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Papers by Yang Fann
Proceedings. 17th IEEE Symposium on Computer-Based Medical Systems, 2004
Clinical research approval processes are complex since they involve human subject welfare as well... more Clinical research approval processes are complex since they involve human subject welfare as well as regulatory and ethical concerns. Typically, clinical research institutions have an elaborate established review process; the labor-intensive and time-consuming nature of this process can result in approval delays thus significantly impacting the biomedical research. This paper describes the development of a Web-based information system designed to make the process of protocol approval more efficient, organized, and accurate. The system enables the principal investigators (Pis) to initiate, track and manage clinical studies, monitor review processes, view status changes, and quickly respond to requests for additional information. In addition, it allows the protocol coordinators (PCs) to manage the entire Institutional Review Board (IRB) approval process.
Proceedings. 17th IEEE Symposium on Computer-Based Medical Systems, 2004
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium, 2007
Clinical studies are very dynamic in nature. This poses a great challenge in building an adaptabl... more Clinical studies are very dynamic in nature. This poses a great challenge in building an adaptable informatics platform to support evolving clinical research needs. Center for Information Technology (CIT) at the National Institutes of Health (NIH), in collaboration with the National Institute of Neurological Disorders and Stroke (NINDS), has developed a web-based Clinical Study Information System (CSIS) to support efficient management of clinical data that would improve the quality and timeliness of conducting clinical research. CSIS allows Principal Investigators(PI) to design new electronic Case Report Forms(eCRF) using a Form Designer. A patient registry module enables the study coordinators to recruit and screen new subjects. Most importantly, an ad-hoc query engine allows investigators to stratify patient groups and export data by specifying arbitrarily complex criteria without having to learn database syntax.
Lecture Notes in Electrical Engineering, 2015
Stem Cell Research, 2014
Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem ... more Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem cells (hiPSCs) to human embryonic stem cells (hESCs) and yet the picture remains unclear. To address this, we derived a population of neural precursor cells (NPCs) from the H1 (WA01) hESC line and generated isogenic iPSC lines by reprogramming. The gene expression and methylation profile of three lines were compared to the parental line and intermediate NPC population. We found no gene probe with expression that differed significantly between hESC and iPSC samples under undifferentiated or differentiated conditions. Analysis of the global methylation pattern also showed no significant difference between the two PSC populations. Both undifferentiated populations were distinctly different from the intermediate NPC population in both gene expression and methylation profiles. One point to note is that H1 is a male line and so extrapolation to female lines should be cautioned. However, these data confirm our previous findings that there are no significant differences between hESCs and hiPSCs at the gene expression or methylation level.
Pure and Applied Chemistry, 2000
Journal of the American Chemical Society, 1993
Free Radical Biology and Medicine, 1999
Free Radical Biology and Medicine, 2003
Chemical Research in Toxicology, 1999
Biochemistry, 1995
We have studied the structure of the CuB site in the binuclear heme-copper center of the fully ox... more We have studied the structure of the CuB site in the binuclear heme-copper center of the fully oxidized form of the quinol-oxidizing cytochrome aa3-600 from Bacillus subtilis by EXAFS and ENDOR spectroscopy. This enzyme is member of the large superfamily of heme-copper respiratory oxidases, which catalyze the reduction of dioxygen to water and link it to translocation of protons across the bacterial or mitochondrial membrane. The EXAFS of the CuB site strongly suggests tetragonal coordination by two or three histidines with one or two O/N donor ligands. There are some indications that a Cl- ion might fractionally occupy substitution-labile sites, although the majority of enzyme molecules did not contain any heavy (second row) scatters, indicative of a Cl- (or S) bridge between the heme iron and CuB [cf. Powers, L., et al. (1994) Biochim. Biophys. Acta 1183, 504-512]. Proton ENDOR spectroscopy of the CuB site in 1H2O and 2H2O media showed evidence of an oxygenous copper ligand with an exchangeable proton. 14N ENDOR revealed three inequivalent nitrogenous ligands with hyperfine coupling constants consistent with histidines. Together, these results strongly suggest that the fully oxidized enzyme has a low-symmetry, tetragonal CuB site with three histidine nitrogens and one oxygen as ligands, the latter with an exchangeable proton(s). The identity and assignment of these ligands are discussed.
Biochemical Journal, 2002
The American Journal of Human Genetics, 2009
Proceedings. 17th IEEE Symposium on Computer-Based Medical Systems, 2004
Clinical research approval processes are complex since they involve human subject welfare as well... more Clinical research approval processes are complex since they involve human subject welfare as well as regulatory and ethical concerns. Typically, clinical research institutions have an elaborate established review process; the labor-intensive and time-consuming nature of this process can result in approval delays thus significantly impacting the biomedical research. This paper describes the development of a Web-based information system designed to make the process of protocol approval more efficient, organized, and accurate. The system enables the principal investigators (Pis) to initiate, track and manage clinical studies, monitor review processes, view status changes, and quickly respond to requests for additional information. In addition, it allows the protocol coordinators (PCs) to manage the entire Institutional Review Board (IRB) approval process.
Proceedings. 17th IEEE Symposium on Computer-Based Medical Systems, 2004
AMIA ... Annual Symposium proceedings / AMIA Symposium. AMIA Symposium, 2007
Clinical studies are very dynamic in nature. This poses a great challenge in building an adaptabl... more Clinical studies are very dynamic in nature. This poses a great challenge in building an adaptable informatics platform to support evolving clinical research needs. Center for Information Technology (CIT) at the National Institutes of Health (NIH), in collaboration with the National Institute of Neurological Disorders and Stroke (NINDS), has developed a web-based Clinical Study Information System (CSIS) to support efficient management of clinical data that would improve the quality and timeliness of conducting clinical research. CSIS allows Principal Investigators(PI) to design new electronic Case Report Forms(eCRF) using a Form Designer. A patient registry module enables the study coordinators to recruit and screen new subjects. Most importantly, an ad-hoc query engine allows investigators to stratify patient groups and export data by specifying arbitrarily complex criteria without having to learn database syntax.
Lecture Notes in Electrical Engineering, 2015
Stem Cell Research, 2014
Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem ... more Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem cells (hiPSCs) to human embryonic stem cells (hESCs) and yet the picture remains unclear. To address this, we derived a population of neural precursor cells (NPCs) from the H1 (WA01) hESC line and generated isogenic iPSC lines by reprogramming. The gene expression and methylation profile of three lines were compared to the parental line and intermediate NPC population. We found no gene probe with expression that differed significantly between hESC and iPSC samples under undifferentiated or differentiated conditions. Analysis of the global methylation pattern also showed no significant difference between the two PSC populations. Both undifferentiated populations were distinctly different from the intermediate NPC population in both gene expression and methylation profiles. One point to note is that H1 is a male line and so extrapolation to female lines should be cautioned. However, these data confirm our previous findings that there are no significant differences between hESCs and hiPSCs at the gene expression or methylation level.
Pure and Applied Chemistry, 2000
Journal of the American Chemical Society, 1993
Free Radical Biology and Medicine, 1999
Free Radical Biology and Medicine, 2003
Chemical Research in Toxicology, 1999
Biochemistry, 1995
We have studied the structure of the CuB site in the binuclear heme-copper center of the fully ox... more We have studied the structure of the CuB site in the binuclear heme-copper center of the fully oxidized form of the quinol-oxidizing cytochrome aa3-600 from Bacillus subtilis by EXAFS and ENDOR spectroscopy. This enzyme is member of the large superfamily of heme-copper respiratory oxidases, which catalyze the reduction of dioxygen to water and link it to translocation of protons across the bacterial or mitochondrial membrane. The EXAFS of the CuB site strongly suggests tetragonal coordination by two or three histidines with one or two O/N donor ligands. There are some indications that a Cl- ion might fractionally occupy substitution-labile sites, although the majority of enzyme molecules did not contain any heavy (second row) scatters, indicative of a Cl- (or S) bridge between the heme iron and CuB [cf. Powers, L., et al. (1994) Biochim. Biophys. Acta 1183, 504-512]. Proton ENDOR spectroscopy of the CuB site in 1H2O and 2H2O media showed evidence of an oxygenous copper ligand with an exchangeable proton. 14N ENDOR revealed three inequivalent nitrogenous ligands with hyperfine coupling constants consistent with histidines. Together, these results strongly suggest that the fully oxidized enzyme has a low-symmetry, tetragonal CuB site with three histidine nitrogens and one oxygen as ligands, the latter with an exchangeable proton(s). The identity and assignment of these ligands are discussed.
Biochemical Journal, 2002
The American Journal of Human Genetics, 2009