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Trinity Centre for Bioengineering

2012

Annual Report & Profile

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CONTENTS Trinity Centre for Bioengineering

1. TCBE 2012 Highlights 3

2. Message from Director 5

3. Research Showcase 7

4. Strategy and Research Plan 21

5. Education 23

6. Communications 26

7. People & Partners 28

8. Papers 36

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2012 Research– The Year in Pictures

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HIGHLIGHTS

Best Postgraduate Course of the Year in Engineering

The MSc Bioengineering was awarded the Best Postgraduate Course of the Year in Engineering.

Honorary Fellow

Professor Clive Lee was announced honorary Fellow at the beginning of the annual Trinity week.

Royal Irish Academy (RIA) Election

Professor Richard Reilly was elected as member of the RIA in May.

Change/Succession of Director and Deputy Director

Professor Richard Reilly and Professor Kevin O’Kelly were succeeded by Professor Daniel Kelly and Professor Bruce Murphy as Director and Deputy Director respectively in July 2012 when their term of service came to an end.

Excellence in Education Award

The MSc Bioengineering was awarded the Engineers Ireland Excellence in Education Award in November 2012.

Undergraduate Biomedical Engineering Stream

Michaelmas Term 2012 saw the start of the new undergraduate stream in biomedical engineering with 25 students who elected to spend the final three years of their degree specialising in biomedical engineering.

TCBE Winter Symposium

Our Winter Symposium staged the launch of the Dublin Biomedical Engineering Research Initiative (DBERI) between Trinity College Dublin, University College Dublin and Royal College of Surgeons in Ireland.

JANUARY

FEBRUARY

MARCH

APRIL

MAY

JUNE

JULY

AUGUST

SEPTEMBER

OCTOBER

NOVEMBER

DECEMBER

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MESSAGE FROM DIRECTOR

Welcome to the 2012 annual report of the Trinity Centre for Bioengineering (TCBE).

Established in 2002, the TCBE brings together Principal Investigators, research fellows,

postgraduate students and undergraduate students from the School of Engineering, the School

of Medicine, the School of Dental Science and the School of Natural Sciences in Trinity College

Dublin (TCD), as well as colleagues from the Royal College of Surgeons in Ireland (RCSI),

University College Dublin (UCD) and Dublin City University (DCU). The aim of the Centre is to

promote and facilitate research and education in Bioengineering and related disciplines, and to ensure this research

finds its way into the clinic in order to improve patient care.

2012 has been another great year for the TCBE. For many of us it was our first full year in the new Trinity Biomedical

Sciences Institute, which not only provides us with access to world class labs and equipment, but has also facilitated

further engagement with our colleagues in the School of Biochemistry and Immunology, School of Chemistry, School

of Medicine and the School of Pharmacy and Pharmaceutical Science. This is expected to lead to some exciting new

developments in the coming years.

This annual report gives an overview of the TCBE’s core personnel and our key research and educational activities

over the past 12 months. TCBE researchers work across five different research themes: Musculoskeletal Research,

Biomaterials, Regenerative Medicine, Cardiovascular Research and Neural Engineering. This report demonstrates the

impact that TCBE researchers are making in these fields and beyond. This can be measured in many ways, from

publications in leading journals to the development of new products and the establishment of spin-out companies.

For example, 2012 has seen further growth in the number of peer-reviewed papers published (Source: Web of

Science). For the first time since its establishment, 2012 saw over 100 papers published by TCBE researchers in a

single calendar year. Citations to TCBE papers also increased, approaching 1800 in 2012 (excluding self citations). In a

challenging funding environment, this is a remarkable achievement.

I would like to highlight a selection of our achievements from the past year.

2012 saw TCBE PIs continue to attract grant funding from numerous different sources, further details of which

are available in this report. In particular, I would like to highlight the achievements of some of our younger

investigators. Prof. Conor Buckley received an Enterprise Ireland Commercialization grant to develop a new

biomaterial based approach to spinal disc repair. Dr. Mark Ahearne received an SFI SIRG grant to develop a new

line of research in the area of stem cell based corneal regeneration and Dr. Garry Duffy received continued

funding from Enterprise Ireland to develop new therapeutic approaches to cardiac regeneration.

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AIB Seed Capital Fund led an investment of over €2 million in SurgaColl Technologies, a spin-out company from

Prof. Fergal O’Brien’s lab.

2012 also saw Prof. Ciaran Simms chair the Conference of the International Research Council on the

Biomechanics of Injury held here in TCD, attracting 150 international delegates to Ireland.

The past year was also important for the development of our educational activities. September saw the first

intake of 25 Junior Sophister students into the new Biomedical Engineering stream in the School of Engineering.

The stream will see undergraduate students take 2 years of the TCD general engineering degree, followed by

three years of specialisation in biomedical engineering, with courses delivered by staff from both the Department

of Mechanical and Manufacturing Engineering and the Department of Electronic and Electrical Engineering.

The MSc in Bioengineering degree also received two awards in 2012, the Excellence in Education Award from

Engineers Ireland and the best postgraduate course of the year in engineering at the GradIreland Awards. For this

it is important to acknowledge the hard work of the past and current directors of the MSc – Dr. Patrick

Prendergast, Prof. Ciaran Simms and Prof. Richard Reilly, as well as all the staff who contribute to the

management and delivery of this excellent degree.

A number of our PIs also received notable recognition for their contribution to academic life and to their

respective fields, with Prof. Richard Reilly elected as member of the Royal Irish Academy in May and Prof. Clive

Lee also made an Honorary Fellow of TCD.

2012 also saw the formal launch the new Dublin Biomedical Engineering Research Initiative. This important

development builds on a history of over 20 years of collaboration between TCD, UCD and RCSI in Bioengineering

research and education. Principal Investigators from all three institutes were involved in establishing the TCBE 10

years ago, and this new initiative will allow us to continue to strengthen the links between Bioengineering

researchers across the city of Dublin. What is important about this initiative is the recognition within all three

institutions of firstly the importance of Bioengineering research and education to each institute, and secondly the

need for further and strengthened collaboration for our mutual success.

Finally, I would like to acknowledge the hard work of the previous Director Professor Richard Reilly and Deputy

Director Professor Kevin O’Kelly, who both finished their terms of office in 2012.

I hope you enjoy reading this report.

Kind Regards,

Daniel Kelly

MESSAGE FROM DIRECTOR

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RESEARCH SHOWCASE

TCBE publications 2002-2012 attracted 7,300

citations from 450+ research institutions worldwide.

Trinity Centre for BioEngineering 2002-2012

Number of Publications: 672

Number of Citations without self-citations: 7,300

Impact (Average Citations per item) 12.65

H-index: 43

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Collaborating Countries 2002-2012 TCBE publications are co-authored with researchers from 36 countries worldwide

Countries citing TCBE papers 2002-2012 TCBE publications 2002-2012 attracted 7,300 citations from 93 countries worldwide

TCBE publications 2002-2012 attracted 7,300 citations from 93 countries worldwide

RESEARCH SHOWCASE

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Total Grant Funding 2012 €6,283,936

Programme Principal Investigators Research Funding

European Commission Seventh Framework Programme FP7-ICT-2011-7

Prof. Richard Reilly, Prof. Fiona Newell, Prof. Carol O’Sullivan

VERVE: Virtual Reality for Clinical Applications (€4,600,000)

€1,292,515

Health Research Board- Science Foundation Ireland Translational Research Award

O’Brien FJ (PI), O’Byrne J Translation of novel strategies for joint repair from bench to bedside

€1,292,085

Health Research Board Prof.Richard Costello (PI), Prof. Richard Reilly (Co-PI)

Respiratory Monitoring in Asthma and in COPD

€800,000

Health Research Board Prof. M Hutchinson (PI), Prof. Richard Reilly (Co-PI)

Temporal Discrimination Threshold as a mediational endophenotype in adult onset primary torsion dystonia (€790,876)

€480,306

Enterprise Ireland Commercialisation Fund

Dr. BP Murphy (PI), Dr. G Duffy, Prof. FJ O’Brien (Co-applicant), Dr. J Gleeson,

CardioColl, a collagen-alginate composite scaffold to enhance the cardiac stem cell response and promote healing in heart failure

€92,400

Enterprise Ireland Commercialisation Fund

Dr. G Duffy (PI), Prof. FJ O’Brien (co-PI), Dr. BP Murphy(co-PI)

CardioColl, a collagen-alginate composite scaffold to enhance the cardiac stem cell response and promote healing in heart failure

€372,631

Enterprise Ireland commercialisation fund

Dr. B. Murphy, Clinical PI Faisal Sharif, Postdoctoral researchers: Dr. G Ryan, Dr. E Maher

Development of a new chemical renal denervation catheter

€302,000

Enterprise Ireland Innovation Partnership (between RCSI & SurgaColl Technologies)

Prof. FJ O’Brien(Principal Investigator), Dr. JP Gleeson

Development of novel collagen-based bone and osteochondral graft substitutes for new surgical indications of use

€246,717

AO foundation Switzerland Dr. Daniel Kelly (Principal Investigator), Prof. Fergal O’Brien (Royal College of Surgeons) and Dr. Mary Murphy, NUI Galway (Collaborators)

Porous decellularised hypertrophic tissue engineered cartilage as a scaffold for large bone defect healing

€198,282

Enterprise Ireland Commercialisation Fund

Dr. Daniel Kelly (PI); Collaborators: Prof. Fergal O’Brien (Royal College of Surgeons); Prof. Conor Buckley (TCD)

A novel bioactive scaffold for articular cartilage regeneration

€172,962

Enterprise Ireland Commercialisation Fund

Dr. B Murphy, Clinical PI Jim Crowley, Postdoctoral researcher: Dr. Liam Breen

Development of a new transcatheter mitral valve device

€156,000

RCSI/DCU/NUIM Translational Research Hub Seed Fund Award

Prof. Fergal O’Brien (RCSI), Finbarr O’Sullivan (DCU), Dr. Kevin Kavanagh (NUIM)

Tissue Engineering/Stem Cell Research Consortium

€150,000

Enterprise Ireland Commercialisation Fund

Dr. Conor Buckley (Principal Investigator), Collaborators: Dr. Daniel Kelly (TCD), Prof. Fergal O’Brien (RCSI) Dr. Tony Robinson (TCD), Mr. Patrick Kiely

Regeneration of the Intervertebral Disc (DiscReGen)

€141,995

Science Foundation Ireland (SFI)/ Enterprise Ireland (EI) Joint Technology Innovation Development Award Programme (TIDA)

Prof. FJ O’Brien (Principal Investigator), Dr R McCoy, Clynes M, O’Sullivan F, Murphy C

Power W. Development of a novel collagen-based film for corneal repair

€128,715

Enterprise Ireland EIT/KIC Development grant

Prof. Richard Reilly €100,000

RESEARCH SHOWCASE

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Programme Principal Investigators Research Project Funding

Programme for Research in Third Level Institutions (PRTLI) Cycle 5

Prof. FJ O’Brien (Principal Investigator), Dr. GP Duffy (Co-applicant)

Tissue engineering, nano-bioanalytical and stem cell technologies applied to tissue regeneration

€100,000

Programme for Research in Third Level Institutions (PRTLI) Cycle 5

Cryan SA (Principal Investigator), O’Brien FJ Co-applicant)

The development of “smart” collagen scaffolds for applications in airway modelling and regeneration

€100,000

Science Foundation Ireland Technology and Innovation Development Award (TIDA) 2011 programme - Feasibility Study.

Dr. Biqiong Chen (Principal Investigator), Lorraine O’Driscoll (Collaborator)

Functionalised nanoparticles for cancer imaging and therapy

€99,228

Marigot Ltd. Research Grant Prof. FJ O’Brien Evaluation of a novel product to recover bone loss in osteoporosis

€32,000

Enterprise Ireland Dr. Daniel Kelly Bioscaffold €12,000

Irish Heart Foundation John Feely Bursary

Prof. O’Brien Brougham C. Development of a bioreactor test platform to analyse performance of a novel heart valve scaffold

€3,000

Royal College of Surgeons in Ireland, Alumni Office Summer Studentship

Prof. FJ O’Brien(Co-applicant), Dr. R McCoy

Investigation the role of the primary cilium in regulating stem cell migration in response to mechanical stress

€2,500

Royal College of Surgeons in Ireland, Alumni Office Summer Studentship

Prof. FJ O’Brien (Co-applicant), Dr. R McCoy

Investigation of the influence of oestrogen deficiency on stem cell response to mechanical stress

€2,500

Health Research Board Summer Studentship

Prof. FJ O’Brien (Co-applicant), Dr. C Curtin

Scaffold-based systems as models for breast cancer metastasis

€2,000

Royal College of Surgeons in Ireland, Research Committee Summer Studentship

Prof. FJ O’Brien (Co-applicant), Dr. C Curtin

Scaffold-based systems as models for breast cancer metastasis

€1,600

Royal College of Surgeons in Ireland, Research Committee Summer Studentship

Prof. FJ O’Brien (Co-applicant), Dr. A Lopez-Noriega

VEGF eluting scaffolds for bone tissue engineering

€1,500

Royal College of Surgeons in Ireland, Research Committee Summer Studentship

Prof. FJ O’Brien(Co-applicant), Dr. O Brennan

Scaffold-based systems as models for breast cancer metastasis

€1,000

htp e/

RESEARCH SHOWCASE

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Neural Engineering

Research Highlights

New insights into cognitive

changes in multiple

sclerosis

New grant probing

temporal discrimination

thresholds in dystonia

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Probing Temporal Discrimination Thresholds in Adult Onset Primary Torsion Dystonia Human movement involves a complex series of coordinated musculoskeletal but also neural processes. A breakdown in any of these processes can result in abnormal movement. Movement disorders collectively affect approximately 10 million people in Europe. A multidisciplinary approach between neural engineers at Trinity Centre for Bioengineering and neurologists at the Department of Neurology at St Vincent’s University Hospital is focusing on one movement disorder, Adult Onset Primary Torsion Dystonia (AOPTD). Experimentation has been specifically probing temporal discrimination in patients with dystonia but also in their unaffected relatives and in control subjects. This has led to the development of temporal discrimination as a possible endophenotype for the disease and allowed a better understanding of both the pathogenesis and genetic basis of this form of dystonia. The group has been awarded a new grant from the Health Research Board (2013-2018) to identify the neuropathophysiological mechanisms underlying AOPTD and the genes responsible.

New Insight into Cognitive Changes in Multiple Sclerosis Researchers at Trinity Centre for Bioengineering in collaboration with colleagues in the Department of Neurology at St Vincent’s University Hospital have reported new insights into cognitive changes in multiple sclerosis, using newly developed signal processing methods. The findings have been recently published in the international journal PlosOne. The multidisciplinary research involved neurologists, biomedical engineers and neuropsychologists. Their focus was on cognitive impairment which affects nearly 65% of multiple sclerosis (MS) patients and can occur in the absence of physical disability. Dysfunctions in speed of information processing, attention, memory and executive functions are most typically observed in MS patients, which have an adverse impact on daily life. It is important to recognise cognitive impairment as early as possible and to monitor its course frequently. However, neuropsychological tests to assess cognitive function can only be carried infrequently and do not provide an objective measure of cognitive impairment. The research team was led by Professor Richard Reilly, Professor of Neural Engineering at Trinity College, and Professor Niall Tubridy, Department of Neurology at St Vincent’s University Hospital. They addressed cognitive impairment assessment by developing new mathematical methods to extract information from MS subjects’ scalp with electroencephalography (EEG) data that allows objective measurement of cognitive function at frequent intervals and more importantly offers new insights into the origins of this cognitive impairment in MS. The team acquired EEG data using 128-scalp electrodes from 95 subjects (MS patients and controls subjects) while they completed a series of visual and auditory stimulus experiments. They then employed their newly developed mathematical methods to process the spatiotemporal EEG data developing a measure of cognitive function. Such objective, reliable EEG methods such as those developed in this study have the potential to aid the detection and monitoring of cognitive impairment in MS, and therefore to complement clinical neuropsychological assessment. The relationship between pathological changes in the brain white and grey matter, neurophysiological and neuropsychological cognitive function is imprecisely defined in MS. This study provides new information on the impact of the cognitive impairments on the condition and will help in assessing new interventions to improve the quality of life of MS patients. Future studies will explore the neural information using new advanced data analysis methods such as approaches to model the distributed nature of EEG by incorporating activations and structural information from individual subjects' MRI image data. Longitudinal studies of EEG scalp and deeper brain electrical activity spanning over several years are required to fully determine if EEG data has clinical utility in predicting the changes in cognitive function in MS. The manuscript “Only Low Frequency Event-Related EEG Activity is Compromised in Multiple Sclerosis: Insights From an Independent Component Clustering Analysis” is published in PLOS ONE and freely available at http://dx.plos.org/10.1371/journal.pone.0045536.in PLOS ONE and freely available under the open access policy at http://dx.plos.org/10.1371/journal.pone.0045536.

NEURAL ENGINEERING

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Research Highlights

Mitral valve replacement

system

SOLE

Government of Ireland New

Foundation Award

Cardiocoll

Cardiovascular

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Cardiovascular

Currently the gold-standard mitral valve treatment procedure is an open-chest/open-heart operation. This surgical

treatment is inherently risky, especially with an elderly patient cohort. It is estimated that half of the patients which

present with mitral regurgitation are denied surgery due to the high risk associated with open-heart procedures. The

development of less-invasive alternatives to this surgical treatment would address this unmet clinical need.

A number of companies are developing transcatheter devices to service this need, and a sub-segment of these

companies are focused on mitral valve replacement. To date, no company has achieved clinical success in this area.

The MiVaR team is developing a new approach to transcatheter mitral valve replacement; this approach should enable

successful catheter based transapical replacement of the leaky native mitral valve. Acute preclinical development

work is ongoing and this developed technology will be available to license in Q3 of 2013

SOLE TCBE have developed a device to aid nurses applying compression bandaging in

collaboration with St James’s Hospital’s Venous Unit. The device was developed

by a TCD engineering team consisting of undergraduate students and postdoctoral

researchers coordinated by Dr Mary-Paula Colgan and Dr Bruce Murphy. The device

is patent pending, and currently available to license from Trinity College Dublin.

Government of Ireland, New Foundation Award Dr. Garry Duffy was awarded the “Government of Ireland, New Foundation Award” in 2012 to build on a transatlantic

collaboration with the Harvard Biosdesign Laboratory. Conn Hastings, a HRB PhD Scholar supervised by Dr Garry Duffy

and Prof Fergal O'Brien received an Albert Renold Travel Fellowship for Young Scientists by the European Foundation

for the Study of Diabetes to spend three months in the Harvard Biodesign Laboratory.

CardioColl Dr. Garry Duffy, in collaboration with Dr. Bruce Murphy Prof. Fergal O'Brien and Dr. John Gleeson at RCSI, was

successful in securing an Enterprise Ireland (EI) Commercialisation Fund grant entitled "CardioColl, a composite

scaffold to promote and enhance healing in heart failure". This successful award is a follow on project to an initial EI

Proof of Concept grant and builds on initial positive outcomes in targeted healing of the heart and will run over the

next 24 months. The total funding award is €520,000.

MiVaR Our MiVaR device focuses on the treatment of mitral regurgitation, which is the most common heart valve disease.

Early-stage symptoms can be treated with medication, however as the disease becomes more severe, patients

require interventional treatment in the form of mitral valve replacement or repair.

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Biomaterials

Research Highlights

DiscReGen- Development of injectable biomaterials for regeneration of the intervertebral disc

Development of a cooling

electrode for chronic neural

applications.

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Biomaterials Research in the TCBE spans many biomedical application areas. Projects carried out during 2012

involved developments in the cardiovascular, orthopaedic, dental and neural fields. The group also expanded

with the appointment of a new PI, Dr. Buckley and his team of postgraduate and postdoctoral researchers.

Development of injectable biomaterials for regeneration of the intervertebral disc The project (DiscReGen) is developing injectable biomaterials for delivery to affected regions using minimally

invasive techniques to repair and regenerate the disc by the patient’s own cells. This approach for

regeneration or repairing the intervertebral disc could be performed in the early stages of degeneration and

could reduce the number of patients requiring spinal fusion or artificial implant replacement surgery. This

project is being led by Dr. Conor Buckley in collaboration with Dr. Daniel Kelly (TCD), Prof. Fergal O’Brien

(RCSI), Dr. Tony Robinson (TCD) and Mr. Patrick Kiely, Orthopaedic Surgeon, (Sports Surgery Clinic).

Fig: Injectable biomaterial carriers developed in Dr. Buckley’s laboratory for disc regeneration

Development of a cooling electrode for chronic neural applications.

Current techniques involve electrically “overstimulating” these areas to suppress activity which create

trauma and scar formation, limiting their use in chronic applications. New developments have shown that

cooling these areas produces a similar effect without the accompanying complications. The project objective

is to design and develop electrodes that suppress activity in specific areas of the brain by localized cooling. As

part of the device design, thermally insulating biomaterials are being developed and evaluated to assess the

response of primary neural cells. The project is being led by Prof. Kevin O’Kelly in collaboration with Prof.

Shane O’Mara (TCIN - Neurophysiology) and Prof. Michael Rowan (Neurophysiology) and Prof. Veronica

Campbell (Physiology)

BIOMATERIALS

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Regenerative Medicine

Research Highlights

New grants awarded

Investment of over €2

million in SurgaColl

Technologies

Scientific breakthroughs

SFI SRIG grant

Regenerative Medicine

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New grants in Tissue Engineering and Regenerative Medicine A number of new grants were awarded to TCBE PIs in 2012, including a SFI/EI TIDA grant to Prof. Fergal O’Brien to

develop a novel collagen-based film for corneal repair, a grant from the AO Foundation to Prof. Daniel Kelly to

explore the use of porous decellularized hypertrophic tissue engineered cartilage as a scaffold for large bone defect

healing, an EI commercialization grant to Prof. Conor Buckley to develop a natural ECM derived injectable

microparticles for regeneration of the intervertebral disc. Prof. Fergal O’Brien’s lab was also awarded a Health

Research Board-Science Foundation Ireland Translational Research Award of €1.29m to translate novel strategies for

joint repair from the bench to bedside. The aim of this project is to investigate the regenerative potential of a novel

scaffold in the treatment of osteochondral defects in a large animal model with a view to seeking regulatory approval

and starting a preliminary trial in human patients by the end of the project.

Investment of over €2 million in SurgaColl Technologies SurgaColl, a spin-out from Prof. Fergal O’Brien’s lab, has closed a €2 million syndicated investment round involving

AIB Seed Capital Fund, Harmac Medical Products, Enterprise Ireland and a number of private investors in Britain,

France and Singapore. The company was established in 2010 with VC backing to commercialise implantable

orthopeadic products developed by Prof. O’Brien’s Tissue Engineering Research Group. The products use naturally

derived materials for the regeneration of human tissue, including bone and cartilage.

Scientific breakthroughs It is well known that chondrogenically primed mesenchymal stem cells can become hypertrophic and undergo

endochondral ossification (the replacement of cartilage with bone). Prof. Kelly’s lab has recently demonstrated that

modulating this endochondral phenotype may be an attractive approach to engineering the osseous phase of an

osteochondral implant. By seeding mesenchymal stem cells and chondrocytes into bi-layered hydrogels, they

engineered an osteochondral tissue by promoting endochondral ossification in one layer of the bilayered construct

and stable cartilage in the other (published in Acta Biomaterialia). Also in the field of orthopaedic tissue regeneration,

Prof. O’Brien’s lab has developed nano-hydroxyapatite (nHA) particles to act as non-viral gene delivery vectors. These

nHA particles were combined with collagen to yield bioactive, biodegradable collagen nano-hydroxyapatite (coll-nHA)

scaffolds capable of promoting bone regeneration (published in Advanced Materials).

SFI Starting Investigator Research Grant Dr. Mark Ahearne received a Starting Investigator Research Grant (SIRG) from Science Foundation Ireland (SFI) worth

€439,161 to undertake research in the area of corneal tissue engineering. The aim of this research is to engineering

corneal tissue in vitro by cultivating stem cells in three-dimensional scaffolds. Corneal blindness resulting from

physical injury, chemical burns or medical conditions affects millions worldwide. Several parameters which affect the

phenotypic behaviour of the stem cells are being investigated in addition to different methods of fabricating

biomimetic scaffolds with the goal of developing functional corneal tissue.

REGENERATIVE MEDICINE

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Musculoskeletal

Research Highlights

IRCOBI conference

New insights into abdominal

hernia mechanics

New prototype swivelling car

seat to enable access for

people with limited mobility

Development of muscle

models for impact

biomechanics

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IRCOBI conference hosted at Trinity College Dublin Dr. Ciaran Simms hosted the annual conference of the International Research Council on

Biomechanics of injuries (IRCOBI) in Trinity in September 2012. The event attracted over 170

delegates from around the world with over 80 oral presentations and was sponsored by SFI and

other generous contributors. There were several presentations from the TCBE. Dr. Ciaran Simms is

now Vice-President of IRCOBI.

New insights into abdominal hernia mechanics A collaborative project between Dr. Ciaran Simms at Trinity College Dublin and Prof. Des Winter at

St. Vincent's University Hospital Dublin is studying novel methods of ensuring adequate wound

closure following laparoscopic surgery in obese patients. As part of this, the mechanics of herniation

of small intestine were published in the prestigious Journal of the Mechanical Behaviour of

Biomedical Materials. The group is also studying the deformation behaviour of rectus sheath and

linea alba to develop an improved mechanical model of the abdomen for testing wound closure

devices. PhD students Mathew Lyons and Gerard Cooney will present their research on this project

at the European Society of Biomechanics meeting in 2013.

New prototype swivelling car seat to enable access for people with limited mobility A collaborative project between Dr. Ciaran Simms at Trinity College Dublin and McElmeel Mobility in

Armagh is aimed at producing a novel swivelling car seat for easier access for people with physical

disabilities. A prototype is now available, and preliminary testing and computational simulation

indicate that this device meets crashworthiness requirements.

Development of muscle models for impact biomechanics On-going research in the research lab of Dr. Ciaran Simms aims at developing a mechanical model of

passive muscle tissue for applications in rehabilitation engineering, injury biomechanics and surgical

simulation. A new model proposing mechanisms of resistance of passive skeletal muscle to external

loading has recently been published in the prestigious Journal of the Mechanical Behaviour of

Biomedical Materials, and a paper based on a further model of the dynamic behaviour of skeletal

muscle based on inverse finite element optimization is in review in the same journal.

MUSCULOSKELETAL

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STRATEGY & RESEARCH PLAN

The Trinity Centre for Bioengineering carries out research and development across a

full range of themes from cell mechanobiology to next generation medical devices.

Improving Human Health

Cell Mechanobiology

Single Cell Biomechanics

Ageing Bone (OP and OA research)

Tissue Engineering

Skeletal Repair

Neuro-musculoskeletal modelling

Next Generation Devices

Neural Engineering and Prosthetics

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The Trinity Centre for Bioengineering research programme is focused on an integrated programme

investigating the full hierarchy of the body’s biomechanical and bioelectric systems from cell to tissue to organ

along with their interaction with medical devices. Our team of Principal Investigators, postdoctoral fellows,

PhD students and M.Sc. students work in collaboration with twelve hospitals, leading medical device

companies, national and international research centres and universities. This integrated approach is centred

around five specialisations:

Musculoskeletal ● Biomaterials ● Cardiovascular ● Regenerative medicine ● Neural engineering

Research in these areas is based on the intersection of biomedical science and engineering and forms the

foundation for enabling technologies for advances in key areas of active and passive implantable devices,

surgical and medical device design, as well as informing clinical studies and interventions in ageing,

neurodegeneration and rehabilitation.

Cell Mechanobiology

Single Cell Biomechanics

Ageing Bone

(OP and OA research)

Tissue Engineering

Skeletal Repair

Neuro-musculoskeletal

modelling

Next Generation

Devices

Neural Engineering &

Prosthetics

Theme 1: Cell response to biochemical and biophysical stimulation in 3D matrices. The

functionality of cells from both healthy, ageing, and osteoarthritic patients are being

studied, and markers for skeletal diseases are being identified.

Theme 2: The development of novel tissue engineering and regenerative medicine

strategies for tissue and organ regeneration, with a specific focus on orthopaedic and

cardiovascular medicine. Novel biomaterial scaffolds and bioreactors are being

developed for this purpose, supported by the use of computational tools to optimise

the design of such regenerative strategies.

Theme 3: Reconstruction of human function requires an engineering approach through

musculo-skeletal modelling to simulate functional requirements and for the

development of prototype devices for trials in patients. Along with the Trinity College

Institute for Neuroscience, neural engineering research focuses on new brain imaging

methodologies and in-vivo recordings of specific circuits to provide an understanding of

neural mechanisms of behaviour, together with electrical stimulation based

treatments.

Theme 4: is titled “Frontiers in Medical Device Design” and will focus on controlling

cells to perform defined functions as part of the medical device. In silico methods will

be used predominantly to model new concepts in cardiovascular, orthopaedic and

neural implant design.

STRATEGY & RESEARCH PLAN

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EDUCATION

"These awards for our M.Sc. Bioengineering programme

are very significant as they demonstrate the dedicated

commitment of the academic staff and administration to

ensure that our students obtain excellent education in

biomedical engineering. We provide students with state-of-

the-art education in biomedical engineering, innovation

and creative design to allow them meet the global

challenges in healthcare and to become leaders in the

medical device sector so as to deliver the best medical care

possible,” said Professor Richard Reilly, Course Director

M.Sc. Bioengineering, Professor of Neural Engineering at

Trinity College, Dublin on the occasion of the awards.

The MSc in Bioengineering has a current intake of 26

students from Ireland and overseas countries including

Indonesia, Columbia, Mexico, Sri Lanka and Bangladesh.

Pictured left to right:: Mary Kennedy; Michael Phillips, President, Engineers

Ireland; Ciaran Simms, Assistant Professor, TCBE; Agnieszka Wisniewska,

UCD; Peadar Grant, UCD; Michael Crothers, Shell E&P Ireland Ltd; Paul

Fortune, National College of Art & Design; June O’Reilly, TCBE.

M.Sc. in Bioengineering The M.Sc. in Bioengineering received two major awards in 2012. In May it was awarded the Engineering

postgraduate course of the year and in November it received the Engineers Ireland Education Award for

demonstrating excellence in the field of engineering education These awards recognise the scale and

diversity of the impact the M.Sc. in Bioengineering course in terms of the student experience, its

contribution to the Irish economy and making an impact on current healthcare challenges.

Undergraduate

Postgraduate

PhD programmes

Seminar Series

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EDUCATION

Undergraduate Bioengineering Stream The new undergraduate stream in Biomedical

Engineering commenced in 2012. 25 students elected to

spend the final three years of their degree specialising in

Biomedical Engineering. Courses on this stream will be

taught by staff from both the Department of Mechanical

and Manufacturing Engineering and the Department of

Electronic and Electrical Engineering. This is an exciting

development as for the first time students in Trinity

College Dublin can study Biomedical Engineering at both

an undergraduate and postgraduate level.

Schools Programme TCBE ran a one week transition year programme to

inspire the minds of young secondary school students.

Pictured left are the students who completed the 2012

TCBE Transition Year programme with Dr. Ciaran Simms.

The programme gave them an excellent insight into all

TCBE research themes and hands on experience in the

labs.

Graduate Research Education Programme

The Graduate Research Education Programme in Engineering (GREP-Eng) is a multi-institutional programme designed to produce high quality engineering PhD graduates interested in the design and development of devices and systems that will drive economic growth and sustainability and solve current human problems in healthcare and energy. The GREP-Eng programme brings together expertise from Trinity, UCD, UCC, and DIT to provide a structured approach to research education for doctoral scholars. GREP-Eng is a PRTLI Cycle 5 funded programme. PRTLI is 50% co-funded under the European Regional Development Fund.

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EDUCATION

COMMUNICATIONS

The Trinity Centre for Bioengineering has an extensive research seminar series with international speakers. There are approximately 20 seminars per year across all our research themes. Below is a selection of TCBE seminars held in 2012:

Dynamical Causal Modelling of beta synchrony in Parkinsonian networks Andre Marreiros, PhD, Department of Clinical Neurology, University of Oxford Strategies for articular cartilage regeneration José Luis Gómez Ribelles, Centre for Biomaterials and Tissue Engineering, Universitat Politècnica de València. Advances in Skeletal Fluorescence Imaging Ken Kozloff, PhD Dept. of Orthopaedic Surgery & Biomedical Engineering University of Michigan, Ann Arbor, MI USA Making EMG recordings during fMRI work: experiences from fundamental and applied studies of the motor system Natasha M. Maurits, Professor of Clinical Neuroengineering, Dept. of Neurology, University Medical Center Groningen, The Netherlands Measuring Cortical Evoked Potentials in Cochlear Implant Users Dr. Myles Mc Laughlin Neural Engineering Group, Trinity College Dublin Hearing and Speech Laboratory, University of California Irvine Biomechanical stimulus for tissue engineering and drug delivery applications in musculo-skeletal tissues Dominique P. Pioletti, PhD Laboratory of Biomechanical Orthopedics, EPFL, Lausanne-Switzerland An Improved Framework for the Inverse Analysis of Skeletal Muscle Tissue In‐Vivo Kevin Moerman, Trinity Centre for Bioengineering, School of Engineering Trinity College Dublin Temporal Discrimination Thresholds as an endophenotype in adult-onset primary torsion dystonia Dr. David Bradley, MB, BCh, BAO, MRCPI, Measurement, Regulation, and Consequences of the Local Mechanical Environment during Skeletal Healing Elise F. Morgan, Ph.D. Departments of Mechanical Engineering, Biomedical Engineering, and Orthopaedic Surgery, Boston University and Boston University School of Medicine, Boston, MA

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Trinity Centre for Bioengineering communicates through several media including our website, a

regular e-zine with the latest news, facebook and LinkedIn.

Our website can be found at www.tcd.ie/bioengineering. From the main TCBE website you can

navigate to websites for each of our main research themes where you can find information on the

latest research breakthroughs, news, events and contact details for research groups.

Our regular e-zine communicates news of all TCBE activities and what our PI’s, Postdoctoral fellows and postgraduate students are doing in the world of biomedical engineering.

Join TCBE on facebook and LinkedIn to keep in touch with all

the latest TCBE news on education and medical device innovation.

COMMUNICATIONS

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Below is a selection of features from the Trinity Centre for Bioengineering Media Book 2012

Source Media Headline Date Page/link

Irish Independent Special Supplement

PRESS Can you mend a broken heart?

28/02/2012 1

Irish Independent Special Supplement

PRESS Can you see a cure for osteoarthritis?

28/02/2012 3

Irish Times Business PRESS Dublin team creates collagen and stem cell barrier against blindness

12/3/2012 3

Engineers Journal PRESS Injury biomech research in new lab space at TCD

September/October 2012

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RTE Radio 1 RADIO Research in Injury Biomechanics

2 /10/2012

RTE Radio 1 and Irish Times RADIO & PRESS

Prof David Taylor on locust cuticle research on David Mooney Show and featured in Irish Times

19/06/2012

Newstalk RADIO Trinity Research and Innovation Technology Showcase

4/10/2012

Irish Times PRESS How safe is it to cycle our streets?

Irish Times PRESS Offering Stepping Stones to local manufacturing

9/1/2012

The Engineer PRESS Contactless sensors detect developing pressure ulcers

Jan 2012

Irish Times Supplement PRESS Best postgraduate course of the year in engineering

27/04/2012

Irish Times PRESS Breakthroughs for better bones

13/08/2012

Irish Times PRESS World Congress of Biomechanics to Ireland in 2018

12/04/2012

Irish Times PRESS Bringing the product from basic research to reward

9/04/2012

COMMUNICATIONS

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PRINCIPAL INVESTIGATORS, 18

POSTDOCTORAL RESEARCHERS, 13

POSTGRADUATE RESEARCHERS, 52

M.SC. STUDENTS, 25

PRINCIPAL INVESTIGATORS POSTDOCTORAL RESEARCHERSPOSTGRADUATE RESEARCHERS M.SC. STUDENTS

TRINITY CENTRE FOR BIOENGINEERING PEOPLE

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PRINCIPAL INVESTIGATORS

Dr. Daniel Kelly Director TCBE Affiliation: TCD School of Engineering Contact Email: kellyd9@tcd.ie

• Mechanobiology of Mesenchyaml Stem cells

• Cartilage Tissue Engineering

• Vascular mechanics

Dr. Bruce Murphy Deputy Director Affiliation: TCD School of Engineering Contact Email: bruce.murphy@tcd.ie

• Aortic Valve regeneration

- Mitral valve regurgitation

• Local therapeutic delivery to

diseased blood vessels

• Force focused angioplasty

• Vascular tissue engineering

Dr. Patrick Prendergast Honorary PI Affiliation: Provost, University of Dublin TCD School of Engineering Contact Email: pprender@tcd.ie

• Biomechanical engineering

• Analysis of medical devices

• Computational modeling of medical

device performance

• Stem cell mechanobiology (viz.,

understanding how stem cells

differentiate in response to

mechanical forces).

Prof. Clive Lee Chair Affiliation: RCSI Department of Anatomy Contact Email: tclee@rcsi.ie

Bone o Remodelling o Microdamage detection o Fatigue o Regeneration

Osteoporosis

Content aware media processing o On-line anatomy teaching

Dr Conor Buckley Affiliation: TCD School of Engineering Contact Email: conor.buckley@tcd.ie

Regenerate the intervertebral disc (IVD)

Articular cartilage

Design and development of bioreactor based systems

Tissue engineering

Nutrient micro-environments

Biomaterial interactions

3D scaffold construct technology

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Prof. Veronica Campbell Affiliation: TCD School of Medicine

Contact Email: vacmpbll@tcd.ie

Apoptosis

Biology

Biomedical sciences

Intra and intercellular signalling

Neurochemistry and neuropharmacology

Neurodegeneration

Neuropharmacology

Physiology

Dr. Garry Duffy Affiliation: RCSI Department of Anatomy Contact Email: garryduffy@rcsi.ie

Regenerating the heart after ischemic cardiovascular disease through the application of both gene therapy and stem cell therapy.

Promotion of neovascularisation in ischemic tissues

Collaboratively, he is also interested in including tissue engineering bone grafts, ischemic peripheral limb disorders and diabetic

Prof. David FitzPatrick Affiliation: UCD School of Engineering

Contact Email: david.fitzpatrick@ucd.ie

Evaluation periodontal and implant therapy

Bone regeneration

Orthopaedic Biomechanics

Educational research

Dr. Catriona Lally Affiliation: DCU School of Mechanical Engineering Contact Email: triona.lally@dcu.ie

Cardiovascular Biomechanics

Soft Tissue testing

Medical Device Design

Vascular mechanobiology and cell biology

Tissue Engineering

Vascular imaging

Dr. Edmund Lalor Affiliation: TCD School of Engineering Contact Email: edlalor@tcd.ie

Processing of electrophysiological signals reflecting activity of human sensory systems

Multisensory integration

Effects of selective attention on sensory and perceptual processing

Computational modelling of the visual system at various hierarchical levels

The encoding and decoding of sensory information in populations of neurons

Sensory deficits in schizophrenia and autism

Brain-computer interfacing

PRINCIPAL INVESTIGATORS

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Dr. Paula Murphy Affiliation: TCD School of Natural Sciences Contact Email: paula.murphy@tcd.ie

• Bone and joint formation in limb

long bones

• Finite Element Analysis of the mechanical environment

• Morphogenesis of the limb and facial region of developing vertebrate embryos

• Generation of a 3D atlas of chick

development with cross reference to

the mouse

• Evolution of regulatory mechanisms

• Morphological and molecular

analysis of mouse models of

congenital abnormalities

Prof. Fergal O'Brien Affiliation: RCSI Department of Anatomy Contact Email: fjobrien@rcsi.ie

Tissue engineering and regenerative medicine - Natural and ceramic biomaterials - Scaffold design and development - Stem cell biology - Cellular mechanics and mechanotransduction - Bioreactor development - Growth factor and gene therapy - In vivo modeling

Bone mechanics and osteoporosis - Bone remodeling and repair - Microdamage - Novel methods for OP diagnosis and treatment

Prof. Brian O'Connell Affiliation: TCD School of Dental Science Contact Email: brian.oconnell@dental.tcd.ie

Titanium implant surfaces - modification at nanoscale to enhance bone growth

Combination of cell-seeded Collagen GAG scaffolds with titanium support

Use of bone-anchored implants for orthodontic anchorage

Development of intraoral sensor for the diagnosis and management of sleep bruxism

Dr. Kevin O'Kelly Affiliation: TCD School of Engineering Contact Email: okellyk@tcd.ie

Bioengineering o Scaffolds for bone tissue engineering o Synthesis and application of nano-particles of HA o Effects of osteoarthritis and osteoporosis on mechanical properties of bone tissue

Materials o Indentation fracture mechanics o Crack-microstructure interactions in advanced ceramics

PRINCIPAL INVESTIGATORS

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Prof. Richard Reilly Affiliation: TCD Schools of Engineering & Medicine Contact Email: richard.reilly@tcd.ie

Functional Neuroimaging

Decoding Neural Activity

Active Implantable devices

Speech and Audio analysis

Dr. Ciaran Simms Affiliation: TCD School of Engineering Contact Email: csimms@tcd.ie

Injury biomechanics

Vulnerable road user protection

Soft tissue mechanics

Lower back pain in rowers

Medical device design

Prof. David Taylor Affiliation: TCD School of Engineering Contact Email: dtaylor@tcd.ie

Mechanical Properties of Biological

Materials

Fracture mechanics of bone

Repair and adaptation of bone

Relationships between structure and

mechanical function in nature

Strength and Fracture of Implant

Materials

o Stress concentration effects in

fatigue and fracture

Bone cement

Dr. Alice Witney Affiliation: TCD Department of Physiology Contact Email: awitney@tcd.ie

Insect Walking and Sensory integration

Human posture and balance - Sensory influences on postural

control - Simple medical devices to adjust

balance

Human object manipulation

PRINCIPAL INVESTIGATORS TCBE ORGANISATION

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The members of our 2010-2014 International Advisory Board bring their highly valued range of skills, experiences and expert sector knowledge to assist and shape the development and strategy of the Centre.

INTERNATIONAL ADVISORY BOARD

Prof. Dr. Josep A. Planell is the Director of Biomedical Engineering Research Centre (IBEC, Spain). His area of research is Bio/Non-Bio interactions for regenerative medicine.

Prof. Dr. C. James Kirkpatrick is Professor of Pathology and Chairman at

the Institute of Pathology, the Johannes Gutenberg University of Mainz,

Germany. His principal research interests are in the fields of endothelial

pathobiology, biomaterials in tissue engineering and regenerative

medicine, with a special focus on the development of human cell

culture techniques, specifically around co-culture systems in three-

dimensions.

Prof Bernard Conway is Head of Department of Bioengineering,

University of Strathclyde. His research relates to improving our

understanding of the neuronal mechanisms that contribute to the

generation and control of movement in humans.

Professor Christopher L. ‘Kit’ Vaughan is Emeritus Professor of Biomedical Engineering in the Department of Human Biology, University of Cape Town in South Africa. Kit Vaughan is considered a world authority on the biomechanics of human locomotion for which he was recognised with the award of a Doctor of Science in Medicine degree in 2009

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Funding Partners

Our role in the scientific and medical communities is exemplified by the significant research funding the Trinity Centre for Bioengineering receives from national and international funding agencies including Science Foundation Ireland, Higher Education Authority, National Development Programme, Enterprise Ireland, Health Research Board, Irish Research Council and Wellcome Trust.

PARTNERS

PARTNERS

Hospitals Academic Clinicians Trinity Centre for Bioengineering

Industry

Research

Education

Outreach

Data analysis

Academic

Collaborations

The Centre's researchers receive significant funding from national and international funding agencies, internationally recognized research accomplishments and awards

Concept to commercialisation

Innovative technology transfer

Prototyping

Laboratory bench tests

Flexible IP agreements

State of the art research facilities

Freedom to investigate new research/product areas

Clinical Trials

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Europe Academic Centre for Dentistry, Amsterdam (Netherlands) Aachen University, RWTH, Germany Czech Technical University (CTU) in Prague, Czech Republic Erasmus University, Rotterdam (Netherlands) Ghent University (UGent) together with Free University of Brussels (VUB), Brussels, Belgium Imperial College London (UK) Lund University Hospital (Sweden) Max Planck Institute for Biological Cybernetics Pasteur Research Institute (France) Politecnic of Bari (Italy) Sahlgrenska University Hospital (Sweden) TU / Eindhoven (Netherlands) Universitat Politècnica de Barcelona (Spain) University of Glasglow (UK) University of Groningen (RuG), Netherlands University of Newcastle (UK) University of Southampton (UK) University of Zaragoza (Spain) Utrecht University (The Netherlands)

USA

UC Berkeley City College of New York Columbia University The Nathan Kline Institute for Psychiatric Research, New York GeorgiaTech Harvard MIT Michigan Technological University Stanford University Cornell University Mount Sinai Medical Centre Albert Einstein School of Medicine Wake Forest University USA

Industry Integra Life Sciences Marigot Surgacoll Technologies Medtronic Boston Scientific Georgia Tech Intel Inc Siemens, Austria Vitalograph

Hospitals Beaumont Hospital Cappagh National Orthopaedic Hospital Mater Misericordiae Hospital National Rehabilitation Hospital The Adelaide and Meath Hospital, Dublin incorporating the National Children’s Hospital Santry Sports Clinic St. Patricks Hospital St. James’s Hospital St. Vincent’s University Hospital St. Vincent’s Hospital (Fairview) Waterford Regional Hospital Lund University Hospital Sweden Royal Victoria Eye & Ear Hospital

Academic Partners

Ireland Dublin City University IT Sligo NUI, Galway Queen’s University of Belfast Royal College of Surgeons in Ireland University College Cork University College Dublin University of Limerick University of Ulster National College of Art & Design

Australia University of Sydney University New South Wales

PARTNERS

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PUBLICATIONS 2012

Authors Title Year Source title

Reilly, G., Taylor, D. Application of General Linear Modeling (GLM) to analysis of indentation in compact bone

2012 AES-ATEMA International Conference Series - Advances and Trends in Engineering Materials and their Applications

Khayyeri, H., Prendergast, P.J.

The emergence of mechanoregulated endochondral ossification in evolution

2012 Journal of Biomechanics

Rochford, I., Rapcan, V., D'Arcy, S., Reilly, R.B.

Dynamic minimum pause threshold estimation for speech analysis in studies of cognitive function in ageing

2012 Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS

Holmes, M.S., Le Menn, M., D'Arcy, S., Rapcan, V., MacHale, E., Costello, R.W., Reilly, R.B.

Automatic identification and accurate temporal detection of inhalations in asthma inhaler recordings

2012 Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS

Checa, S., Byrne, D.P., Prendergast, P.J.

Predictive modelling in mechanobiology: Combining algorithms for cell activities in response to physical stimuli using a lattice-modelling approach

2012 Advanced Structured Materials

Taylor, D., Dirks, J.-H. Shape optimization in exoskeletons and endoskeletons: A biomechanics analysis

2012 Journal of the Royal Society Interface

Brennan, O., Kuliwaba, J.S., Lee, T.C., Parkinson, I.H., Fazzalari, N.L., McNamara, L.M., O'Brien, F.J.

Temporal changes in bone composition, architecture, and strength following estrogen deficiency in osteoporosis

2012 Calcified Tissue International

Galibarov, P.E., Prendergast, P.J., Lennon, A.B.

A probabilistic modelling scheme for analysis of long-term failure of cemented femoral joint replacements

2012 Proceedings of the Institution of Mechanical Engineers, Part H: Journal of Engineering in Medicine

Mccoy, R.J., O'Brien, F.J. Visualizing feasible operating ranges within tissue engineering systems using a "windows of operation" approach: A perfusion-scaffold bioreactor case study

2012 Biotechnology and Bioengineering

Simms, C.K. Passive skeletal muscle mechanical behaviour: considerations for constitutive modelling.

2012 Computer methods in biomechanics and biomedical engineering

Sheridan, W.S., Duffy, G.P., Murphy, B.P.

Injection techniques for bulk cell seeding decellularised vascular scaffolds

2012 International Journal of Nano and Biomaterials

Mesallati, T., Buckley, C.T., Nagel, T., Kelly, D.J.

Scaffold architecture determines chondrocyte response to externally applied dynamic compression

2012 Biomechanics and Modeling in Mechanobiology

Haugh, M.G., Thorpe, S.D., Vinardell, T., Buckley, C.T., Kelly, D.J.

The application of plastic compression to modulate fibrin hydrogel mechanical properties

2012 Journal of the Mechanical Behavior of Biomedical Materials

Takaza, M., Moerman, K.M., Gindre, J., Lyons, G., Simms, C.K.

The anisotropic mechanical behaviour of passive skeletal muscle tissue subjected to large tensile strain

2012 Journal of the Mechanical Behavior of Biomedical Materials

Gannon, A.R., Nagel, T., Kelly, D.J.

The role of the superficial region in determining the dynamic properties of articular cartilage

2012 Osteoarthritis and Cartilage

Hoey, D.A., Tormey, S., Ramcharan, S., O'Brien, F.J., Jacobs, C.R.

Primary cilia-mediated mechanotransduction in human mesenchymal stem cells

2012 Stem Cells

McDonnell, G., D'Souza, R., Bertocci, G., Tiernan, J., Simms, C.

The influence of pelvic-belt angle on wheelchair occupant injury risk: A simulation study

2012 2012 IRCOBI Conference Proceedings - International Research Council on the Biomechanics of Injury

Lyons, M., Simms, C.K. Predicting the influence of windscreen design on pedestrian head injuries

2012 IRCOBI Conference Proceedings - International Research Council on the Biomechanics of Injury

Takaza, M., Simms, C.K. The passive response of skeletal muscle to compressive impact loading

2012 IRCOBI Conference Proceedings - International Research Council on the Biomechanics of Injury

Thorpe, S.D., Buckley, C.T., Steward, A.J., Kelly, D.J.

European Society of Biomechanics S.M. Perren Award 2012: The external mechanical environment can override the influence of local substrate in determining

Journal of Biomechanics

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PUBLICATIONS 2012

Authors Title Year Source title

Takaza, M., Simms, C.K. The passive response of skeletal muscle to compressive impact loading

2012 2012 IRCOBI Conference Proceedings - International Research Council on the Biomechanics of Injury

Thorpe, S.D., Buckley, C.T., Steward, A.J., Kelly, D.J.

European Society of Biomechanics S.M. Perren Award 2012: The external mechanical environment can override the influence of local substrate in determining stem cell fate

2012 Journal of Biomechanics

Wilson, F., Gormley, J., Gissane, C., Simms, C.

The effect of rowing to exhaustion on frontal plane angular changes in the lumbar spine of elite rowers

2012 Journal of Sports Sciences

Kiiski, H., Reilly, R.B., Lonergan, R., Kelly, S., O'Brien, M.C., Kinsella, K., Bramham, J., Burke, T., Ó Donnchadha, S., Nolan, H., Hutchinson, M., Tubridy, N., Whelan, R.

Only Low Frequency Event-Related EEG Activity Is Compromised in Multiple Sclerosis: Insights from an Independent Component Clustering Analysis

2012 PLoS ONE

Flamini, V., Kerskens, C., Simms, C., Lally, C.

Fibre orientation of fresh and frozen porcine aorta determined non-invasively using diffusion tensor imaging

2012 Medical Engineering and Physics

Elliott, J.R., Lyons, M., Kerrigan, J., Wood, D.P., Simms, C.K.

Predictive capabilities of the MADYMO multibody pedestrian model: Three-dimensional head translation and rotation, head impact time and head impact velocity

2012 Proceedings of the Institution of Mechanical Engineers, Part K: Journal of Multi-body Dynamics

Boccaccio, A., Kelly, D.J., Pappalettere, C.

A model of tissue differentiation and bone remodelling in fractured vertebrae treated with minimally invasive percutaneous fixation

2012 Medical and Biological Engineering and Computing

Mulroy, E., Quigley, G., Roberts, K., Cummins, G., Magennis, B., Fortune, G., O'Brien, D., Blunnie, W.P., Harrington, E., Gillivan-Murphy, P., Kavanagh, E., Gilligan, P., Reilly, R. Scol P . Kelly, S., Murray, M., Lynch, T.

Deep brain stimulation in Ireland for Parkinson's disease and essential tremor

2012 Irish Medical Journal

Lalor, E.C., Kelly, S.P., Foxe, J.J. Generation of the VESPA response to rapid contrast fluctuations is dominated by striate cortex: Evidence from retinotopic mapping

2012 Neuroscience

Dirks, J.-H., Taylor, D. Veins improve fracture toughness of insect wings 2012 PLoS ONE

Keeling, P., Lennon, A.B., Kenny, P.J., O'Reilly, P., Prendergast, P.J.

The mechanical effect of the existing cement mantle on the in-cement femoral revision

2012 Clinical Biomechanics

Lalor, E.C., De Sanctis, P., Krakowski, M.I., Foxe, J.J.

Visual sensory processing deficits in schizophrenia: Is there anything to the magnocellular account?

2012 Schizophrenia Research

Maher, E., Creane, A., Lally, C., Kelly, D.J.

An anisotropic inelastic constitutive model to describe stress softening and permanent deformation in arterial tissue

2012 Journal of the Mechanical Behavior of Biomedical Materials

Hennessey, D.B., Carey, E., Simms, C.K., Hanly, A., Winter, D.C.

Torsion of monofilament and polyfilament sutures under tension decreases suture strength and increases risk of suture fracture

2012 Journal of the Mechanical Behavior of Biomedical Materials

Liu, Y., Buckley, C.T., Downey, R., Mulhall, K.J., Kelly, D.J.

The role of environmental factors in regulating the development of cartilaginous grafts engineered using osteoarthritic human infrapatellar fat pad-derived stem cells

2012 Tissue Engineering - Part A

Istrate, O.M., Chen, B. Porous exfoliated poly(ε-caprolactone)/clay nanocomposites: Preparation, structure, and properties

2012 Journal of Applied Polymer Science

Burke, D.P., Kelly, D.J. Substrate stiffness and oxygen as regulators of stem cell differentiation during skeletal tissue regeneration: A mechanobiological model

2012 PLoS ONE

Cox, R.F., Jenkinson, A., Pohl, K., O'Brien, F.J., Morgan, M.P.

Osteomimicry of mammary adenocarcinoma cells in vitro; increased expression of bone matrix proteins and proliferation within a 3D collagen environment

2012 PLoS ONE

McLaughlin, M., Lu, T., Dimitrijevic, A., Zeng, F.-G.

Towards a closed-loop cochlear implant system: Application of embedded monitoring of peripheral and central neural activity

2012 IEEE Transactions on Neural Systems and Rehabilitation

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Authors Title Year Source title

Authors Title Year Source title

Cox, R.F., Jenkinson, A., Pohl, K., O'Brien, F.J., Morgan, M.P.

Osteomimicry of mammary adenocarcinoma cells in vitro; increased expression of bone matrix proteins and proliferation within a 3D collagen environment

2012 PLoS ONE

McLaughlin, M., Lu, T., Dimitrijevic, A., Zeng, F.-G.

Towards a closed-loop cochlear implant system: Application of embedded monitoring of peripheral and central neural activity

2012 IEEE Transactions on Neural Systems and Rehabilitation Engineering

Widaa, A., Claro, T., Foster, T.J., O'Brien, F.J., Kerrigan, S.W.

Staphylococcus aureus protein A plays a critical role in mediating bone destruction and bone loss in Osteomyelitis

2012 PLoS ONE

Hastings, C.L., Kelly, H.M., Murphy, M.J., Barry, F.P., O'Brien, F.J., Duffy, G.P.

Development of a thermoresponsive chitosan gel combined with human mesenchymal stem cells and desferrioxamine as a multimodal pro-angiogenic therapeutic for the treatment of critical limb ischaemia

2012 Journal of Controlled Release

Presbitero, G., O'Brien, F.J., Lee, T.C., Taylor, D.

Distribution of microcrack lengths in bone in vivo and in vitro

2012 Journal of Theoretical Biology

Murphy, J.W., Kelly, S.P., Foxe, J.J., Lalor, E.C.

Isolating early cortical generators of visual-evoked activity: A systems identification approach

2012 Experimental Brain Research

Creane, A., Maher, E., Sultan, S., Hynes, N., Kelly, D.J., Lally, C.

A remodelling metric for angular fibre distributions and its application to diseased carotid bifurcations

2012 Biomechanics and Modeling in Mechanobiology

Matsiko, A., Levingstone, T.J., O'Brien, F.J., Gleeson, J.P.

Addition of hyaluronic acid improves cellular infiltration and promotes early-stage chondrogenesis in a collagen-based scaffold for cartilage tissue engineering

2012 Journal of the Mechanical Behavior of Biomedical Materials

O'Brien, F.J., Harley, B.A. Editorial 2012 Journal of the Mechanical Behavior of Biomedical Materials

Murphy, C.M., Matsiko, A., Haugh, M.G., Gleeson, J.P., O'Brien, F.J.

Mesenchymal stem cell fate is regulated by the composition and mechanical properties of collagen-glycosaminoglycan scaffolds

2012 Journal of the Mechanical Behavior of Biomedical Materials

Steward, A.J., Thorpe, S.D., Vinardell, T., Buckley, C.T., Wagner, D.R., Kelly, D.J.

Cell-matrix interactions regulate mesenchymal stem cell response to hydrostatic pressure

2012 Acta Biomaterialia

Dooley, C., Tisbo, P., Lee, T.C., Taylor, D.

Rupture of osteocyte processes across microcracks: The effect of crack length and stress

2012 Biomechanics and Modeling in Mechanobiology

Buckley, C.T., Kelly, D.J. Expansion in the presence of FGF-2 enhances the functional development of cartilaginous tissues engineered using infrapatellar fat pad derived MSCs

2012 Journal of the Mechanical Behavior of Biomedical Materials

Prendergast, P.J. Modelling the fracture environment in computational models of bone healing

2012 European Cells and Materials

Gunning, M.A., Istrate, O.M., Geever, L.M., Lyons, J.G., Blackie, P., Chen, B., Higginbotham, C.L.

The effect of maleic anhydride grafting efficiency on the flexural properties of polyethylene composites

2012 Journal of Applied Polymer Science

Mccoy, R.J., Jungreuthmayer, C., O'Brien, F.J.

Influence of flow rate and scaffold pore size on cell behavior during mechanical stimulation in a flow perfusion bioreactor

2012 Biotechnology and Bioengineering

Vinardell, T., Sheehy, E.J., Buckley, C.T., Kelly, D.J.

A comparison of the functionality and in vivo phenotypic stability of cartilaginous tissues engineered from different stem cell sources

2012 Tissue Engineering - Part A

Coyle, D., Moore, J., Kristensson, P.O., Fletcher, P.C., Blackwell, A.F.

I did that! Measuring users' experience of agency in their own actions

2012 Conference on Human Factors in Computing Systems - Proceedings

Simms, C.K., van Loocke, M., Lyons, C.G.

Skeletal muscle in compression: Modeling approaches for the passive muscle bulk

2012 International Journal for Multiscale Computational Engineering

Thyreau, B., Schwartz, Y., Thirion, B., Frouin, V., Loth, E., Vollstädt-Klein, S., Paus, T.,

Very large fMRI study using the IMAGEN database: Sensitivity-specificity and population effect modeling in relation to the underlying anatomy

2012 NeuroImage

PUBLICATIONS 2012

39

PUBLICATIONS 2012

Authors Title Year Source title

Simms, C.K., van Loocke, M., Lyons, C.G.

Skeletal muscle in compression: Modeling approaches for the passive muscle bulk

2012 International Journal for Multiscale Computational Engineering

Thyreau, B., Schwartz, Y., Thirion, B., Frouin, V., Loth, E., Vollstädt-Klein, S., Paus, T., Artiges, E., Conrod, P.J., Schumann, G., Whelan, R., Poline, J.-B.

Very large fMRI study using the IMAGEN database: Sensitivity-specificity and population effect modeling in relation to the underlying anatomy

2012 NeuroImage

Maher, E., Early, M., Creane, A., Lally, C., Kelly, D.J.

Site specific inelasticity of arterial tissue 2012 Journal of Biomechanics

Nolan, H., Butler, J.S., Whelan, R., Foxe, J.J., Bülthoff, H.H., Reilly, R.B.

Neural correlates of oddball detection in self-motion heading: A high-density event-related potential study of vestibular integration

2012 Experimental Brain Research

Power, A.J., Foxe, J.J., Forde, E.-J., Reilly, R.B., Lalor, E.C.

At what time is the cocktail party? A late locus of selective attention to natural speech

2012 European Journal of Neuroscience

Dirks, J.-H., Taylor, D. Fracture toughness of locust cuticle 2012 Journal of Experimental Biology

Killeen, D., Frydrych, M., Chen, B. Porous poly(vinyl alcohol)/sepiolite bone scaffolds: Preparation, structure and mechanical properties

2012 Materials Science and Engineering C

Nagel, T., Kelly, D.J. Apparent behaviour of charged and neutral materials with ellipsoidal fibre distributions and cross-validation of finite element implementations

2012 Journal of the Mechanical Behavior of Biomedical Materials

Nagel, T., Kelly, D.J. Mechanically induced structural changes during dynamic compression of engineered cartilaginous constructs can potentially explain increases in bulk mechanical properties

2012 Journal of the Royal Society Interface

Moerman, K.M., Sprengers, A.M.J., Simms, C.K., Lamerichs, R.M., Stoker, J., Nederveen, A.J.

Validation of continuously tagged MRI for the measurement of dynamic 3D skeletal muscle tissue deformation

2012 Medical Physics

Sheridan, W.S., Duffy, G.P., Murphy, B.P.

Mechanical characterization of a customized decellularized scaffold for vascular tissue engineering

2012 Journal of the Mechanical Behavior of Biomedical Materials

Istrate, O.M., Gunning, M.A., Higginbotham, C.L., Chen, B.

Structure-property relationships of polymer blend/clay nanocomposites: Compatibilized and noncompatibilized polystyrene/propylene/clay

2012 Journal of Polymer Science, Part B: Polymer Physics

Tierney, E.G., Duffy, G.P., Hibbitts, A.J., Cryan, S.-A., O'Brien, F.J.

The development of non-viral gene-activated matrices for bone regeneration using polyethyleneimine (PEI) and collagen-based scaffolds

2012 Journal of Controlled Release

Hok, V., Chah, E., Reilly, R.B., O'Mara, S.M.

Hippocampal dynamics predict interindividual cognitive differences in rats

2012 Journal of Neuroscience

Alhag, M., Farrell, E., Toner, M., Lee, T.C., O'Brien, F.J., Claffey, N.

Evaluation of the ability of collagen-glycosaminoglycan scaffolds with or without mesenchymal stem cells to heal bone defects in Wistar rats

2012 Oral and Maxillofacial Surgery

O'Gorman, D.M., Tierney, C.M., Brennan, O., O'Brien, F.J.

The marine-derived, multi-mineral formula, aquamin, enhances mineralisation of osteoblast cells in vitro

2012 Phytotherapy Research

Wan, C., Chen, B. Reinforcement and interphase of polymer/graphene oxide nanocomposites

2012 Journal of Materials Chemistry

Curtin, C.M., Cunniffe, G.M., Lyons, F.G., Bessho, K., Dickson, G.R., Duffy, G.P., O'Brien, F.J.

Innovative collagen nano-hydroxyapatite scaffolds offer a highly efficient non-viral gene delivery platform for stem cell-mediated bone formation

2012 Advanced Materials

Cox, G., Boxall, S.A., Giannoudis, P.V., Buckley, C.T., Roshdy, T., Churchman, S.M., McGonagle, D., Jones, E.

High abundance of CD271 + multipotential stromal cells (MSCs) in intramedullary cavities of long bones

2012 Bone

Taylor, D., O'Mara, N., Ryan, E., Takaza, M., Simms, C.

The fracture toughness of soft tissues 2012 Journal of the Mechanical Behavior of Biomedical Materials

Sheehy, E.J., Buckley, C.T., Kelly, Oxygen tension regulates the osteogenic, 2012 Biochemical and

40

PUBLICATIONS 2012

Authors Title Year Source title

Cox, G., Boxall, S.A., Giannoudis, P.V., Buckley, C.T., Roshdy, T., Churchman, S.M., McGonagle, D., Jones, E.

High abundance of CD271 + multipotential stromal cells (MSCs) in intramedullary cavities of long bones

2012 Bone

Taylor, D., O'Mara, N., Ryan, E., Takaza, M., Simms, C.

The fracture toughness of soft tissues 2012 Journal of the Mechanical Behavior of Biomedical Materials

Sheehy, E.J., Buckley, C.T., Kelly, D.J.

Oxygen tension regulates the osteogenic, chondrogenic and endochondral phenotype of bone marrow derived mesenchymal stem cells

2012 Biochemical and Biophysical Research Communications

Vinardell, T., Rolfe, R.A., Buckley, C.T., Meyer, E.G., Ahearne, M., Murphy, P., Kelly, D.J.

Hydrostatic pressure acts to stabilise a chondrogenic phenotype in porcine joint tissue derived stem cells

2012 European Cells and Materials

Newe, C., Cunningham, E., Buchanan, F., Walker, G., Prendergast, P., Lennon, A., Dunne, N.

Static and dynamic degradation of sintered calcium phosphate ceramics

2012 Key Engineering Materials

Brennan, O., Obrien, F.J., McNamara, L.

Estrogen plus estrogen receptor antagonists alter mineral production by osteoblasts in vitro

2012 Hormone and Metabolic Research

Bradley, D., Whelan, R., Kimmich, O., O'Riordan, S., Mulrooney, N., Brady, P., Walsh, R., Reilly, R.B., Hutchinson, S., Molloy, F., Hutchinson, M.

Temporal discrimination thresholds in adult-onset primary torsion dystonia: An analysis by task type and by dystonia phenotype

2012 Journal of Neurology

Nowlan, N.C., Dumas, G., Tajbakhsh, S., Prendergast, P.J., Murphy, P.

Biophysical stimuli induced by passive movements compensate for lack of skeletal muscle during embryonic skeletogenesis

2012 Biomechanics and Modeling in Mechanobiology

Corrigan L, Jefferies C, Lee TC, Daly J.

Evaluation and optimization of IgY Spin Column technology in the depletion of abundant proteins from human serum

2012

Bonnier F, Ali SM, Knief

P, Lambkin H, Flynn

K,

McDonagh V, Healy C, Lee

TC, Lyng FM, Byrne HJ.

Analysis of human skin tissue by Raman microspectroscopy: Dealing with the background

2012 Vibrational Spectroscopy

Cervigón R, Moreno J, Reilly RB, Pérez-Villacastín J, Castells F.

Quantification of anaesthetic effects on atrial fibrillation rate by partial least-squares.

2012 Physiol Meas

Lyons M, Winter D, Simms CK Ventral hernia: Extrusion properties of porcine intestines and surrogate materials

2012 JMBBM

Amato G O’Brien F Ghosh B Williams, G, Simms CK

A Scaling Method for Modelling the Crashworthiness of Novel Roadside Barrier, in press, Journal of Crashworthiness

2012 Journal of Crashworthiness