Gan SKE

Discovery of a novel splice variant of Fcar (CD89) unravels sequence segments necessary for efficient secretion: a story of bad signal peptides and good ones that nevertheless do not make it

Published date : 19 Jan 2017

The IgA receptor, Fcar (CD89) consists of five sequence segments: two segments (S1, S2) forming the potential signal peptide, two extracellular EC domains that include the IgA binding site, and the transmembrane and cytoplasmic tail (TM/C) region. Numerous Fcar splice variants have been reported with various combinations of the sequence segments mentioned above. Here, we report a novel splice variant termed variant APD isolated from a healthy volunteer that lacks only the IgA-binding EC1 domain.

type
Journal Paper
journal
Cell Cycle 2016, doi: 10.1080/15384101.2017.1281480
Impact Factor
3.952

Structural analyses of 2015-updated drugresistant mutations in HIV-1 protease: an implication of protease inhibitor crossresistance

Published date : 16 Dec 2016

Background: Strategies to control HIV for improving the quality of patient lives have been aided by the Highly Active Anti-Retroviral Therapy (HAART), which consists of a cocktail of inhibitors targeting key viral enzymes. Numerous new drugs have been developed over the past few decades but viral resistances to these drugs in the targeted viral enzymes are increasingly reported. Nonetheless the acquired mutations often reduce viral fitness and infectivity.

type
Journal Paper
journal
BMC Bioinformatics 2016, 17(Suppl 19):500 doi: 10.1186/s12859-016-1372-3
Impact Factor
2.435

APD Colony Counter App: Using Watershed Algorithm for improved colony counting

Published date : 09 Aug 2016

The counting of colonies to quantitate bacteria is an important process in labs for research, clinical diagnosis, and environmental monitoring e.g. in water. Generally counted manually, progress in technology has automated the process through colony counters that can be purchased but can be costly. While efficient, there remains also a challenge correctly detecting clustered colonies compromising inaccurate counts. Leveraging on the smartphone camera, we developed an app that processes images of colony plates and automatically counts them.

type
Journal Paper
journal
Nature Methods Application Notes 2016
Impact Factor
32.072

An overview of clinically and healthcare related apps in Google and Apple app stores: connecting patients, drugs, and clinicians

Published date : 19 Jul 2016

Successful clinical outcomes involve both clinician and patient factors such as good decision making, accurate diagnosis, patient compliance, effective monitoring of the condition, and accurate interpretation of clinical results. With a general trend in healthcare towards personalized medicine, the smartphone holds great potential to play a role in personalized care and aid in the above mentioned factors. Through the use of apps, the increasingly powerful smartphone may be a useful aid in the healthcare and clinical industries.

type
Journal Paper
journal
Scientific Phone Apps and Mobile Devices 2016 2:8 DOI: 10.1186/s41070-016-0012-7

The world of biomedical apps: their uses, limitations, and potential

Published date : 19 Jul 2016

Many significant biomedical discoveries of old were made in the private property of famous scientists e.g. Leeuwenhoek and Archimedes. Today, discoveries are made in brightly-lit, hi-tech, ergonomic buildings that house research institutes. While such development is advantageous in many aspects, the spatial restriction of research into well-organized structures may delay and limit the spontaneity necessary for discoveries.

type
Journal Paper
journal
Scientific Phone Apps and Mobile Devices 2016 2:6 DOI: 10.1186/s41070-016-0009-2

Optimal processing for gel electrophoresis images: Applying Monte Carlo Tree Search in GelApp

Published date : 02 Jun 2016

In biomedical research, gel band size estimation in electrophoresis analysis is a routine process. To facilitate and automate this process, numerous software have been released, notably the GelApp mobile app. However, the band detection accuracy is limited due to a band detection algorithm that cannot adapt to the variations in input images. To address this, we used the Monte Carlo Tree Search with Upper Confidence Bound (MCTS-UCB) method to efficiently search for optimal image processing pipelines for the band detection task, thereby improving the image processing algorithm.

type
Journal Paper
journal
Electrophoresis 2016, 10.1002/elps.201600197
Impact Factor
3.028

VibraTilt: Accelerometer & Gyroscope measurement app

Published date : 18 Apr 2016

Smartphones doubling up as laboratory equipment are increasingly in demand for convenience and portability. VibraTilt is a free smartphone app with a simple interface on both the iOS and Android operating systems that functions as both an accelerometer and a gyroscope. Leveraging on in-built sensors, the portable accelerometer bubble level can be used in labs to determine the tilt of surfaces.

type
Journal Paper
journal
Scientific Phone Apps and Mobile Devices 2016, 2:5, doi: 10.1186/s41070-016-0008-3

DNA2App: Mobile sequence analyser

Published date : 02 Apr 2016

Smartphones have changed the convenience of everyday life and promises to facilitate core biomedical research analysis. To materialize this for research, we created DNA2App, a free standalone native Android and iOS mobile application that analyzes nucleic acid and amino acid sequences. Boasting a built-in database of more than 240 restriction sites and the amino acid codon table, the app allows sequences to be reverse complemented, translated in all 3 frames and searched for restriction sites, and their GC content and melting point can be calculated.

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Journal Paper
journal
Scientific Phone Apps and Mobile Devices 2016 2:2, doi: 10.1186/s41070-016-0004-7

The effects of familiarity and language of background music on working memory and language tasks in Singapore

Published date : 21 Mar 2016

The effect of background music on learning and academic performance is highly relevant to the everyday lives of millions of students worldwide. To investigate this, we recruited 165 undergraduate students (71 males and 94 females, mean age of 21.87 years) to complete arithmetic, reading comprehension, and word memory tasks while exposed to familiar or unfamiliar, foreign or first language music, and no music. With the task scores as dependent variables, a significant main effect was observed for music familiarity but not for language.

type
Journal Paper
journal
Psychology of Music, March 21 2016, Pg. 1 - 8, doi:10.1177/0305735616636209
Impact Factor
2.173