Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479823
F. Latifoğlu, Dilek Sönmezer, K. Deniz
Mitosis number of tumor cells is an important factor for pathological examinations. Therefore, to get diagnostic information about tumor cells calculating the number of mitosis cells, first of all, it is photographed tumor cells using light microscopy. Number of mitotic cells determined using image processing methods. Aim of the feature extraction for mitosis cell, entropy value, maximum and minimum axis length, area of convex, pixel values, equivdiameter length, area, overlap area parameters are used to define mitosis cells and number of mitosis cells calculated automatically. As a results, for the identification of mitosis cells an algorithm was constituted taking in the consideration mitosis phases using features above mentioned and number of mitosis cells was determined directly.
{"title":"Determination of mitosis cells number using image processing methods","authors":"F. Latifoğlu, Dilek Sönmezer, K. Deniz","doi":"10.1109/BIYOMUT.2010.5479823","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479823","url":null,"abstract":"Mitosis number of tumor cells is an important factor for pathological examinations. Therefore, to get diagnostic information about tumor cells calculating the number of mitosis cells, first of all, it is photographed tumor cells using light microscopy. Number of mitotic cells determined using image processing methods. Aim of the feature extraction for mitosis cell, entropy value, maximum and minimum axis length, area of convex, pixel values, equivdiameter length, area, overlap area parameters are used to define mitosis cells and number of mitosis cells calculated automatically. As a results, for the identification of mitosis cells an algorithm was constituted taking in the consideration mitosis phases using features above mentioned and number of mitosis cells was determined directly.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"2 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130583206","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479869
Murat Bicakçi, A. Cüneyt Taş
Brushite (CaHPO4·2H2O, dicalcium phosphate dihydrate) is known to be the precursor to the mineralized portion (HA: calcium hydroxyapatite, Ca10(PO4)6(OH)2) of hard tissues in the biological crystallization processes. In other words, it can be readily asserted that there must be a point of equilibrium (within the three-dimensional pH, temperature and concentration space) between brushite and hydroxyapatite phases in physiological solutions. While brushite is acidic, hydroxyapatite is a basic phase. It is also known that mixtures which contain these phases, in appropriate mixing ratios, could undergo a neutralization reaction in aqueous solutions at the human body temperature of 36.5°C. Based on these facts, it would be possible to produce bone cements, for orthopedic applications, from the biphasic powder mixtures of brushite and apatite. The feasability of synthesizing these biphasic powder mixtures in variable phase ratios have been tested, for the first time in this study, by using a single-step chemical precipitation process. This paper explains this novel process and analyzes the X-ray diffraction and infrared spectroscopy data obtained from these powders.
{"title":"Preparation of biphasic brushite-apatite orthopedic cement powders by chemical precipitation","authors":"Murat Bicakçi, A. Cüneyt Taş","doi":"10.1109/BIYOMUT.2010.5479869","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479869","url":null,"abstract":"Brushite (CaHPO4·2H2O, dicalcium phosphate dihydrate) is known to be the precursor to the mineralized portion (HA: calcium hydroxyapatite, Ca10(PO4)6(OH)2) of hard tissues in the biological crystallization processes. In other words, it can be readily asserted that there must be a point of equilibrium (within the three-dimensional pH, temperature and concentration space) between brushite and hydroxyapatite phases in physiological solutions. While brushite is acidic, hydroxyapatite is a basic phase. It is also known that mixtures which contain these phases, in appropriate mixing ratios, could undergo a neutralization reaction in aqueous solutions at the human body temperature of 36.5°C. Based on these facts, it would be possible to produce bone cements, for orthopedic applications, from the biphasic powder mixtures of brushite and apatite. The feasability of synthesizing these biphasic powder mixtures in variable phase ratios have been tested, for the first time in this study, by using a single-step chemical precipitation process. This paper explains this novel process and analyzes the X-ray diffraction and infrared spectroscopy data obtained from these powders.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"46 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134550312","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479762
O. T. Altinoz, A. Yilmaz
In this study, the gait phase determination from accelerometer data is discussed for semi-active leg prosthesis for microcontroller implementation. The gait phase prediction is aimed by using knee angle obtained from the image of walking subject and accelerometer data recorded synchronously in the laboratory. For the phase determination of a gait, an artificial neural network is used because of its adaptive features for variable path and user. The accelerometer and knee angle data are prepared for the training and the testing set of the artificial neural network. The applicable network structure to be used in microcontroller based artificial knee is investigated and their performances are tested in terms of the the number of neurons and data window size.
{"title":"Prediction of knee angle from accelerometer data for microcontroller implementation of semi-active knee prosthesis","authors":"O. T. Altinoz, A. Yilmaz","doi":"10.1109/BIYOMUT.2010.5479762","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479762","url":null,"abstract":"In this study, the gait phase determination from accelerometer data is discussed for semi-active leg prosthesis for microcontroller implementation. The gait phase prediction is aimed by using knee angle obtained from the image of walking subject and accelerometer data recorded synchronously in the laboratory. For the phase determination of a gait, an artificial neural network is used because of its adaptive features for variable path and user. The accelerometer and knee angle data are prepared for the training and the testing set of the artificial neural network. The applicable network structure to be used in microcontroller based artificial knee is investigated and their performances are tested in terms of the the number of neurons and data window size.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131123571","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479874
Hakan Kaykisizh, Vahit Çiftçi
Special design flow calibrators are used for calibration of mechanical ventilators and lung simulators. It is necessary that these calibrators are connected to traceability chain via national standards. Mathematical models explaining the respiratory mechanics should be analyzed carefully before designing such a reference system for the purpose of calibration of flow calibrators. The purpose is to obtain a reference flow rate that shows a sinusoidal character. This paper explains the modeling studies and parameter considerations for design of the national reference standard at TUBITAK UME.
{"title":"Reference standard design for flow calibration of mechanical ventilator and lung simulator calibrators","authors":"Hakan Kaykisizh, Vahit Çiftçi","doi":"10.1109/BIYOMUT.2010.5479874","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479874","url":null,"abstract":"Special design flow calibrators are used for calibration of mechanical ventilators and lung simulators. It is necessary that these calibrators are connected to traceability chain via national standards. Mathematical models explaining the respiratory mechanics should be analyzed carefully before designing such a reference system for the purpose of calibration of flow calibrators. The purpose is to obtain a reference flow rate that shows a sinusoidal character. This paper explains the modeling studies and parameter considerations for design of the national reference standard at TUBITAK UME.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"7 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134394418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479802
Mehmet Kocatürk, H. Gülçür, R. Canbeyli
Extracellular signals obtained from multiple cells via microelectrodes implanted into the primary motor cortex (M1) provide significant information in revealing the coded information concerning this region of the brain. When adequately deciphered, these signals can be used to control a robot or a computer in a meaningful way. Some studies have already been done and/or under development in this regard. In terms of performance, these works however, are still in their early stages. In particular, the deciphering algorithms are incomplete and inadequate. Therefore developments of successful, fast and efficient deciphering algorithms are needed. We are working towards this goal using neural recordings obtained from micro-electrodes placed into the front leg region of the motor cortex area.
{"title":"Chronic recordings from rat motor cortex for developing neural prostheses","authors":"Mehmet Kocatürk, H. Gülçür, R. Canbeyli","doi":"10.1109/BIYOMUT.2010.5479802","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479802","url":null,"abstract":"Extracellular signals obtained from multiple cells via microelectrodes implanted into the primary motor cortex (M1) provide significant information in revealing the coded information concerning this region of the brain. When adequately deciphered, these signals can be used to control a robot or a computer in a meaningful way. Some studies have already been done and/or under development in this regard. In terms of performance, these works however, are still in their early stages. In particular, the deciphering algorithms are incomplete and inadequate. Therefore developments of successful, fast and efficient deciphering algorithms are needed. We are working towards this goal using neural recordings obtained from micro-electrodes placed into the front leg region of the motor cortex area.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"26 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114969187","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479838
I. Karaaslan, F. Bayrakçeken
BBQ (4,4'''-Bis-(2-butyloctyloxy)-p-quaterphenyl) is one of the laser dyes, which appears as white, crystalline solid. A dye laser is a laser which uses an organic dye as the lasing medium, usually as a liquid solution. Some of the dyes are Rhodamine 6G, coumarin, stilbene, umbelliferone, tetracene and others. In this work, BBQ in cyclohexane is investigated in the room temperature spectroscopically. The used spectroscopic methods are Raman, FTIR and UV-Visible. The structure properties are identified with the spectroscopic methods. A dye can usually be used for a much wider range of wavelengths. The wide bandwidth makes them particularly suitable for tunable lasers and pulsed lasers. The solvent chosen cyclohexane is a cycloalkane.
{"title":"Structure elucidation 4,4‴-Bis-(2-butyloctyloxy)-p-quaterphenyl in cyclohexane by the joint application of FTIR, Raman, UV and Visible spectroscopy","authors":"I. Karaaslan, F. Bayrakçeken","doi":"10.1109/BIYOMUT.2010.5479838","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479838","url":null,"abstract":"BBQ (4,4'''-Bis-(2-butyloctyloxy)-p-quaterphenyl) is one of the laser dyes, which appears as white, crystalline solid. A dye laser is a laser which uses an organic dye as the lasing medium, usually as a liquid solution. Some of the dyes are Rhodamine 6G, coumarin, stilbene, umbelliferone, tetracene and others. In this work, BBQ in cyclohexane is investigated in the room temperature spectroscopically. The used spectroscopic methods are Raman, FTIR and UV-Visible. The structure properties are identified with the spectroscopic methods. A dye can usually be used for a much wider range of wavelengths. The wide bandwidth makes them particularly suitable for tunable lasers and pulsed lasers. The solvent chosen cyclohexane is a cycloalkane.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"24 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131874390","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479757
I. B. Parlak, S. Egi, A. Ademoglu, Costantino Balestra, P. Germonpré, A. Marroni, S. Aydın
Post decompression records in echocardiography are considered to detect micro bubbles and to survey unexplained decompression sickness which is commonly examined by standardized methods such as dive computers and tables. In this study, existent bubbles are detected on transthoracic echicardiografic frames recorded after recreational diving. Bubble detection is performed by Artificial Neural Networks which are trained using bubbles with different morphologies. We showed that bubbles would be detected on four cardiac chambers without image segmentation.
{"title":"Automatic bubble detection with neural networks on post decompression frames","authors":"I. B. Parlak, S. Egi, A. Ademoglu, Costantino Balestra, P. Germonpré, A. Marroni, S. Aydın","doi":"10.1109/BIYOMUT.2010.5479757","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479757","url":null,"abstract":"Post decompression records in echocardiography are considered to detect micro bubbles and to survey unexplained decompression sickness which is commonly examined by standardized methods such as dive computers and tables. In this study, existent bubbles are detected on transthoracic echicardiografic frames recorded after recreational diving. Bubble detection is performed by Artificial Neural Networks which are trained using bubbles with different morphologies. We showed that bubbles would be detected on four cardiac chambers without image segmentation.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"6 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128521763","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479835
Semra Içer, F. Latifoğlu, Abdulhakim Cockun, S. Uzunoğlu
There are three parts in MRI projections of which are grey matter formed basically by neurons, white matter formed by axon exremities with mylelins, and cerebrospinal fluid. Changes and damages in these regions can cause various diseases. Autism, Parkinsonism, dyslexia, mental disorders, visual and audial loss can be the examples of grey matter diseases. As for the white matter diseases, MS (multiple sclerosis) and demyelinated diseases, minor cardiovascular diseases, neurologic damages, and blindness can be listed. In this study, a method has been proposed for segmentation of gray matter and white matter regions in the sections of the brain. The proposed method was used to determine the areas and calculate gray, matter matter of two hemispheres in terms of proportions of each other also to all the brain.
{"title":"Determining of brain gray and white matter regions in magnetic resonance images","authors":"Semra Içer, F. Latifoğlu, Abdulhakim Cockun, S. Uzunoğlu","doi":"10.1109/BIYOMUT.2010.5479835","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479835","url":null,"abstract":"There are three parts in MRI projections of which are grey matter formed basically by neurons, white matter formed by axon exremities with mylelins, and cerebrospinal fluid. Changes and damages in these regions can cause various diseases. Autism, Parkinsonism, dyslexia, mental disorders, visual and audial loss can be the examples of grey matter diseases. As for the white matter diseases, MS (multiple sclerosis) and demyelinated diseases, minor cardiovascular diseases, neurologic damages, and blindness can be listed. In this study, a method has been proposed for segmentation of gray matter and white matter regions in the sections of the brain. The proposed method was used to determine the areas and calculate gray, matter matter of two hemispheres in terms of proportions of each other also to all the brain.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"97 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125875364","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479737
K. Yıldız, M. Sert
The identification of regulatory elements (motifs) is a challenging task in mollecular biology. An important challenge in this study is to identify regulatory elements (motifs), notably the binding sites in Deocsiribonucleic Acid (DNA) for transcription factors. Based on this motivation we propose a method for motif prediction of mouse and human genes by using Probabilistic Suffix Tree (PST). Experimental results are evaluated comparatively by thirteen distinct motif prediction tools. Our results show that, the proposed method gives a better recognition rate than the compared motif prediction tools, where the recognition rate is nucleotide level sensitivity (nSn).
{"title":"Predicting motifs in human and mouse genes by using Probabilistic Suffix Trees","authors":"K. Yıldız, M. Sert","doi":"10.1109/BIYOMUT.2010.5479737","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479737","url":null,"abstract":"The identification of regulatory elements (motifs) is a challenging task in mollecular biology. An important challenge in this study is to identify regulatory elements (motifs), notably the binding sites in Deocsiribonucleic Acid (DNA) for transcription factors. Based on this motivation we propose a method for motif prediction of mouse and human genes by using Probabilistic Suffix Tree (PST). Experimental results are evaluated comparatively by thirteen distinct motif prediction tools. Our results show that, the proposed method gives a better recognition rate than the compared motif prediction tools, where the recognition rate is nucleotide level sensitivity (nSn).","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"32 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123853333","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2010-04-21DOI: 10.1109/BIYOMUT.2010.5479871
Ozge Hindistan, I. Mert, Selen Mandel, A. Tas
Brushite (CaHPO4·2H2O, dicalcium phosphate dihydrate) is an important component of the powders of orthopedic cements. Brushite-containing cements were produced over the last ten years, and could only be submitted to the commercial and clinical use of European orthopedic surgeons in the last five years. Until now, brushite powders could be produced only as thin and long crystals with lenghts over the range of 70 to 100 microns, and the water-lily-shaped novel crystals presented here cannot be obtained yet. The synthesis procedure which allowed the production of this novel morphology is presented in this study.
{"title":"A novel particle morphology for the brushite (CaHPO4·2H2O) powders used in orthopedic cements","authors":"Ozge Hindistan, I. Mert, Selen Mandel, A. Tas","doi":"10.1109/BIYOMUT.2010.5479871","DOIUrl":"https://doi.org/10.1109/BIYOMUT.2010.5479871","url":null,"abstract":"Brushite (CaHPO4·2H2O, dicalcium phosphate dihydrate) is an important component of the powders of orthopedic cements. Brushite-containing cements were produced over the last ten years, and could only be submitted to the commercial and clinical use of European orthopedic surgeons in the last five years. Until now, brushite powders could be produced only as thin and long crystals with lenghts over the range of 70 to 100 microns, and the water-lily-shaped novel crystals presented here cannot be obtained yet. The synthesis procedure which allowed the production of this novel morphology is presented in this study.","PeriodicalId":180275,"journal":{"name":"2010 15th National Biomedical Engineering Meeting","volume":"21 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124789787","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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