Category: Academia (page 1 of 2)

Methods Section of a Research Paper: What is it good for? Absolutely Everything.

I love a well-written methods section in a research communication. There, I said it. And as a peer reviewer, I often go to the methods in the manuscript under review in order to understand both the experiments that authors have designed and performed, and the rationale behind the flow and organization of different experiments, each yielding a separate piece of the overall puzzle in form of data. But I didn’t start out this way; this is the story of my evolution, as well as the woeful tale of a long-held (and recently re-encountered, in a high impact journal, no less) annoyance—poorly or inadequately written, incomplete methods.

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Review Unto Others, As You Would Have Others Review Unto You: my Golden Rule for Scientific Manuscripts

Finding—more like, eking out!—time from within a back-breaking work schedule, I recently managed to review back-to-back four manuscripts for publication in diverse journals. The topics in these papers touched my work only marginally, in that they belonged to the broad areas of microbiology, antibodies and immunodiagnostics. A chance remark by a professional friend—”Your reviews are impressively long and detailed…“—got me thinking about my overall experience reviewing scientific manuscripts. “Long and detailed” is probably why it takes me a considerable time and effort to go through the paper, occasionally check the references, and note down my thoughts in the margin, either on paper (i.e. on a print-out), or electronically (annotating the manuscript PDF, my preferred mode). Not unknown to anyone who is familiar with the process of scientific publishing and the world of biomedical journals, Peer Review is a mechanism that attracts a significant amount of controversy. So why do I keep investing the time and effort towards it? More after the fold.

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Nature Publishing Group dabbling in Homeopathy is a loss of opportunity for good pharmacognostic research

This morning, I was alerted to the latest homeopathy shenanigan via the Forbes column of Dr. Steven Salzberg. (COI statement: I don’t know Dr. Salzberg personally, but I follow his columns, and he is a faculty member at my institution—albeit in a discipline not directly related to mine.) At the heart of it is yet another bog-standard ridiculous “study” purporting to show “clinical effect” of homeopathy, despite the preponderant evidence that homeopathy does not work. What makes this instance special enough for me to take time out from my over-burdened work schedule? The fact that it was published in Scientific Reports from the—wait for it!—Nature Publishing Group. Yes, THAT Nature.

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Arnica Extract Changes Gene Expression in Extracellular Matrix? Probably. Does Homeopathic Arnica? Haha, No!

ResearchBlogging.org

A paper published last month in PLOS One by a group of investigators from the University of Verona in Italy states that Arnica montana Stimulates Extracellular Matrix Gene Expression in a Macrophage Cell Line Differentiated to Wound-Healing Phenotype. Given my abiding interest in pharmacognosy and ethnobotany, I was suitably intrigued because the extract derived from Arnica montana, a European flowering plant of the sunflower family, is likely to be biologically active due to the presence of certain sesquiterpene lactones (same class of substances as present in the plant-derived anti-malarial Artemisinin), the plant metabolite flavonoids (substances with some in vitro anti-oxidant and anti-inflammatory activity), and derivatives of thymol (phenolic substance with antimicrobial action). Like many bioactive phytopharmaceutical substances, Helenalins, the sesquiterpene lactones and their fatty acyl esters in Arnica montana, are toxic in high concentrations, but have anti-inflammatory properties via its inhibition of the transcription factor NFkB.

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Homeopathy: Is It Really Effective In Upper Respiratory Tract Infections With Fever In Children? Not Quite

ResearchBlogging.org

A recently published paper, with the outcomes of a collaborative European Randomized Controlled Trial (RCT) undertaken in Germany and Ukraine, is making waves amongst jubilant homeopaths as yet another evidence supporting their long-held belief in the clinical effectiveness of homeopathy. Naturally, this 2016 paper in the Journal Global Pediatric Health by van Haselen et al. piqued my curiosity and I dove in to see what the hullabaloo was all about.

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Foreign-born Biomedical Researcher in the United States, a Tale of Woe

It has been more than two years since I wrote about a tale of woe, the sad reality of being a non-immigrant biomedical researcher in the US. I chronicled the travails of my wife, who – even with a STEM PhD from a top-tier medical school in New York – was facing the murky uncertainties associated with doing science on a visa in the US. That uneasy disquietude still continues to haunt her; even though her Green Card application has been submitted, nothing is certain until she actually gets it in her hand – and we have no clue when that is going to happen.

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2015 Nobel to Traditional Chinese Medicine Expert is a Win for Evidence-based Pharmacognosy

Yesterday, on October 5, 2015, one half of the Nobel Prize in Physiology or Medicine was awarded to scientist and pharmaceutical chemist Tu Youyou (alternatively, Tu Yo Yo, 屠呦呦 in Chinese), for her discovery of the anti-malarial Artemisinin. (The other half went jointly to William C. Campbell and Satoshi Ōmura, for their discovery of a novel therapy for roundworm infection.)

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ResearchGate, heal thyself… please? (UPDATED)

People reading this blog (I sure hope someone reads it *bites nails*) may be familiar with the name ResearchGate. It was envisaged as a social networking site focused on scientists; founded in 2008 by Ijad Madisch and Sören Hofmayer, both physicians, and Horst Fickenscher, a computer scientist, the site’s stated mission statement is: to connect researchers and make it easy for them to share and access scientific output, knowledge, and expertise. Although not unique (or the only player) in this field, ResearchGate offers several features which are valuable for academic collaborations:

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Lax standards at PLOS One for peer review of CAM research papers?

Serious question: has the peer review system at the PLOS journals been doing a less-than-stellar job when it comes to evaluating complementary and alternative medicine (CAM) research for publication? If the answer is ‘yes’, why? Or if ‘no’, how does a paper like this go through PLOS ONE without some serious revisions? I refer to the systematic review and meta-analysis on effectiveness of acupuncture for essential hypertension, done by a group of researchers from the Tianjin University of Traditional Chinese Medicine (TCM) in China, led by Xiao-Feng Zhao, published on July 24, 2015, on PLOS ONE. The authors conclude that there is acceptable evidence for use of acupuncture as adjunctive therapy along with medication for treating hypertension. My perusal of the paper led to some major reservations about that assumption, as well as indicated some instances of sloppy writing which should have been corrected at the stage of review – but, strangely, wasn’t.

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Authors of PLOS One Study on Benefits of Electro-Acupuncture Answer My Questions

Early last month, I communicated in a blog post a few questions I had about a study in Electro Acupuncture published in PLOS One. It took the authors a while to get to them, but the senior and corresponding author of that study, Professor Kai-Liang Wu, of the Fudan University Shanghai Cancer Center, graciously wrote a detailed reply to my question a week ago. I am going to put his response in this space in blocks. For better comprehension, I shall put my questions in italicized letters followed by his response; the boldface types are for emphasis, mine. My comments are interspersed with the blocks.

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