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DTSTART;TZID=Europe/Madrid:20150612T100000
DTEND;TZID=Europe/Madrid:20150612T110000
DTSTAMP:20260404T191547
CREATED:20150311T075156Z
LAST-MODIFIED:20150311T075156Z
UID:95840-1434103200-1434106800@ibecbarcelona.eu
SUMMARY:IBEC Seminar:  Alexandra P. Marques
DESCRIPTION:Driving skin wound healing: stem cells and extracellular matrix role\n \nAlexandra P. Marques\, 3B’s Research Group\, University of Minho\, Portugal\nWound care products have evolved into skin tissue engineered substitutes\, which despite the longest history of application and the highest record of marketing\, proved to represent replacement strategies instead of promoting tissue regeneration. \nCurrent research indicates that the interactions between resident progenitor cells and their niche dictate the triggering of skin regeneration pathway. In alignment\, mesenchymal stem cells (MSCs)-based therapies\, have been proposed to enhance cutaneous wound healing.  The rationale lies on transplanted cells ability to interact/respond to the wound microenvironment\, which is advantageous when compared to the exogenous administration of healing factors. However\, the involved mechanisms are still elusive and poor outcomes were achieved in terms of attainment of functional skin tissue due to low cell survival rates\, and poor engraftment or cell fusion upon transplantation.  Extracellular matrix (ECM)-mimicking is currently seen as the “Holy Grail” of Tissue Engineering in the sense that by recreating natural tissues microenvironments researchers will be able to increase the residence time and consequently the action of the transplanted cells and thus uncover “therapeutic niches”. \nUnder this context we have been exploring two perspectives; one takes advantage of the tunable ECM-like properties along with the 3D support that hydrogels can provide\, and the second benefits from an intact native ECM offered by cell sheet engineering technology. Hydrogels features such as high hygroscopic nature\, tunable elasticity and facilitated mass transportation\, render such materials attractive for the development of skin ECM-analogues. Although succeeding in improved cell engraftment\, hydrogels fail to provide biological instructive cues as well as cell adhesion sites\, only overcome by cell adhesive peptides bonding to polymers backbone. We developed a new method of processing gellan gum-based materials\, having as start material gellan gum-based hydrogels\, to obtain structures that exhibit features of both sponges and hydrogels depicting intrinsic cell-adhesive properties. By creating constructs comprising adipose tissue cells and artificial and natural ECM we were able to demonstrated that skin healing is dependent on tissue engineered constructs self cell-cell and cell-ECM interactions\, as well as on constructs cell-cell interactions and paracrine signaling with resident cells. In particular\, our results suggest that cell-ECM and cell-cell interactions have a dramatic effect over re-epithelialisation. In opposition\, neo-vascularisation did not seem to be dependent on the nature of the cell-ECM interactions\, but was significantly improved with the incorporation of microvascular endothelial cells. \nUltimately the generation of knowledge on how to direct skin regeneration lead the creation of “off-the-shelf” 3D stem cell-based engineered products inspired by the role of wound healing microenvironments.
URL:https://ibecbarcelona.eu/event/ibec-seminar-alexandra-p-marques-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150612T100000
DTEND;TZID=Europe/Madrid:20150612T110000
DTSTAMP:20260404T191547
CREATED:20150311T075156Z
LAST-MODIFIED:20150608T143446Z
UID:15401-1434103200-1434106800@ibecbarcelona.eu
SUMMARY:IBEC Seminar:  Alexandra P. Marques
DESCRIPTION:Driving skin wound healing: stem cells and extracellular matrix role\n \nAlexandra P. Marques\, 3B’s Research Group\, University of Minho\, Portugal\nWound care products have evolved into skin tissue engineered substitutes\, which despite the longest history of application and the highest record of marketing\, proved to represent replacement strategies instead of promoting tissue regeneration. \nCurrent research indicates that the interactions between resident progenitor cells and their niche dictate the triggering of skin regeneration pathway. In alignment\, mesenchymal stem cells (MSCs)-based therapies\, have been proposed to enhance cutaneous wound healing.  The rationale lies on transplanted cells ability to interact/respond to the wound microenvironment\, which is advantageous when compared to the exogenous administration of healing factors. However\, the involved mechanisms are still elusive and poor outcomes were achieved in terms of attainment of functional skin tissue due to low cell survival rates\, and poor engraftment or cell fusion upon transplantation.  Extracellular matrix (ECM)-mimicking is currently seen as the “Holy Grail” of Tissue Engineering in the sense that by recreating natural tissues microenvironments researchers will be able to increase the residence time and consequently the action of the transplanted cells and thus uncover “therapeutic niches”. \nUnder this context we have been exploring two perspectives; one takes advantage of the tunable ECM-like properties along with the 3D support that hydrogels can provide\, and the second benefits from an intact native ECM offered by cell sheet engineering technology. Hydrogels features such as high hygroscopic nature\, tunable elasticity and facilitated mass transportation\, render such materials attractive for the development of skin ECM-analogues. Although succeeding in improved cell engraftment\, hydrogels fail to provide biological instructive cues as well as cell adhesion sites\, only overcome by cell adhesive peptides bonding to polymers backbone. We developed a new method of processing gellan gum-based materials\, having as start material gellan gum-based hydrogels\, to obtain structures that exhibit features of both sponges and hydrogels depicting intrinsic cell-adhesive properties. By creating constructs comprising adipose tissue cells and artificial and natural ECM we were able to demonstrated that skin healing is dependent on tissue engineered constructs self cell-cell and cell-ECM interactions\, as well as on constructs cell-cell interactions and paracrine signaling with resident cells. In particular\, our results suggest that cell-ECM and cell-cell interactions have a dramatic effect over re-epithelialisation. In opposition\, neo-vascularisation did not seem to be dependent on the nature of the cell-ECM interactions\, but was significantly improved with the incorporation of microvascular endothelial cells. \nUltimately the generation of knowledge on how to direct skin regeneration lead the creation of “off-the-shelf” 3D stem cell-based engineered products inspired by the role of wound healing microenvironments.
URL:https://ibecbarcelona.eu/event/ibec-seminar-alexandra-p-marques/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150616T160000
DTEND;TZID=Europe/Madrid:20150616T170000
DTSTAMP:20260404T191547
CREATED:20150604T150254Z
LAST-MODIFIED:20150604T150254Z
UID:95856-1434470400-1434474000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Javier G. Fernández
DESCRIPTION:Bioinspired materials\n \nJavier G. Fernández\, Assistant Professor and Founder Academic Member · Singapore University of Technology and Design\nNature is abundant with materials that possess extraordinary mechanical characteristics. New techniques in biochemistry and advances in microelectronic engineering are boosting our knowledge of biological materials\, and providing tools to fabricate at the scale at which these materials are made in nature. This investigation of the structural organization of these materials leads to understanding of the principles of natural materials design that are beginning to be harnessed to fabricate biologically-inspired composites for materials engineering with tunable properties that mimic living materials\, which might provide useful for environmental challenges\, as well as medical applications.
URL:https://ibecbarcelona.eu/event/ibec-seminar-javier-g-fernandez-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150616T160000
DTEND;TZID=Europe/Madrid:20150616T170000
DTSTAMP:20260404T191547
CREATED:20150604T150254Z
LAST-MODIFIED:20150604T150254Z
UID:16893-1434470400-1434474000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Javier G. Fernández
DESCRIPTION:Bioinspired materials\n \nJavier G. Fernández\, Assistant Professor and Founder Academic Member · Singapore University of Technology and Design\nNature is abundant with materials that possess extraordinary mechanical characteristics. New techniques in biochemistry and advances in microelectronic engineering are boosting our knowledge of biological materials\, and providing tools to fabricate at the scale at which these materials are made in nature. This investigation of the structural organization of these materials leads to understanding of the principles of natural materials design that are beginning to be harnessed to fabricate biologically-inspired composites for materials engineering with tunable properties that mimic living materials\, which might provide useful for environmental challenges\, as well as medical applications.
URL:https://ibecbarcelona.eu/event/ibec-seminar-javier-g-fernandez/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150619T100000
DTEND;TZID=Europe/Madrid:20150619T110000
DTSTAMP:20260404T191547
CREATED:20150410T120745Z
LAST-MODIFIED:20150616T113709Z
UID:15930-1434708000-1434711600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Matteo Palma
DESCRIPTION:Bio-inspired self-assembly for single-molecule investigations \n \nMatteo Palma\, Queen Mary University of London\nOne of the ultimate goals in nanotechnology is the ability to produce efficient devices based on individual molecules and nanostructures. Despite the many potential benefits envisioned for single-molecule technology (in electronics and biotechnology) the strategies employed to date suffer from various limitations. Principal among these limitations is the poor control over the molecular assembly of nanostructures and individual molecules with respect to one another\, as well as their position on devices with respect to other material components. \nI will first discuss techniques based on the combined use of lithographic nanopatterning and bio-molecular self-assembly to control the immobilization of biomolecules in arrayed nanodomains. I will show how this allows us to produce highly ordered\, self-assembled arrangements of nano-objects\, ranging from proteins to DNA nanostructures\, and bio-inorganic assemblies\, for a variety of (nanoscale) investigations. \nI will show how by specific design of the biomolecular nanoarrays\, it is possible to simultaneously monitor hundreds of protein/DNA binding events at the single-molecule level. Moreover I will discuss the use of our nanopatterned biomimetic surfaces to probe the importance of transmembrane proteins (integrins) clustering and geometric arrangement of binding sites\, in the formation of cell focal adhesions \nI will then highlight the broader utility of such nanopatterned surfaces for the self-organization (on surfaces) of bio-inorganic assemblies as well as DNA nanostructures and carbon nanotubes. In particular\, I will discuss how the combination of high resolution patterning with end-functional chemistry enables the assembly of 1D functional nanostructures in an orderly fashion. \nFinally\, building on our novel bottom-up assembly strategy for the formation of (chemically and geometrically) versatile carbon nanotube (CNTs) junctions\, I will present a universal approach for the generation of multifunctional nanomaterials that employ molecular building blocks assembled between DNA wrapped CNT electrodes. We will demonstrate single-molecule control in the formation of nanohybrids via the in-solution assembly of classes of molecular materials (organic\, and inorganic which display promising attributes) to DNA wrapped CNTs. We believe this may be a viable avenue towards the integration of these materials in complex and functional nano-architectures. \nOur findings are of general interest for the controlled assembly of a broad range of functional molecules and nanostructures\, towards the fabrication of solution-processable nanoscale devices. Moreover\, we believe that the knowledge developed makes a significant contribution towards the facile fabrication of nanohybrid materials for single-molecule investigations. Future technologies will require devices of this type in a variety of key areas\, including biodiagnostics\, ultra-high speed computation\, bioelectronics\, and for renewable energy applications.
URL:https://ibecbarcelona.eu/event/ibec-seminar-matteo-palma/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150619T100000
DTEND;TZID=Europe/Madrid:20150619T110000
DTSTAMP:20260404T191547
CREATED:20150410T120745Z
LAST-MODIFIED:20150410T120745Z
UID:95844-1434708000-1434711600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Matteo Palma
DESCRIPTION:Bio-inspired self-assembly for single-molecule investigations \n \nMatteo Palma\, Queen Mary University of London\nOne of the ultimate goals in nanotechnology is the ability to produce efficient devices based on individual molecules and nanostructures. Despite the many potential benefits envisioned for single-molecule technology (in electronics and biotechnology) the strategies employed to date suffer from various limitations. Principal among these limitations is the poor control over the molecular assembly of nanostructures and individual molecules with respect to one another\, as well as their position on devices with respect to other material components. \nI will first discuss techniques based on the combined use of lithographic nanopatterning and bio-molecular self-assembly to control the immobilization of biomolecules in arrayed nanodomains. I will show how this allows us to produce highly ordered\, self-assembled arrangements of nano-objects\, ranging from proteins to DNA nanostructures\, and bio-inorganic assemblies\, for a variety of (nanoscale) investigations. \nI will show how by specific design of the biomolecular nanoarrays\, it is possible to simultaneously monitor hundreds of protein/DNA binding events at the single-molecule level. Moreover I will discuss the use of our nanopatterned biomimetic surfaces to probe the importance of transmembrane proteins (integrins) clustering and geometric arrangement of binding sites\, in the formation of cell focal adhesions \nI will then highlight the broader utility of such nanopatterned surfaces for the self-organization (on surfaces) of bio-inorganic assemblies as well as DNA nanostructures and carbon nanotubes. In particular\, I will discuss how the combination of high resolution patterning with end-functional chemistry enables the assembly of 1D functional nanostructures in an orderly fashion. \nFinally\, building on our novel bottom-up assembly strategy for the formation of (chemically and geometrically) versatile carbon nanotube (CNTs) junctions\, I will present a universal approach for the generation of multifunctional nanomaterials that employ molecular building blocks assembled between DNA wrapped CNT electrodes. We will demonstrate single-molecule control in the formation of nanohybrids via the in-solution assembly of classes of molecular materials (organic\, and inorganic which display promising attributes) to DNA wrapped CNTs. We believe this may be a viable avenue towards the integration of these materials in complex and functional nano-architectures. \nOur findings are of general interest for the controlled assembly of a broad range of functional molecules and nanostructures\, towards the fabrication of solution-processable nanoscale devices. Moreover\, we believe that the knowledge developed makes a significant contribution towards the facile fabrication of nanohybrid materials for single-molecule investigations. Future technologies will require devices of this type in a variety of key areas\, including biodiagnostics\, ultra-high speed computation\, bioelectronics\, and for renewable energy applications.
URL:https://ibecbarcelona.eu/event/ibec-seminar-matteo-palma-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150706T150000
DTEND;TZID=Europe/Madrid:20150706T160000
DTSTAMP:20260404T191547
CREATED:20150701T122222Z
LAST-MODIFIED:20150701T122222Z
UID:95860-1436194800-1436198400@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Prof. Saman K. Halgamuge
DESCRIPTION:Big Data Analytics in Metagenomics\nSaman K. Halgamuge\, Melbourne School of Engineering\, University of Melbourne\, Australia\nIn collaboration with researchers in Academia Sinica and Metabolomics Australia/Department of Botany at Melbourne\, we have been working in two areas of Bioinformatics: Metabolomics focusing on microbes and Metagenomics focusing on plants. Profiling large sets of data resulted from technological advances in whole genome sequencing and MALDI Imaging type technologies that can reveal vital information about the environment and plants\, which is our major or primary source of food on Earth. Recently we have demonstrated considerable success in using unsupervised clustering techniques to analyse genetic and metabolomic data. This includes analysis of viral quasi species\, metabolomics and microbial metagenomes.  \nSome microbes in the environment appear to look very similar and found “living together” in communities in non-separable ways\, making them harder to culture in a lab. To make matters worst\, considering our belief\, if it is correct at all\, that we know only about up to 2% of the microbes around us. When we know only so little about the data labels\, in this case\, about the identity of the species. It is even more challenging to recognise patterns associated with the genomes of the quasispecies (a set of genetically related but non-identical viral mutant types\, which can also be referred to as strains\,) that are able to co-exist within the host. Uncovering information about quasi-species populations of microbes significantly benefits the study of disease progression\, antiviral drug design\, vaccine design and viral pathogenesis. We present a new analysis pipeline called ViQuaS for viral quasispecies spectrum reconstruction using short next-generation sequencing reads. ViQuaS is based on a novel reference-assisted de novo assembly algorithm for constructing local haplotypes.
URL:https://ibecbarcelona.eu/event/ibec-seminar-prof-saman-k-halgamuge-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150706T150000
DTEND;TZID=Europe/Madrid:20150706T160000
DTSTAMP:20260404T191547
CREATED:20150701T122222Z
LAST-MODIFIED:20150701T122253Z
UID:17897-1436194800-1436198400@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Prof. Saman K. Halgamuge
DESCRIPTION:Big Data Analytics in Metagenomics\nSaman K. Halgamuge\, Melbourne School of Engineering\, University of Melbourne\, Australia\nIn collaboration with researchers in Academia Sinica and Metabolomics Australia/Department of Botany at Melbourne\, we have been working in two areas of Bioinformatics: Metabolomics focusing on microbes and Metagenomics focusing on plants. Profiling large sets of data resulted from technological advances in whole genome sequencing and MALDI Imaging type technologies that can reveal vital information about the environment and plants\, which is our major or primary source of food on Earth. Recently we have demonstrated considerable success in using unsupervised clustering techniques to analyse genetic and metabolomic data. This includes analysis of viral quasi species\, metabolomics and microbial metagenomes.  \nSome microbes in the environment appear to look very similar and found “living together” in communities in non-separable ways\, making them harder to culture in a lab. To make matters worst\, considering our belief\, if it is correct at all\, that we know only about up to 2% of the microbes around us. When we know only so little about the data labels\, in this case\, about the identity of the species. It is even more challenging to recognise patterns associated with the genomes of the quasispecies (a set of genetically related but non-identical viral mutant types\, which can also be referred to as strains\,) that are able to co-exist within the host. Uncovering information about quasi-species populations of microbes significantly benefits the study of disease progression\, antiviral drug design\, vaccine design and viral pathogenesis. We present a new analysis pipeline called ViQuaS for viral quasispecies spectrum reconstruction using short next-generation sequencing reads. ViQuaS is based on a novel reference-assisted de novo assembly algorithm for constructing local haplotypes.
URL:https://ibecbarcelona.eu/event/ibec-seminar-prof-saman-k-halgamuge/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150724T100000
DTEND;TZID=Europe/Madrid:20150724T110000
DTSTAMP:20260404T191547
CREATED:20150720T092247Z
LAST-MODIFIED:20150720T092247Z
UID:95864-1437732000-1437735600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Dr. François St. Pierre
DESCRIPTION:Imaging electrical activity in vivo with ultrafast protein sensors  \nDr. François St. Pierre\, Department of Neuroscience\, Baylor College of Medicine / \nDepartment of Electrical and Computer Engineering\, Rice University\nImaging of rapid brain electrical activity has been on the wish list of neurobiologists for many years and has received renewed attention with the launch of the BRAIN initiative by the White House in the U.S.A. In particular\, neuroscientists have long sought voltage sensors based on proteins to reveal brain activity in genetically defined neuronal circuits. I will present novel protein voltage sensors that leverage optimized parts and creative new designs to report neural activity with unprecedented temporal resolution in vitro\, in brain slices and in vivo. Importantly\, these synthetic sensors report neural activity at the millisecond timescale over which key information processing functions are thought to take place. I will show how these new optical tools enable us to follow neural information processing in the fly visual system with subcellular resolution. I will also present our recent success at monitoring spontaneous electrical activity in stem cell-derived cardiomyocytes.
URL:https://ibecbarcelona.eu/event/ibec-seminar-dr-francois-st-pierre-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150724T100000
DTEND;TZID=Europe/Madrid:20150724T110000
DTSTAMP:20260404T191547
CREATED:20150720T092247Z
LAST-MODIFIED:20150720T102616Z
UID:18148-1437732000-1437735600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Dr. François St. Pierre
DESCRIPTION:Imaging electrical activity in vivo with ultrafast protein sensors  \nDr. François St. Pierre\, Department of Neuroscience\, Baylor College of Medicine / \nDepartment of Electrical and Computer Engineering\, Rice University\nImaging of rapid brain electrical activity has been on the wish list of neurobiologists for many years and has received renewed attention with the launch of the BRAIN initiative by the White House in the U.S.A. In particular\, neuroscientists have long sought voltage sensors based on proteins to reveal brain activity in genetically defined neuronal circuits. I will present novel protein voltage sensors that leverage optimized parts and creative new designs to report neural activity with unprecedented temporal resolution in vitro\, in brain slices and in vivo. Importantly\, these synthetic sensors report neural activity at the millisecond timescale over which key information processing functions are thought to take place. I will show how these new optical tools enable us to follow neural information processing in the fly visual system with subcellular resolution. I will also present our recent success at monitoring spontaneous electrical activity in stem cell-derived cardiomyocytes.
URL:https://ibecbarcelona.eu/event/ibec-seminar-dr-francois-st-pierre/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150917T100000
DTEND;TZID=Europe/Madrid:20150917T110000
DTSTAMP:20260404T191547
CREATED:20150803T122810Z
LAST-MODIFIED:20150803T122810Z
UID:95865-1442484000-1442487600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Richard Reilly
DESCRIPTION:All a question of Timing:  Sensory processing in Dystonia and Parkinson’s Disease\nProfessor Richard Reilly\, Trinity Centre for Bioengineering · Trinity College Dublin\nThere are many challenges in the diagnosis and management of neurological disorders. Neural Engineering can help address some of these by the development of novel engineering\, computational and experimental methods to help understand the pathogenesis of neurological disorders. This talk will detail results from recent neural engineering studies into understanding cervical dystonia and Parkinson’s disease. \nWhile the pathogenesis of cervical dystonia remains unknown\, recent animal and clinical experimental studies have indicated its probable mechanisms. Human movement involves a complex series of coordinated musculoskeletal but also neural processes. A breakdown in any of these processes can result in irregular movement. The temporal discrimination threshold is the shortest time interval at which two sensory stimuli presented sequentially are detected as asynchronous by the observer. Studies in our group and that of others have shown that abnormal temporal discrimination is a mediational endophenotype of cervical dystonia and informs new concepts of disease pathogenesis. Our hypothesis is that both abnormal temporal discrimination and cervical dystonia are due to a disorder of the midbrain network for covert attentional orienting caused by reduced gamma-aminobutyric acid inhibition\, resulting from\, in turn\, from as yet undetermined\, genetic mutations. Such disinhibition is a) subclinically manifested by abnormal temporal discrimination due to prolonged duration firing of the visual sensory neurons in the superficial laminae of the superior colliculus\, b) clinically manifested by cervical dystonia due to disinhibited burst activity of the cephalomotor neurons of the intermediate and deep laminae of the superior colliculus. Abnormal temporal discrimination in unaffected first-degree relatives of patients with cervical dystonia represents a subclinical manifestation of defective gamma-aminobutyric acid activity both within the superior colliculus and from the substantia nigra pars reticulata. This talk will review some our recent experiments addressing this hypothesis. \nSensory and perceptual disturbances are common in Parkinson’s disease. Subtle deficits of the sensory system\, often not detected by routine examination\, occur in people with Parkinson’s disease. From simple anosmia and impaired kinesthetic perception\, to more complex visual hallucinations and spatiotemporal perceptual abnormalities\, altered sensory processing is found across multiple modalities. Of note\, integration of multiple environmental sensory inputs is crucial for a refined but complex goal-directed motor output (e.g. locomotion through a crowded environment). There is increasing evidence that these sensory deficits contribute to the pathophysiology of some of the abnormal motor features of Parkinson’s disease. This talk will review some of our recent experiments to probe multisensory deficits in Parkinson’s disease and introduce one intervention developed around sensory and cognitive processing.
URL:https://ibecbarcelona.eu/event/ibec-seminar-richard-reilly-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150917T100000
DTEND;TZID=Europe/Madrid:20150917T110000
DTSTAMP:20260404T191547
CREATED:20150803T122810Z
LAST-MODIFIED:20150803T122810Z
UID:18430-1442484000-1442487600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Richard Reilly
DESCRIPTION:All a question of Timing:  Sensory processing in Dystonia and Parkinson’s Disease\nProfessor Richard Reilly\, Trinity Centre for Bioengineering · Trinity College Dublin\nThere are many challenges in the diagnosis and management of neurological disorders. Neural Engineering can help address some of these by the development of novel engineering\, computational and experimental methods to help understand the pathogenesis of neurological disorders. This talk will detail results from recent neural engineering studies into understanding cervical dystonia and Parkinson’s disease. \nWhile the pathogenesis of cervical dystonia remains unknown\, recent animal and clinical experimental studies have indicated its probable mechanisms. Human movement involves a complex series of coordinated musculoskeletal but also neural processes. A breakdown in any of these processes can result in irregular movement. The temporal discrimination threshold is the shortest time interval at which two sensory stimuli presented sequentially are detected as asynchronous by the observer. Studies in our group and that of others have shown that abnormal temporal discrimination is a mediational endophenotype of cervical dystonia and informs new concepts of disease pathogenesis. Our hypothesis is that both abnormal temporal discrimination and cervical dystonia are due to a disorder of the midbrain network for covert attentional orienting caused by reduced gamma-aminobutyric acid inhibition\, resulting from\, in turn\, from as yet undetermined\, genetic mutations. Such disinhibition is a) subclinically manifested by abnormal temporal discrimination due to prolonged duration firing of the visual sensory neurons in the superficial laminae of the superior colliculus\, b) clinically manifested by cervical dystonia due to disinhibited burst activity of the cephalomotor neurons of the intermediate and deep laminae of the superior colliculus. Abnormal temporal discrimination in unaffected first-degree relatives of patients with cervical dystonia represents a subclinical manifestation of defective gamma-aminobutyric acid activity both within the superior colliculus and from the substantia nigra pars reticulata. This talk will review some our recent experiments addressing this hypothesis. \nSensory and perceptual disturbances are common in Parkinson’s disease. Subtle deficits of the sensory system\, often not detected by routine examination\, occur in people with Parkinson’s disease. From simple anosmia and impaired kinesthetic perception\, to more complex visual hallucinations and spatiotemporal perceptual abnormalities\, altered sensory processing is found across multiple modalities. Of note\, integration of multiple environmental sensory inputs is crucial for a refined but complex goal-directed motor output (e.g. locomotion through a crowded environment). There is increasing evidence that these sensory deficits contribute to the pathophysiology of some of the abnormal motor features of Parkinson’s disease. This talk will review some of our recent experiments to probe multisensory deficits in Parkinson’s disease and introduce one intervention developed around sensory and cognitive processing.
URL:https://ibecbarcelona.eu/event/ibec-seminar-richard-reilly/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150918T100000
DTEND;TZID=Europe/Madrid:20150918T110000
DTSTAMP:20260404T191547
CREATED:20150629T072320Z
LAST-MODIFIED:20150629T072320Z
UID:95859-1442570400-1442574000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Marc Martí-Renom
DESCRIPTION:Structure determination of genomes and genomic domains by satisfaction of spatial restraints\nMarc Martí-Renom\, ICREA Research Professor / CNAG / CRG\nThe genome three-dimensional (3D) organization plays important\, yet poorly understood roles in gene regulation. Chromosomes assume multiple distinct conformations in relation to the expression status of resident genes and undergo dramatic alterations in higher order structure through the cell cycle. Despite advances in microscopy\, a general technique to determine the 3D conformation of chromatin has been lacking. We developed a new method for the determination of the 3D conformation of chromatin domains in the interphase nucleus\, which combines 3C-based experiments with the computational Integrative Modeling Platform (IMP). The general approach of our method\, which has been applied to study the 3D conformation of the alpha-globin domain in the human genome [1]\, the Caulobacter crescentus whole genome [2]\, and the dynamic response of Topologically Associating Domains (TADs) to hormone treatment in breast cancer cell lines [3]\, opens the field for comprehensive studies of the 3D conformation of chromosomal domains and contributes to a more complete characterization of genome regulation.\n[1] D. Baù et al. Nat Struct Mol Biol (2011) 18:107.\n[2] M.A. Umbarger\, et al. Molecular Cell (2011) 44:252\n[3] Le Dily\, et al. Genes & Dev (2014) 28:2151
URL:https://ibecbarcelona.eu/event/ibec-seminar-marc-marti-renom-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150918T100000
DTEND;TZID=Europe/Madrid:20150918T110000
DTSTAMP:20260404T191547
CREATED:20150629T072320Z
LAST-MODIFIED:20150629T072320Z
UID:17667-1442570400-1442574000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Marc Martí-Renom
DESCRIPTION:Structure determination of genomes and genomic domains by satisfaction of spatial restraints\nMarc Martí-Renom\, ICREA Research Professor / CNAG / CRG\nThe genome three-dimensional (3D) organization plays important\, yet poorly understood roles in gene regulation. Chromosomes assume multiple distinct conformations in relation to the expression status of resident genes and undergo dramatic alterations in higher order structure through the cell cycle. Despite advances in microscopy\, a general technique to determine the 3D conformation of chromatin has been lacking. We developed a new method for the determination of the 3D conformation of chromatin domains in the interphase nucleus\, which combines 3C-based experiments with the computational Integrative Modeling Platform (IMP). The general approach of our method\, which has been applied to study the 3D conformation of the alpha-globin domain in the human genome [1]\, the Caulobacter crescentus whole genome [2]\, and the dynamic response of Topologically Associating Domains (TADs) to hormone treatment in breast cancer cell lines [3]\, opens the field for comprehensive studies of the 3D conformation of chromosomal domains and contributes to a more complete characterization of genome regulation.\n[1] D. Baù et al. Nat Struct Mol Biol (2011) 18:107.\n[2] M.A. Umbarger\, et al. Molecular Cell (2011) 44:252\n[3] Le Dily\, et al. Genes & Dev (2014) 28:2151
URL:https://ibecbarcelona.eu/event/ibec-seminar-marc-marti-renom/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150922T000000
DTEND;TZID=Europe/Madrid:20150922T130000
DTSTAMP:20260404T191547
CREATED:20150918T102346Z
LAST-MODIFIED:20150918T102346Z
UID:95868-1442880000-1442926800@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Albert Folch
DESCRIPTION:Print-and-Play Microfluidics\nAlbert Folch\, Associate Professor\, University of Washington\nBiologists and clinicians typically do not have access to microfluidic technology because they do not have the engineering expertise or equipment required to fabricate and/or operate microfluidic devices. Furthermore\, the present commercialization path for microfluidic devices is usually restricted to high-volume applications in order to recover the large investment needed to develop the plastic molding processes. We are developing microfluidic devices through stereolithography\, a form of 3D printing\, in order to make microfluidic technology readily available via the web to biomedical scientists. Our lab presently focuses on developing 3D-printable microdevices that facilitate the advancement of basic neuroscience and translational cancer applications. The lab’s long-term mission is to make microfluidic devices as easy to use as smartphones and make them easily available to clinicians in order to enable novel cancer diagnostics and therapies.
URL:https://ibecbarcelona.eu/event/ibec-seminar-albert-folch-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20150922T000000
DTEND;TZID=Europe/Madrid:20150922T130000
DTSTAMP:20260404T191547
CREATED:20150918T102346Z
LAST-MODIFIED:20150918T102346Z
UID:18953-1442880000-1442926800@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Albert Folch
DESCRIPTION:Print-and-Play Microfluidics\nAlbert Folch\, Associate Professor\, University of Washington\nBiologists and clinicians typically do not have access to microfluidic technology because they do not have the engineering expertise or equipment required to fabricate and/or operate microfluidic devices. Furthermore\, the present commercialization path for microfluidic devices is usually restricted to high-volume applications in order to recover the large investment needed to develop the plastic molding processes. We are developing microfluidic devices through stereolithography\, a form of 3D printing\, in order to make microfluidic technology readily available via the web to biomedical scientists. Our lab presently focuses on developing 3D-printable microdevices that facilitate the advancement of basic neuroscience and translational cancer applications. The lab’s long-term mission is to make microfluidic devices as easy to use as smartphones and make them easily available to clinicians in order to enable novel cancer diagnostics and therapies.
URL:https://ibecbarcelona.eu/event/ibec-seminar-albert-folch/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20151016T100000
DTEND;TZID=Europe/Madrid:20151016T110000
DTSTAMP:20260404T191547
CREATED:20150713T060412Z
LAST-MODIFIED:20150713T060412Z
UID:18096-1444989600-1444993200@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Lorenzo Albertazzi
DESCRIPTION:Nanoscopy for Nanomedicine: looking at nanomaterials in action one molecule at a time\nLorenzo Albertazzi\, IBEC\nThe use of nanomaterials for biomedical purposes such as drug or gene delivery is one of the key applications of nanotechnology. In this framework a variety of materials have been fabricated\, evaluated in cells and in vivo and\, in some cases\, successfully translated into clinical applications. A crucial factor limiting the design of effective nanocarriers is the lack of knowledge about materials-cell interactions that severely limit the rational design of nanosized devices.\nHere I’ll show how advanced optical microscopy techniques can shine a light on nanomaterials behavior in the biological environment\, helping us to understand structure-activity relationships and to design improved and more effective therapeutic devices. In particular I’ll discuss the ability of super resolution microscopy to image with nanometric resolution nanomaterials interactions with target cells. The potential and the applications of the technique will be discussed\, with particular emphasis on the study of self-assembled bio-inspired materials.
URL:https://ibecbarcelona.eu/event/ibec-seminar-lorenzo-albertazzi/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20151016T100000
DTEND;TZID=Europe/Madrid:20151016T110000
DTSTAMP:20260404T191547
CREATED:20150713T060412Z
LAST-MODIFIED:20150713T060412Z
UID:95862-1444989600-1444993200@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Lorenzo Albertazzi
DESCRIPTION:Nanoscopy for Nanomedicine: looking at nanomaterials in action one molecule at a time\nLorenzo Albertazzi\, IBEC\nThe use of nanomaterials for biomedical purposes such as drug or gene delivery is one of the key applications of nanotechnology. In this framework a variety of materials have been fabricated\, evaluated in cells and in vivo and\, in some cases\, successfully translated into clinical applications. A crucial factor limiting the design of effective nanocarriers is the lack of knowledge about materials-cell interactions that severely limit the rational design of nanosized devices.\nHere I’ll show how advanced optical microscopy techniques can shine a light on nanomaterials behavior in the biological environment\, helping us to understand structure-activity relationships and to design improved and more effective therapeutic devices. In particular I’ll discuss the ability of super resolution microscopy to image with nanometric resolution nanomaterials interactions with target cells. The potential and the applications of the technique will be discussed\, with particular emphasis on the study of self-assembled bio-inspired materials.
URL:https://ibecbarcelona.eu/event/ibec-seminar-lorenzo-albertazzi-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151019T100000
DTEND;TZID=UTC:20151019T120000
DTSTAMP:20260404T191547
CREATED:20151006T054804Z
LAST-MODIFIED:20151006T054804Z
UID:19129-1445248800-1445256000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Cell Imaging Day - Molecular Probes
DESCRIPTION:Cell Imaging Day – Molecular Probes\nClara Streiff\, Senior Technical Specialist · Molecular Probes – ThermoFisher Scientific\nSeminar:\n•	Marcaje de estructuras celulares en células vivas (Bacmam Cellight)\n•	Proliferación celular (Click-iT® EdU)\n•	Estrés oxidativo (CellROX®)\n•	Fagocitosis (PHrodo)\n•	Apoptosis (Cellevent Caspase 3 and 7)\n•	Mejorando la señal fluorescente en células vivas y fijadas (ReadyProbes reactivos “ready to use”)\n•	Ventajas de la citometría por focalización acústica (Attune®NxT acoustic focusing cytometer)  \nAl final del seminario podrás pasar tus muestras en el microscopio EVOS® FL AUTO y prueba nuestros reactivos ReadyProbes de Molecular Probes sin compromiso\, reactivos para imaging que permiten marcar tus células sin necesidad de hacer calculos\, diluciones ni pipetear.
URL:https://ibecbarcelona.eu/event/ibec-seminar-cell-imaging-day-molecular-probes/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151019T100000
DTEND;TZID=UTC:20151019T120000
DTSTAMP:20260404T191547
CREATED:20151006T054804Z
LAST-MODIFIED:20151006T054804Z
UID:95869-1445248800-1445256000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Cell Imaging Day - Molecular Probes
DESCRIPTION:Cell Imaging Day – Molecular Probes\nClara Streiff\, Senior Technical Specialist · Molecular Probes – ThermoFisher Scientific\nSeminar:\n•	Marcaje de estructuras celulares en células vivas (Bacmam Cellight)\n•	Proliferación celular (Click-iT® EdU)\n•	Estrés oxidativo (CellROX®)\n•	Fagocitosis (PHrodo)\n•	Apoptosis (Cellevent Caspase 3 and 7)\n•	Mejorando la señal fluorescente en células vivas y fijadas (ReadyProbes reactivos “ready to use”)\n•	Ventajas de la citometría por focalización acústica (Attune®NxT acoustic focusing cytometer)  \nAl final del seminario podrás pasar tus muestras en el microscopio EVOS® FL AUTO y prueba nuestros reactivos ReadyProbes de Molecular Probes sin compromiso\, reactivos para imaging que permiten marcar tus células sin necesidad de hacer calculos\, diluciones ni pipetear.
URL:https://ibecbarcelona.eu/event/ibec-seminar-cell-imaging-day-molecular-probes-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20151023T100000
DTEND;TZID=Europe/Madrid:20151023T110000
DTSTAMP:20260404T191547
CREATED:20150803T123423Z
LAST-MODIFIED:20150803T123423Z
UID:95866-1445594400-1445598000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Miquel Bosch Pita
DESCRIPTION:The molecular mechanisms of memory persistence: imaging how single synapses learn in real time\nMiquel Bosch Pita\, Nanoprobes and nanoswitches group\, IBEC\nMemories are stored in our brain through the ability of synaptic connections to modify their structure and function in a long-lasting way. However\, nobody has ever observed how these changes occur in a single synapse in real time.\nI will explain how we used a new combination of optical technologies to reveal the molecular remodeling that takes place inside a synapse during the creation of a memory. We used two-photon microscopy to stimulate individual synapses and to visualize protein trafficking in real time. We identified a unique protein that is rapidly and persistently captured in potentiated synapses\, forming a new macromolecule that could serve as a memory tag. We developed a novel photo-marking technique that allowed us to localize the same synapses under both two-photon and electron microscopies. This way we observed how different synaptic structures evolve asynchronously in three temporal phases during synaptic potentiation.
URL:https://ibecbarcelona.eu/event/ibec-seminar-miquel-bosch-pita-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Madrid:20151023T100000
DTEND;TZID=Europe/Madrid:20151023T110000
DTSTAMP:20260404T191547
CREATED:20150803T123423Z
LAST-MODIFIED:20150803T123423Z
UID:18434-1445594400-1445598000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Miquel Bosch Pita
DESCRIPTION:The molecular mechanisms of memory persistence: imaging how single synapses learn in real time\nMiquel Bosch Pita\, Nanoprobes and nanoswitches group\, IBEC\nMemories are stored in our brain through the ability of synaptic connections to modify their structure and function in a long-lasting way. However\, nobody has ever observed how these changes occur in a single synapse in real time.\nI will explain how we used a new combination of optical technologies to reveal the molecular remodeling that takes place inside a synapse during the creation of a memory. We used two-photon microscopy to stimulate individual synapses and to visualize protein trafficking in real time. We identified a unique protein that is rapidly and persistently captured in potentiated synapses\, forming a new macromolecule that could serve as a memory tag. We developed a novel photo-marking technique that allowed us to localize the same synapses under both two-photon and electron microscopies. This way we observed how different synaptic structures evolve asynchronously in three temporal phases during synaptic potentiation.
URL:https://ibecbarcelona.eu/event/ibec-seminar-miquel-bosch-pita/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151119T120000
DTEND;TZID=UTC:20151119T130000
DTSTAMP:20260404T191547
CREATED:20151109T154810Z
LAST-MODIFIED:20151109T154810Z
UID:95878-1447934400-1447938000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Luis de Lecea
DESCRIPTION:Optogenetic control of arousal\nLuis de Lecea\, Department of Psychiatry and Behavioral Sciences\, Stanford University School of Medicine\nChanges in arousal states are at the core of most neuropsychiatric disorders. Several groups of monoaminergic neurons have long been known to facilitate arousal state transitions. Here we will review the role of hypocretin/orexin neurons in the dynamics of sleep-to-wake transitions. I will also show data demonstrating that dopaminergic neurons of the ventral tegmental area (VTA) directly and causally control the generation and maintenance of electrocortical and behavioral arousal. Combining chemogenetic and optogenetic tools with polysomnographic recordings in mice\, we show that activity in VTA-dopaminergic neurons is necessary for arousal\, and that their chemogenetic inhibition suppresses wakefulness to promote both non-rapid eye movement (NREM) and REM sleep. Moreover\, chemogenetic inhibition of VTA-dopaminergic neurons suppresses wakefulness even in the face of highly salient stimuli related to reproduction\, feeding and predation. Nevertheless\, prior to inducing sleep\, chemogenetic inhibition of VTA-dopaminergic neurons promotes goal-directed and sleep-related nest building behavior. Optogenetic stimulation\, in contrast\, initiates and maintains long-term wakefulness and suppresses sleep and sleep-related nesting behavior. We further show that the nucleus accumbens (NAc) circuit\, and not the medial prefrontal cortex (mPFC)\, mediates most of VTA-dopaminergic effects on arousal. After collecting data from multiple brain structures involved in arousal states\, we propose a computational model that assigns probabilities to optogenetically-induced arousal state transitions in individual brain structures. We identify feedback\, redundancy\, and gating hierarchy as three fundamental aspects of this model. Incorporation of conductance-based models of neuronal ensembles into this model and existing models of cortical excitability will provide more comprehensive insight into arousal state dynamics as well as arousal-related disorders.
URL:https://ibecbarcelona.eu/event/ibec-seminar-luis-de-lecea-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151119T120000
DTEND;TZID=UTC:20151119T130000
DTSTAMP:20260404T191547
CREATED:20151109T154810Z
LAST-MODIFIED:20151113T074152Z
UID:19587-1447934400-1447938000@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Luis de Lecea
DESCRIPTION:Optogenetic control of arousal\nLuis de Lecea\, Department of Psychiatry and Behavioral Sciences\, Stanford University School of Medicine\nChanges in arousal states are at the core of most neuropsychiatric disorders. Several groups of monoaminergic neurons have long been known to facilitate arousal state transitions. Here we will review the role of hypocretin/orexin neurons in the dynamics of sleep-to-wake transitions. I will also show data demonstrating that dopaminergic neurons of the ventral tegmental area (VTA) directly and causally control the generation and maintenance of electrocortical and behavioral arousal. Combining chemogenetic and optogenetic tools with polysomnographic recordings in mice\, we show that activity in VTA-dopaminergic neurons is necessary for arousal\, and that their chemogenetic inhibition suppresses wakefulness to promote both non-rapid eye movement (NREM) and REM sleep. Moreover\, chemogenetic inhibition of VTA-dopaminergic neurons suppresses wakefulness even in the face of highly salient stimuli related to reproduction\, feeding and predation. Nevertheless\, prior to inducing sleep\, chemogenetic inhibition of VTA-dopaminergic neurons promotes goal-directed and sleep-related nest building behavior. Optogenetic stimulation\, in contrast\, initiates and maintains long-term wakefulness and suppresses sleep and sleep-related nesting behavior. We further show that the nucleus accumbens (NAc) circuit\, and not the medial prefrontal cortex (mPFC)\, mediates most of VTA-dopaminergic effects on arousal. After collecting data from multiple brain structures involved in arousal states\, we propose a computational model that assigns probabilities to optogenetically-induced arousal state transitions in individual brain structures. We identify feedback\, redundancy\, and gating hierarchy as three fundamental aspects of this model. Incorporation of conductance-based models of neuronal ensembles into this model and existing models of cortical excitability will provide more comprehensive insight into arousal state dynamics as well as arousal-related disorders.
URL:https://ibecbarcelona.eu/event/ibec-seminar-luis-de-lecea/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151127T120000
DTEND;TZID=UTC:20151127T130000
DTSTAMP:20260404T191547
CREATED:20151106T080207Z
LAST-MODIFIED:20151106T080207Z
UID:95877-1448625600-1448629200@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Chia-Fu Chou
DESCRIPTION:Low-copy number biomolecular analysis with dielectrophoretic enrichment /trapping via molecular dam and plasmonic electrode nanogaps\nChia-Fu Chou\, Senior Research Fellow/Professor\, Institute of Physics\, Academia Sinica\, Taiwan\nNanoscale structures\, such as electrode nanogap and nanofluidic confinement\, given its simplicity in geometry\, nevertheless offer unique platforms for the study of molecular and cellular biophysics\, with the potential for bioanalytical applications [1-5]. For low-copy number molecule detection\, we developed two versatile analysis platforms for the manipulation and sensing of biomolecules. In the first scenario\, sub-30 nm insulating nanoconstriction operating under the balance of negative dielectrophoresis (DEP)\, electrophoresis\, and electroosmosis\, serves as molecular dam\, enables protein enrichment of 105-fold in 20 seconds [6]\, which can then be coupled with graphene-modified electrode for sensitive electrochemical detection of proteins and peptides [7\, 8]. In the second scenario\, an array of Ti/Au electrode nanogaps with sub-10 nm gap size function as templates for AC DEP-based molecular trapping\, plasmonic hot spots for surface-enhanced Raman spectroscopy as well as electronic measurements\, and fluorescence imaging. During molecular trapping\, recorded Raman spectra\, conductance measurements across the nanogaps and fluorescence imaging show unambiguously the presence and characteristics of the trapped molecules\, demonstrated with R-phycoerythrin [9] and Alzheimer’s disease associated biomarkers A-beta 40 and 42 peptides. Our platforms open up simple ways for multifunctional low-concentration heterogeneous sample analysis.\n[1] L.J. Guo\, X. Cheng\, C.F. Chou\, Nano Lett. 4\, 69 (2004).\n[2] J. Gu\, R. Gupta\, C.F. Chou\, Q. Wei\, F. Zenhausern\, Lab Chip 7\, 1198 (2007).\n[3] J.W. Yeh\, A. Taloni\, Y.L. Chen\, C.F. Chou\, Nano Lett. 12\, 1597 (2012). [Research Highlights\, Nature 482\, 442 (2012)].\n[4] J.P. Shen and C.F. Chou\, Biomicrofluidics 8\, 041103 (2014).\n[5] K.K. Sriram\, J.W. Yeh\, Y.L. Lin\, Y.R. Chang\, C.F. Chou\, Nucleic Acids Res. 42\, e85 (2014).\n[6] K.T. Liao\, C.F. Chou\, J. Am. Chem. Soc. 134\, 8742 (2012). [JACS Spotlights: JACS 134\, 10307 (2012)]\n[7] B. Sanghavi\, W. Varhue\, J. Chávez\, C.F. Chou\, N. S. Swami\, Anal. Chem. 86\, 4120 (2014\,).\n[8] B.J. Sanghavi\, W. Varhue\, A. Rohani\, K.T. Liao\, L. Bazydlo\, C.F. Chou\, N. S. Swami\, Lab Chip 2015\, DOI: 10.1039/c5lc00840a.\n[9] L. Lesser-Rojas\, P. Ebbinghaus\, G. Vasan\, M.L. Chu\, A. Erbe\, C.F. Chou\, Nano Lett. 14\, 2242 (2014).
URL:https://ibecbarcelona.eu/event/ibec-seminar-chia-fu-chou-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151127T120000
DTEND;TZID=UTC:20151127T130000
DTSTAMP:20260404T191547
CREATED:20151106T080207Z
LAST-MODIFIED:20151123T092950Z
UID:19561-1448625600-1448629200@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Chia-Fu Chou
DESCRIPTION:Low-copy number biomolecular analysis with dielectrophoretic enrichment /trapping via molecular dam and plasmonic electrode nanogaps\nChia-Fu Chou\, Senior Research Fellow/Professor\, Institute of Physics\, Academia Sinica\, Taiwan\nNanoscale structures\, such as electrode nanogap and nanofluidic confinement\, given its simplicity in geometry\, nevertheless offer unique platforms for the study of molecular and cellular biophysics\, with the potential for bioanalytical applications [1-5]. For low-copy number molecule detection\, we developed two versatile analysis platforms for the manipulation and sensing of biomolecules. In the first scenario\, sub-30 nm insulating nanoconstriction operating under the balance of negative dielectrophoresis (DEP)\, electrophoresis\, and electroosmosis\, serves as molecular dam\, enables protein enrichment of 105-fold in 20 seconds [6]\, which can then be coupled with graphene-modified electrode for sensitive electrochemical detection of proteins and peptides [7\, 8]. In the second scenario\, an array of Ti/Au electrode nanogaps with sub-10 nm gap size function as templates for AC DEP-based molecular trapping\, plasmonic hot spots for surface-enhanced Raman spectroscopy as well as electronic measurements\, and fluorescence imaging. During molecular trapping\, recorded Raman spectra\, conductance measurements across the nanogaps and fluorescence imaging show unambiguously the presence and characteristics of the trapped molecules\, demonstrated with R-phycoerythrin [9] and Alzheimer’s disease associated biomarkers A-beta 40 and 42 peptides. Our platforms open up simple ways for multifunctional low-concentration heterogeneous sample analysis.\n[1] L.J. Guo\, X. Cheng\, C.F. Chou\, Nano Lett. 4\, 69 (2004).\n[2] J. Gu\, R. Gupta\, C.F. Chou\, Q. Wei\, F. Zenhausern\, Lab Chip 7\, 1198 (2007).\n[3] J.W. Yeh\, A. Taloni\, Y.L. Chen\, C.F. Chou\, Nano Lett. 12\, 1597 (2012). [Research Highlights\, Nature 482\, 442 (2012)].\n[4] J.P. Shen and C.F. Chou\, Biomicrofluidics 8\, 041103 (2014).\n[5] K.K. Sriram\, J.W. Yeh\, Y.L. Lin\, Y.R. Chang\, C.F. Chou\, Nucleic Acids Res. 42\, e85 (2014).\n[6] K.T. Liao\, C.F. Chou\, J. Am. Chem. Soc. 134\, 8742 (2012). [JACS Spotlights: JACS 134\, 10307 (2012)]\n[7] B. Sanghavi\, W. Varhue\, J. Chávez\, C.F. Chou\, N. S. Swami\, Anal. Chem. 86\, 4120 (2014\,).\n[8] B.J. Sanghavi\, W. Varhue\, A. Rohani\, K.T. Liao\, L. Bazydlo\, C.F. Chou\, N. S. Swami\, Lab Chip 2015\, DOI: 10.1039/c5lc00840a.\n[9] L. Lesser-Rojas\, P. Ebbinghaus\, G. Vasan\, M.L. Chu\, A. Erbe\, C.F. Chou\, Nano Lett. 14\, 2242 (2014).
URL:https://ibecbarcelona.eu/event/ibec-seminar-chia-fu-chou/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151203T100000
DTEND;TZID=UTC:20151203T230000
DTSTAMP:20260404T191547
CREATED:20151126T075237Z
LAST-MODIFIED:20151126T075237Z
UID:19883-1449136800-1449183600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Alexandre Perera
DESCRIPTION:Data evaluation in Metabolomics\, preprocessing\, analysis and biological enrichment\nAlexandre Perera\, B2SLab Bioinformatics and Biomedical Signals Laboratory\, UPC\nThis talk will depict the last efforts by the B2Slab on the processing of LC/MS metabolomics data. First\, we describe a new method to solve known issues of peak intensity drifts in metabolomics datasets. This method is based on a two-step approach in which intensity drift effects are modelled through Common Principal Components Analysis and removed from original data. Secondly\, we propose a new processing workflow based on peak aggregation techniques. We show that the predictive power of the data is improved when the peak aggregation techniques are used regardless of the prediction technique used. We also describe a new computational tool to perform end-to-end analysis (MAIT) coded under the R environment. MAIT package is highly modular and programmable which allow the users to perform their personalised LC/MS data analysis workflows. MAIT is able to take the raw output files from an LC/MS instrument as an input and\, by applying a set of functions\, provide a metabolite identification table as a result. Finally\, we introduce FELLA\, a set of algorithms for biological interpretation of metabolomic data in light of existing knowledge extracted from annotation databases\, extending the concept of pathway enrichment into metabolomics. FELLA is based on diffusion process on a graph representation of a knowledge base\, while statistically testing solutions against analytical null diffusion distributions. Results are provided comparing the tools with sate of the art methods on different network types.\n\n[1] Fernández-Albert F.\, Llorach R.\, Andrés-Lacueva C.\, Perera-Lluna A. Peak Aggregation as an Innovative Strategy for Improving the Predictive Power of LC-MS Metabolomic Profiles. Analytical Chemistry 86 (5)\, 2320–5 (2014).\n[2] Fernández-Albert F.\, Llorach R.\, Andrés-Lacueva C.\, Perera-Lluna A. An R package to analyse LC/MS metabolomic data: MAIT (Metabolite Automatic Identification Toolkit). Bioinformatics 30(13):1937-9 (2014).\n[3] Fernández-Albert F.\, Llorach R.\, Garcia-Aloy M\, Ziyatdinov A\, Andrés-Lacueva C.\, Perera-Lluna A. Intensity drift removal in LC/MS metabolomics by Common Variance Compensation. Bioinformatics 30(20)\, 2898-2905 (2014)\n[4] Domingo-Almenara\, X.\, Perera\, A.\, Ramírez\, N.\, Cañellas\, N.\, Correig\, X.\, & Brezmes\, J. (2015). Compound identification in gas chromatography/mass spectrometry-based metabolomics by blind source separation. Journal of Chromatography A\, 1409\, 226-233\n[5] Ziyatdinov\, A.; Marco\, S.; Chaudry\, A.; Persaud\, K.; Caminal\, P.; Perera\, A. Drift compensation of gas sensor array data by common principal component analysis. Sensors and Actuators B: Chemical 146\, 460-5 (2010).
URL:https://ibecbarcelona.eu/event/ibec-seminar-alexandre-perera/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151203T100000
DTEND;TZID=UTC:20151203T230000
DTSTAMP:20260404T191547
CREATED:20151126T075237Z
LAST-MODIFIED:20151126T075237Z
UID:95882-1449136800-1449183600@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Alexandre Perera
DESCRIPTION:Data evaluation in Metabolomics\, preprocessing\, analysis and biological enrichment\nAlexandre Perera\, B2SLab Bioinformatics and Biomedical Signals Laboratory\, UPC\nThis talk will depict the last efforts by the B2Slab on the processing of LC/MS metabolomics data. First\, we describe a new method to solve known issues of peak intensity drifts in metabolomics datasets. This method is based on a two-step approach in which intensity drift effects are modelled through Common Principal Components Analysis and removed from original data. Secondly\, we propose a new processing workflow based on peak aggregation techniques. We show that the predictive power of the data is improved when the peak aggregation techniques are used regardless of the prediction technique used. We also describe a new computational tool to perform end-to-end analysis (MAIT) coded under the R environment. MAIT package is highly modular and programmable which allow the users to perform their personalised LC/MS data analysis workflows. MAIT is able to take the raw output files from an LC/MS instrument as an input and\, by applying a set of functions\, provide a metabolite identification table as a result. Finally\, we introduce FELLA\, a set of algorithms for biological interpretation of metabolomic data in light of existing knowledge extracted from annotation databases\, extending the concept of pathway enrichment into metabolomics. FELLA is based on diffusion process on a graph representation of a knowledge base\, while statistically testing solutions against analytical null diffusion distributions. Results are provided comparing the tools with sate of the art methods on different network types.\n\n[1] Fernández-Albert F.\, Llorach R.\, Andrés-Lacueva C.\, Perera-Lluna A. Peak Aggregation as an Innovative Strategy for Improving the Predictive Power of LC-MS Metabolomic Profiles. Analytical Chemistry 86 (5)\, 2320–5 (2014).\n[2] Fernández-Albert F.\, Llorach R.\, Andrés-Lacueva C.\, Perera-Lluna A. An R package to analyse LC/MS metabolomic data: MAIT (Metabolite Automatic Identification Toolkit). Bioinformatics 30(13):1937-9 (2014).\n[3] Fernández-Albert F.\, Llorach R.\, Garcia-Aloy M\, Ziyatdinov A\, Andrés-Lacueva C.\, Perera-Lluna A. Intensity drift removal in LC/MS metabolomics by Common Variance Compensation. Bioinformatics 30(20)\, 2898-2905 (2014)\n[4] Domingo-Almenara\, X.\, Perera\, A.\, Ramírez\, N.\, Cañellas\, N.\, Correig\, X.\, & Brezmes\, J. (2015). Compound identification in gas chromatography/mass spectrometry-based metabolomics by blind source separation. Journal of Chromatography A\, 1409\, 226-233\n[5] Ziyatdinov\, A.; Marco\, S.; Chaudry\, A.; Persaud\, K.; Caminal\, P.; Perera\, A. Drift compensation of gas sensor array data by common principal component analysis. Sensors and Actuators B: Chemical 146\, 460-5 (2010).
URL:https://ibecbarcelona.eu/event/ibec-seminar-alexandre-perera-2/
CATEGORIES:IBEC Seminar
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DTSTART;TZID=UTC:20151211T120000
DTEND;TZID=UTC:20151211T130000
DTSTAMP:20260404T191547
CREATED:20151029T093053Z
LAST-MODIFIED:20151029T093053Z
UID:95876-1449835200-1449838800@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Roberto de la Rica
DESCRIPTION:Bioplasmonics in nanofabrication\, biosensing and nanomedicine\nRoberto de la Rica\, University of Strathclyde\nIn this talk I will show several bio-enabled and bio-inspired approaches for growing and assembling plasmonic nanoparticles and their applications in biosensing and nanomedicine. I will explain how to use enzyme nanoreactors to guide the growth of plasmonic nanoparticles with different morphologies\, an approach that can be used to design ultrasensitive biosensors and new nanolithography tools. [1-4] \nI will also show a method for assembling nanoparticle superstructures with crystallographically aligned building blocks5 that possess improved plasmonic properties derived from their 3D organization. When assembled on magnetic supports these plasmonic superstructures can be used for as multifunctional intracellular sensors as well as for heat generation in thermal therapy. \n[1] Nat. Mater. 11\, 604 (2012);[2] Nat. Nanotechnol. 7\, 821\, 2012; [3] Nat. Protocol. 8\, 1759 (2013); [4] Adv. Funct. Mater. 24\, 3692 (2104); [5] JACS 133\, 2875 (2011)
URL:https://ibecbarcelona.eu/event/ibec-seminar-roberto-de-la-rica-2/
CATEGORIES:IBEC Seminar
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=UTC:20151211T120000
DTEND;TZID=UTC:20151211T130000
DTSTAMP:20260404T191547
CREATED:20151029T093053Z
LAST-MODIFIED:20151029T093053Z
UID:19457-1449835200-1449838800@ibecbarcelona.eu
SUMMARY:IBEC Seminar: Roberto de la Rica
DESCRIPTION:Bioplasmonics in nanofabrication\, biosensing and nanomedicine\nRoberto de la Rica\, University of Strathclyde\nIn this talk I will show several bio-enabled and bio-inspired approaches for growing and assembling plasmonic nanoparticles and their applications in biosensing and nanomedicine. I will explain how to use enzyme nanoreactors to guide the growth of plasmonic nanoparticles with different morphologies\, an approach that can be used to design ultrasensitive biosensors and new nanolithography tools. [1-4] \nI will also show a method for assembling nanoparticle superstructures with crystallographically aligned building blocks5 that possess improved plasmonic properties derived from their 3D organization. When assembled on magnetic supports these plasmonic superstructures can be used for as multifunctional intracellular sensors as well as for heat generation in thermal therapy. \n[1] Nat. Mater. 11\, 604 (2012);[2] Nat. Nanotechnol. 7\, 821\, 2012; [3] Nat. Protocol. 8\, 1759 (2013); [4] Adv. Funct. Mater. 24\, 3692 (2104); [5] JACS 133\, 2875 (2011)
URL:https://ibecbarcelona.eu/event/ibec-seminar-roberto-de-la-rica/
CATEGORIES:IBEC Seminar
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