaging tools are preferable when detecting MBD. For example MRI is better than plain x-rays for detection of spine lesions.

Management of MBD involves control of systemic disease. Patients should be started on anti-myeloma treatment according to standard recommendations. In addition, patients need regular (on a monthly basis) injections of bisphosphonates (Aredia/Zometa- types of bone strengtheners). Bisphosphonates reduce bone destruction by inhibition of Osteoclasts. These agents are also helpful in controlling pain and reducing the risk of fractures. Bisphosphonates are given for a couple of years (provided disease remains in remission).

However, long term use may result in certain serious side effects of these agents including damage to kidney and jaw bones (Osteonecrosis of jaw) which is why patients on this treatment should remain under close observation for complications.

Invasive dental procedures should be avoided while being on bisphosphonates. If any dental workup is required, then the treating Hematologist / Oncologist and Dentist should be on board. Bisphosphonates should be stopped and restarted at least 90 days before and post procedure, respectively.

Apart from bisphosphonates, there are some other treatment methods used to manage MBD. These include spine strengthening procedures such as vertebroplasty / Kyphoplasty and even surgical intervention may be required to deal with fractures. In those patients where pain is a major issue, advice from pain management team should also be sought.

With the addition of novel agents in the treatment of MM, patients are living longer. Thus, there is a need to address MBD issues aggressively in order to improve the quality of life in these patients.

There is now a better understanding of the mechanisms behind the development of MBD and new targeted therapies are in clinical trials to treat this morbid condition. The future looks promising.  

Dr Abdul Hameed from Shaukat Khanum Memorial Cancer Hospital & Research Centre in Lahore, Pakistan, is author of the recently published paper Bone Disease in Multiple Myeloma: Pathophysiology and Management, available for download now in Cancer Growth and Metastasis.

Friday, October 31, 2014

Published During October

We are pleased to announce the publication of the following peer reviewed papers.  Sign up to receive email alerts to receive immediate notification of new papers.

Advances in Tumor Virology
A Potential Linkage Between the JC and BK Polyomaviruses and Brain and Urinary Tract Tumors: A Review of the Literature

Bioinformatics and Biology Insights
Computational Methods for CLIP-seq Data Processing   

Biomarker Insights
Decreased Mitogen Inducible Gene 6 (MIG-6) Associated with Symptom Severity in Children with Autism

Bone and Tissue Regeneration Insights
A Review of the Pathogenesis of Osteoarthritis and the Use of Intra-articular Platelet Therapy for Joint Disease in Animals and Humans

Characterization of Human Anulus Fibrosus– and Nucleus Pulposus–Derived Cells During Monolayer Expansion and in Hydrogel Cultures

Breast Cancer: Basic and Clinical Research
RAD51B Activity and Cell Cycle Regulation in Response to DNA Damage in Breast Cancer Cell Lines

Hereditary Breast Cancer: Clinical, Pathological and Molecular Characteristics

Update on Adjuvant Chemotherapy for Early Breast Cancer

Cancer Informatics
Combined Benefit of Prediction and Treatment: A Criterion for Evaluating Clinical Prediction Models

Bayesian Disease Classification Using Copy Number Data

Introductory Editorial: Computational Advances in Cancer Informatics (A)

Inferring Aberrant Signal Transduction Pathways in Ovarian Cancer from TCGA Data

Optimization of Network Topology in Computer-Aided Detection Schemes Using Phased Searching with NEAT in a Time-Scaled Framework

Mining Cancer-Specific Disease Comorbidities from a Large Observational Health Database

Text Mining in Cancer Gene and Pathway Prioritization

Modeling Signal Transduction from Protein Phosphorylation to Gene Expression

CSNK1A1 and Gli2 as Novel Targets Identified Through an Integrative Analysis of Gene Expression Data, Protein-Protein Interaction and Pathways Networks in Glioblastoma Tumors: Can These Two Be Antagonistic Proteins?

RNAseqPS: A Web Tool for Estimating Sample Size and Power for RNAseq Experiment

Inferring the Effects of Honokiol on the Notch Signaling Pathway in SW480 Colon Cancer Cells

Feasibility and Implementation of a Literature Information Management System for Human Papillomavirus in Head and Neck Cancers with Imaging

Exploiting Literature-derived Knowledge and Semantics to Identify Potential Prostate Cancer Drugs

Prediction of MicroRNA Precursors Using Parsimonious Feature Sets

Disease Biomarker Query from RNA-Seq Data

Integrated DNA Copy Number and Gene Expression Regulatory Network Analysis of Non-small Cell Lung Cancer Metastasis

Toolbox for Mobile-Element Insertion Detection on Cancer Genomes

Mapping Splicing Quantitative Trait Loci in RNA-Seq

TEGS-CN: A Statistical Method for Pathway Analysis of Genome-wide Copy Number Profile

Unsupervised Outlier Profile Analysis

CORM: An R Package Implementing the Clustering of Regression Models Method for Gene Clustering

Profiling the microRNA Expression in Human iPS and iPS-derived Retinal Pigment Epithelium

Master Regulators, Regulatory Networks, and Pathways of Glioblastoma Subtypes

Network-based Prediction of Cancer under Genetic Storm

Quality Control for RNA-Seq (QuaCRS): An Integrated Quality Control Pipeline

Automated Recommendation for Cervical Cancer Screening and Surveillance

Network-Based Identification of Biomarkers Coexpressed with Multiple Pathways

StickWRLD as an Interactive Visual Pre-Filter for Canceromics-Centric Expression Quantitative Trait Locus Dataz  

A Comprehensive Comparison of Normalization Methods for Loading Control and Variance Stabilization of Reverse-Phase Protein Array Data

Network Analysis of Cancer-focused Association Network Reveals Distinct Network Association Patterns

Co-expression Network Analysis of Human lncRNAs and Cancer Genes

The Axis of Progression of Disease

eMBI: Boosting Gene Expression-based Clustering for Cancer Subtypes

Classification of Images Acquired with Colposcopy Using Artificial Neural Networks

Learning Dysregulated Pathways in Cancers from Differential Variability Analysis

A Pan-Cancer Modular Regulatory Network Analysis to Identify Common and Cancer-Specific Network Components

Propensity Score Method for Partially Matched Omics Studies

Clinical Medicine Insights: Cardiology
Impact of D-Dimers on the Differential Diagnosis of Acute Chest Pain: Current Aspects Besides the Widely Known

The Association of Pre-Existing Left Atrial Fibrosis with Clinical Variables in Patients Referred for Catheter Ablation of Atrial Fibrillation

Diagnosis and Management of Valvular Aortic Stenosis

Clinical Medicine Insights: Case Reports
Double Hit Lymphoma – a Case of Unusual Response After Sequential Aggressive Chemotherapy and Review of the Literature

Late-Onset Screw Migration into Iliac Vessels 21 years after Hip Arthrodesis

Clinical Medicine Insights: Circulatory, Respiratory and Pulmonary Medicine
Perceptions of Received Information, Social Support, and Coping in Patients with Pulmonary Arterial Hypertension or Chronic Thromboembolic Pulmonary Hypertension     

Clinical Medicine Insights: Gastroenterology
Diabetic Ketoacidosis-induced Hypertriglyceridemic Acute Pancreatitis Treated with Plasmapheresis—Recipe for Biochemical Disaster Management 

Bupivacaine Lozenge Compared with Lidocaine Spray as Topical Pharyngeal Anesthetic before Unsedated Upper Gastrointestinal Endoscopy: A Randomized, Controlled Trial 

Clinical Medicine Insights: Reproductive Health
Individualized Treatment from Theory to Practice: The Private Case of Adding LH during GnRH Antagonist-based Stimulation Protocol

Environmental Health Insights
Identification of Larvicide-Resistant Catch Basins from Three Years of Larvicide Trials in a Suburb of Chicago, IL

Volitional Weight-Lifting in Rats Promotes Adaptation via Performance and Muscle Morphology prior to Gains in Muscle Mass

Evaluation of the Pulmonary Toxicity of a Fume Generated from a Nickel-, Copper-Based Electrode to be Used as a Substitute in Stainless Steel Welding

Insights into Ebola and Other Emerging and Re-emerging Infectious Disease Risks

Investigations of Koutango Virus Infectivity and Dissemination Dynamics in Aedes aegypti Mosquitoes

Evolutionary Bioinformatics
A New Method for Motif Mining in Biological Networks

Comparative Study on Sequence–Structure–Function Relationship of the Human Short-chain Dehydrogenases/Reductases Protein Family

Cloning and Expression Profiling of the Polycomb Gene, Retinoblastoma-related Protein from Tomato Solanum lycopersicum L.

Health Services Insights
Predictors of Willingness to Participate in Health Insurance Services Among the Community of Jimma Town, Southwest Ethiopia

International Journal of Insect Science
Insecticides and Bio-insecticides Modulate the Glutathione-related Antioxidant Defense System of Cowpea Storage Bruchid (Callosobruchus maculatus)

Impact of the Argemone mexicana Stem Extracts on the Reproductive Fitness and Behavior of Adult Dengue Vector, Aedes aegypti L. (Diptera: Culicidae)

Japanese Clinical Medicine
Prospective Randomized Trial on Postoperative Administration of Diet Containing Eicosapentaenoic Acid, Docosahexaenoic Acid, Gamma-linolenic Acid, and Antioxidants in Head and Neck Cancer Surgery Patients with Free-flap Reconstruction

Journal of Cell Death
Optogenetic Control of Apoptosis in Targeted Tissues of Xenopus laevis Embryos

Journal of Central Nervous System Disease
Administration of an Amino Acid–Based Regimen for the Management of Autonomic Nervous System Dysfunction Related to Combat-Induced Illness

Idiopathic Ventral Spinal Cord Herniation: An Increasingly Recognized Cause of Thoracic Myelopathy

Journal of Genomes and Exomes
Many Breast Cancer Mutations Parallel Mutations in Known Viral Cancers

Journal of Medical Education and Curricular Development
Evaluation of the Assessment Plan for Undergraduate Clerkship in Obstetrics and Gynecology, King Abdulaziz University

Nutrition and Metabolic Insights
Randomized Controlled Trial to Compare Growth Parameters and Nutrient Adequacy in Children with Picky Eating Behaviors Who Received Nutritional Counseling With or Without an Oral Nutritional Supplement

Open Journal of Cardiovascular Surgery
Retraction: “Bedside Surgery to Treat Patent Ductus Arteriosus in Low-Birth-Weight Premature Infants”  http://www.la-press.com/retraction-bedside-surgery-to-treat-patent-ductus-arteriosus-in-low-bi-article-a4411

Perspectives in Medicinal Chemistry
Multiple Sclerosis: Overview of Disease-Modifying Agents 

Antimicrobial Peptides and Their Analogs: Searching for New Potential Therapeutics

Substance Abuse: Research and Treatment
Predictors of Staff Turnover and Turnover Intentions within Addiction Treatment Settings: Change Over Time Matters

Feasibility of Applying the Life History Calendar in a Population of Chronic Opioid Users to Identify Patterns of Drug Use and Addiction Treatment

Friday, October 24, 2014

Published This Week (20th October - 24th October)

We are pleased to announce the publication of the following peer reviewed papers.  Sign up to receive email alerts to receive immediate notification of new papers.


Cancer Informatics
Network-Based Identification of Biomarkers Coexpressed with Multiple Pathways

StickWRLD as an Interactive Visual Pre-Filter for Canceromics-Centric Expression Quantitative Trait Locus Dataz 

A Comprehensive Comparison of Normalization Methods for Loading Control and Variance Stabilization of Reverse-Phase Protein Array Data

Network Analysis of Cancer-focused Association Network Reveals Distinct Network Association Patterns

Co-expression Network Analysis of Human lncRNAs and Cancer Genes

The Axis of Progression of Disease

eMBI: Boosting Gene Expression-based Clustering for Cancer Subtypes

Classification of Images Acquired with Colposcopy Using Artificial Neural Networks

Learning Dysregulated Pathways in Cancers from Differential Variability Analysis

Clinical Medicine Insights: Cardiology
Impact of D-Dimers on the Differential Diagnosis of Acute Chest Pain: Current Aspects Besides the Widely Known

The Association of Pre-Existing Left Atrial Fibrosis with Clinical Variables in Patients Referred for Catheter Ablation of Atrial Fibrillation

Diagnosis and Management of Valvular Aortic Stenosis

Clinical Medicine Insights: Circulatory, Respiratory and Pulmonary Medicine
Perceptions of Received Information, Social Support, and Coping in Patients with Pulmonary Arterial Hypertension or Chronic Thromboembolic Pulmonary Hypertension    

Evolutionary Bioinformatics
Comparative Study on Sequence–Structure–Function Relationship of the Human Short-chain Dehydrogenases/Reductases Protein Family

Cloning and Expression Profiling of the Polycomb Gene, Retinoblastoma-related Protein from Tomato Solanum lycopersicum L.

Health Services Insights
Predictors of Willingness to Participate in Health Insurance Services Among the Community of Jimma Town, Southwest Ethiopia

International Journal of Insect Science
Insecticides and Bio-insecticides Modulate the Glutathione-related Antioxidant Defense System of Cowpea Storage Bruchid (Callosobruchus maculatus)

Japanese Clinical Medicine
Prospective Randomized Trial on Postoperative Administration of Diet Containing Eicosapentaenoic Acid, Docosahexaenoic Acid, Gamma-linolenic Acid, and Antioxidants in Head and Neck Cancer Surgery Patients with Free-flap Reconstruction

Friday, October 17, 2014

Published This Week (13th October - 17th October)

We are pleased to announce the publication of the following peer reviewed papers. Sign up to receive email alerts to receive immediate notification of new papers.

Bone and Tissue Regeneration Insights
Characterization of Human Anulus Fibrosus- and Nucleus Pulposus-Derived Cells During Monolayer Expansion and in Hydrogel Cultures

Breast Cancer: Basic and Clinical Research
RAD51B Activity and Cell Cycle Regulation in Response to DNA Damage in Breast Cancer Cell Lines

Hereditary Breast Cancer: Clinical, Pathological and Molecular Characteristics

Cancer Informatics
Introductory Editorial: Computational Advances in Cancer Informatics (A)

Inferring Aberrant Signal Transduction Pathways in Ovarian Cancer from TCGA Data

Optimization of Network Topology in Computer-Aided Detection Schemes Using Phased Searching with NEAT in a Time-Scaled Framework

Mining Cancer-Specific Disease Comorbidities from a Large Observational Health Database

Text Mining in Cancer Gene and Pathway Prioritization

Modeling Signal Transduction from Protein Phosphorylation to Gene Expression

CSNK1A1 and Gli2 as Novel Targets Identified Through an Integrative Analysis of Gene Expression Data, Protein-Protein Interaction and Pathways Networks in Glioblastoma Tumors: Can These Two Be Antagonistic Proteins?

RNAseqPS: A Web Tool for Estimating Sample Size and Power for RNAseq Experiment

Inferring the Effects of Honokiol on the Notch Signaling Pathway in SW480 Colon Cancer Cells

Feasibility and Implementation of a Literature Information Management System for Human Papillomavirus in Head and Neck Cancers with Imaging

Exploiting Literature-derived Knowledge and Semantics to Identify Potential Prostate Cancer Drugs

Prediction of MicroRNA Precursors Using Parsimonious Feature Sets

Disease Biomarker Query from RNA-Seq Data

Integrated DNA Copy Number and Gene Expression Regulatory Network Analysis of Non-small Cell Lung Cancer Metastasis

Toolbox for Mobile-Element Insertion Detection on Cancer Genomes

Mapping Splicing Quantitative Trait Loci in RNA-Seq

TEGS-CN: A Statistical Method for Pathway Analysis of Genome-wide Copy Number Profile

Unsupervised Outlier Profile Analysis

CORM: An R Package Implementing the Clustering of Regression Models Method for Gene Clustering

Profiling the microRNA Expression in Human iPS and iPS-derived Retinal Pigment Epithelium

Master Regulators, Regulatory Networks, and Pathways of Glioblastoma Subtypes

Network-based Prediction of Cancer under Genetic Storm

Quality Control for RNA-Seq (QuaCRS): An Integrated Quality Control Pipeline

Automated Recommendation for Cervical Cancer Screening and Surveillance

Clinical Medicine Insights: Gastroenterology
Diabetic Ketoacidosis-induced Hypertriglyceridemic Acute Pancreatitis Treated with Plasmapheresis-Recipe for Biochemical Disaster Management

Clinical Medicine Insights: Reproductive Health
Individualized Treatment from Theory to Practice: The Private Case of Adding LH during GnRH Antagonist-based Stimulation Protocol

Environmental Health Insights
Identification of Larvicide-Resistant Catch Basins from Three Years of Larvicide Trials in a Suburb of Chicago, IL

Volitional Weight-Lifting in Rats Promotes Adaptation via Performance and Muscle Morphology prior to Gains in Muscle Mass

Evaluation of the Pulmonary Toxicity of a Fume Generated from a Nickel-, Copper-Based Electrode to be Used as a Substitute in Stainless Steel Welding

International Journal of Insect Science
Impact of the Argemone mexicana Stem Extracts on the Reproductive Fitness and Behavior of Adult Dengue Vector, Aedes aegypti L. (Diptera: Culicidae)

Journal of Cell Death
Optogenetic Control of Apoptosis in Targeted Tissues of Xenopus laevis Embryos

Journal of Genomes and Exomes
Many Breast Cancer Mutations Parallel Mutations in Known Viral Cancers

Perspectives in Medicinal Chemistry
Antimicrobial Peptides and Their Analogs: Searching for New Potential Therapeutics