Please wait, while we are loading the content...
| Content Provider | IEEE Xplore Digital Library |
|---|---|
| Author | Seungmook Lee Min-Seok Kwon Hyoung-Joo Lee Young-Ki Paik Lee, J.K. Taesung Park |
| Copyright Year | 2010 |
| Description | Author affiliation: Department of Statistics, Seoul National University, Korea (Seungmook Lee; Taesung Park) || Department of Public Health Sciences, Division of Biostatistics, University of Virginia School of Medicine, USA (Lee, J.K.) || Department of Biochemistry, Yonsei Proteome Research Center and Biomedical Proteome Research Center, Yonsei University, Korea (Hyoung-Joo Lee; Young-Ki Paik) || Interdisciplinary program in Bioinformatics, Seoul National University, Korea (Min-Seok Kwon) |
| Abstract | MS/MS experiments generate hundreds to tens of thousands of fragment ion spectra during the experiment. In the peptide identification, MS/MS spectra are often identified by database searching algorithms such as SEQUEST and Mascot. Most database searching algorithms calculate score functions to compare the experimental MS/MS spectra with theoretical MS/MS spectra of certain peptides derived from protein sequence databases. However, these indirect methods are vulnerable to potential errors. Thus, some spectra may not be assigned to peptides. To overcome these limitations, we propose a novel algorithm called Finding Identical Spectra for Homogenous peptide (FISH) by using two-stage clustering algorithm. Our proposed FISH algorithm can cluster spectra from the same peptide as a group based on the direct comparison. That is, through all possible pair-wise comparisons, our FISH method provides a set of spectra from the same peptide. To investigate the efficiency of our proposed method, we performed Nano-LC-MS/MS experiment for human tissue samples. Also, we conducted the simulation study to compare the performance of our proposed method with other database searching methods. Our simulation study showed that FISH yielded higher sensitivity than the other methods. |
| Starting Page | 73 |
| Ending Page | 76 |
| File Size | 538988 |
| Page Count | 4 |
| File Format | |
| ISBN | 9781424483037 |
| e-ISBN | 9781424483044 |
| DOI | 10.1109/BIBMW.2010.5703776 |
| Language | English |
| Publisher | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Publisher Date | 2010-12-18 |
| Publisher Place | China |
| Access Restriction | Subscribed |
| Rights Holder | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Subject Keyword | Proteins direct comparison Correlation component Databases Peptides Proteomics Ions hierarchical clustering peptide identification moving average Marine animals |
| Content Type | Text |
| Resource Type | Article |
National Digital Library of India (NDLI) is a virtual repository of learning resources which is not just a repository with search/browse facilities but provides a host of services for the learner community. It is sponsored and mentored by Ministry of Education, Government of India, through its National Mission on Education through Information and Communication Technology (NMEICT). Filtered and federated searching is employed to facilitate focused searching so that learners can find the right resource with least effort and in minimum time. NDLI provides user group-specific services such as Examination Preparatory for School and College students and job aspirants. Services for Researchers and general learners are also provided. NDLI is designed to hold content of any language and provides interface support for 10 most widely used Indian languages. It is built to provide support for all academic levels including researchers and life-long learners, all disciplines, all popular forms of access devices and differently-abled learners. It is designed to enable people to learn and prepare from best practices from all over the world and to facilitate researchers to perform inter-linked exploration from multiple sources. It is developed, operated and maintained from Indian Institute of Technology Kharagpur.
Learn more about this project from here.
NDLI is a conglomeration of freely available or institutionally contributed or donated or publisher managed contents. Almost all these contents are hosted and accessed from respective sources. The responsibility for authenticity, relevance, completeness, accuracy, reliability and suitability of these contents rests with the respective organization and NDLI has no responsibility or liability for these. Every effort is made to keep the NDLI portal up and running smoothly unless there are some unavoidable technical issues.
Ministry of Education, through its National Mission on Education through Information and Communication Technology (NMEICT), has sponsored and funded the National Digital Library of India (NDLI) project.
| Sl. | Authority | Responsibilities | Communication Details |
|---|---|---|---|
| 1 | Ministry of Education (GoI), Department of Higher Education |
Sanctioning Authority | https://www.education.gov.in/ict-initiatives |
| 2 | Indian Institute of Technology Kharagpur | Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project | https://www.iitkgp.ac.in |
| 3 | National Digital Library of India Office, Indian Institute of Technology Kharagpur | The administrative and infrastructural headquarters of the project | Dr. B. Sutradhar bsutra@ndl.gov.in |
| 4 | Project PI / Joint PI | Principal Investigator and Joint Principal Investigators of the project |
Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon |
| 5 | Website/Portal (Helpdesk) | Queries regarding NDLI and its services | support@ndl.gov.in |
| 6 | Contents and Copyright Issues | Queries related to content curation and copyright issues | content@ndl.gov.in |
| 7 | National Digital Library of India Club (NDLI Club) | Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach | clubsupport@ndl.gov.in |
| 8 | Digital Preservation Centre (DPC) | Assistance with digitizing and archiving copyright-free printed books | dpc@ndl.gov.in |
| 9 | IDR Setup or Support | Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops | idr@ndl.gov.in |
|
Loading...
|