| 2019 |
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| November |
Attended conference: Big Data LDN (London) 2019
The event hosts commercial data and analytics experts, presenting tools to deliver effective data-driven strategies. Attending are 130 leading technology vendors and consultants, 150 expert speakers in 9 technical and business-led conference theatres, with real-world use-cases and panel debates.
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| October |
Delivered Python Programming Course, ICR Sutton
I delivered the Python Programming course (3 days of lectures) with a colleague. The course was designed specifically for researchers at the ICR (Institute of Cancer Research) and Royal Marsden hospital.
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| September |
Applied Deep-learning to medical image anonymisation
I implemented and delivered a project that applies a pre-trained convoluted neural network to anonymise medical DICOM images. These contain patient identifiable information that has been burned into the pixels in scans which needs removal to enable ethical use and sharing of the images for research. The project is fully automated and a containerised solution provides easy invocation of the functionality and integration.
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| July |
Conference:
MatBio '19, Foundations of Mathematics for Bioinformatics, King's college London
I presented a talk at the MatBio '19
conference discussing work I've been doing at the ICR, the title was: Fostering Reproducibility, Standardisation, Fault-tolerance and Deployability in
Computational Pipelines using Nextflow Workflow Language - Adoption and Training
at the ICR.
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| June |
Conference: ICR Internal Annual Conference
I attended the Institute of Cancer Research's Internal Annual Conference, held at Royal Holloway.
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| May |
Research paper (with Prof. Brian Austen et al.) goes out to print in American Journals of Chemistry Vol. 3, No. 01, pp. 1-11:
Cyclisation of Cell-Penetrating PDZ-Binding Peptides
Directed to PSD95
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| April |
I attended an LTA (Lawn Tennis Association) Tennis Focus Group at the The National Tennis Centre, Roehampton.
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Organised a two day Scientific Programming Workshop (Nextflow Workflow language) for ICR Researchers, Scientists, and Bioinformaticians.
This workshop equips participants with a grounding in developing standardised, reproducible, easy to maintain and deploy computational pipelines. The course was delivered by Paolo di Tommaso and Evan Flodden (Nextflow Developers) of SeqeraLabs.
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| March |
Conference: ICR Internal Informatics Conference
I attended the Institute of Cancer Research's Internal Informatics Conference, Sutton.
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| 2018 |
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| December |
Research paper goes out to print in IJFCS (International Journal of Foundations of Computer Science) Vol. 29, No. 08, pp. 1355-1372:
Transcriptomics: Quantifying Non-Uniform Read Distribution Using MapReduce
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Suggested/Attended distinguished guest lecture:
Structural biology and drug discovery: Fighting the emergence of resistance in cancer and mycobacterial infections - A talk by Sir Prof. Tom Blundell, Cambridge, given to the dept. of Computer Science, Royal Holloway, London
I (through colleagues) invited Sir Prof. Tom Blundell to the department of Computer Science at Royal Holloway to give our Distinguished Guest lecture on structural biology.
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| November |
Research paper goes out to print in Briefings in Bioinformatics:
The application of Hadoop to Structural Biology
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Talk: Developing and Standardising Computational pipelines using a workflow language, ICR Sutton/Chelsea (Videolinked)
The audience was a panel of researchers who routinely use HPC (High Performance Computing) in fields such as Genomics, Bioinformatics, Computational Biology, Drug discovery and Image analysis. The topic was Developing and Standardising Computational pipelines using a workflow language.
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| October |
Delivered Python Programming Course, ICR Chelsea
I delivered the Python Programming course (3 days of lectures). The course was designed specifically for researchers at the ICR (Institute of Cancer Research) and Royal Marsden hospital
|
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| August |
Attended conference:
MatBio '18, Foundations of Mathematics for Bioinformatics, King's college London
I previously presented a talk at this conference (MatBio '16). This year I attended without giving a talk.
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| July |
Research review paper released pre-print (BioRxiv):
The application of Hadoop in Structural Bioinformatics
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Doctoral Graduation: Royal Holloway
My Doctoral degree was conferred on me in the official Doctoral Graduation Ceremony at Royal Holloway, University of London:
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| June |
Conference: ICR Internal Annual Conference
I attended the Institute of Cancer Research's Internal Annual Conference, held at Royal Holloway.
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| May |
Awarded Doctorate (PhD) [Computer Science]
PhD:
The Analysis of High-Throughput Biological Datasets Utilising Distributed Computing. I was awarded my Doctorate
of Philosophy in Computer Science (PhD) from the University of London (Royal Holloway).
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| April |
Delivered Python Programming Course, ICR Sutton
I delivered the Python Programming course (3 days of lectures). The course was designed by Dr. Igor Kozin, for researchers at the ICR (Institute of Cancer Research) and Royal Marsden hospital
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| March |
New Role at the
Insitute of Cancer Research, London
Commenced work as a Scientific Programmer in the Scientific Computing department.
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| 2017 |
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| September |
Research paper goes out to print in JIB:
A Novel Method to Detect Bias in Short Read NGS Data
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Attended conference:
MatBio '17, Foundations of Mathematics for Bioinformatics, King's college London
I previously presented a talk at this conference (MatBio '16). This year I attended without giving a talk.
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| March |
Lecture:
CS3110/CS5110 Bioinformatics module, Royal Holloway, London
I delivered the guest lecture to Computer
Science students for their CS3110/CS5110 Bioinformatics module. The talk
focussed on Next-Gen. Sequencing (NGS) and Transcriptomics and briefly
discussed cluster computing and the cloud for analysis of RNA-seq data.
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| 2016 |
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| September |
Developed system:
Push notifications for iOS, Android for Choose-survey project.
I implemented the push-notifications system for the Choose survey project, for the department of Economics at Royal Holloway. Read more about it: Choose-Survey project.
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| July |
Conference:
MatBio '16, Foundations of Mathematics for Bioinformatics, King's college London
I presented a talk at the MatBio '16
conference, the title was Transcriptomics: Leveraging a MapReduce algorithm
and Python for gene-expression analysis on Apache Spark:
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| May |
Conference: CSPRC-16 (Computer Science Postgraduate Research Colloquium)
This year I was editor and co-organiser with another PhD student.
Conference: CloudTech-16, Marrakech, Morocco
I gave a talk at CloudTech. [ View slides ]:
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| 2015 |
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| September |
Developed New system:
Choose-Survey Survey-Monkey integrated platform.
I developed a system conceived by the Economics department. Choose Survey is a survey delivery and respondent tracking system integrated with SurveyMonkey and the University's IT user authentication system. Choose Survey delivers university developed surveys to the user (targeted at currently enrolled undergraduate students) via an Android app and Wordpress derived mobile friendly site. Read more about it: Choose-Survey project.
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| July |
Conference: ISCB
3D Sig (Structural Bioinformatics and Computational Biophysics)
Part of the ISCB (International Society for
Computational Biology) event in Dublin, July 2015. I will present PDB-Hadoop
(a Hadoop framework for parallelising legacy applications on the PDB) |
| |
| May |
Research paper goes out to print in GigaScience:
Investigation into the annotation of protocol sequencing steps in the sequence read archive
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Conference:
Big
Data Analytics Training Workshop, MSTI ENSIAS
I delivered a PhD research talk. This event was organised through the collaboration of the British Council, MSTI (Mediterranean Space of Technology and Innovation) and ENSIAS (École nationale supérieure d'informatique et d'analyse des systèmes), Rabat, Morocco:
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| May |
MPhil/PhD Upgraded to PhD Proper
CSPRC-15 (Computer Science Postgraduate Research Colloquium)
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| February |
Conference:
Developing
data-driven biology within Morocco workshop
I will be presenting my research at the
Developing data-driven biology within Morocco workshop which has been
organised by The British Council and runs from 16th - 19th February.
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| February |
Conference:
Developing
data-driven biology within Morocco workshop
I will be presenting my research at the
Developing data-driven biology within Morocco workshop which has been
organised by The British Council and runs from 16th - 19th February.
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Just announced as an RDA 5th Plenary Early Career Support Programme Winner:
RDA
Fifth Plenary meeting in San Diego, March 9 to 11.
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| 2014 |
|
| July |
Attending
the JSPS UK-Japan Meeting titled "From Duplexes to Quadruplexes 0x2013
Understanding DNA Structure and Function" conference held at the
University of Reading, showcasing collaboration between the UK and Japan.
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| June |
Attended conference: Fisher Centre for Computational Biology meeting
A special joint event involving the RA Fisher Centre for Computational Biology and the Bloomsbury Research Institute which is a centre of excellence on infectious diseases resulting from a joint venture between the London School of Hygiene & Tropical Medicine and UCL. RA Fisher Centre meetings aim to bring together UCL and Crick Institute research groups active in Computational Biology research.
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CSPRC-14 (Computer Science Postgraduate Research Colloquium)
Myself and another PhD student, Ionut Tutu, have
coordinated this years Colloquium and have compiled a booklet of abstracts in
which our work is also featured: CSPRC14-Abstract
booklet, CSPRC14-programme.
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| 2013 |
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| September |
Commenced PhD programme, Royal Holloway University of London
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| 2011-2012 |
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Pharmacist Pre-registration training with GPhC [did not register] |
| 2011 |
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| November |
Conference: Royal Society of Chemistry (RSC): Protein and Peptide Science Group Early Stage Researcher Meeting, London
I presented my masters project "Characterisation of cyclic neuroprotective PDZ binding ligands" alongside PhD research, under the supervision of Prof. Brian Austen.
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| July |
Awarded Masters in Pharmacy/Chemistry (M.Pharm)
Masters:
Characterisation of Cyclic Neuroprotective PDZ binding ligands. I was awarded my Masters from Kingston University and St. Georges hospital medical school.
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