Attention: World-2DPAGE is no longer maintained. Previously submitted data can still be queried at World-2DPAGE Repository.
SWISS-2DPAGE Release 19.0
23 May 2011
Release 19.0 of the SWISS-2DPAGE database of proteins identified on 2-D and 1-D PAGE is now available. The current release contains 1265 entries in 36 reference maps from human (Liver, Plasma, HepG2, Red blood cells, Lymphoma, HepG2 Secreted Proteins, Cerebrospinal Fluid, Macrophage Like Cell Line, Erythroleukemia Cell, Platelet, Kidney, Promyelocytic Leukemia Cells, Colorectal epithelia cells, Colorectal adenocarcinoma cell line (DL-1), Soluble nuclear proteins and matrix from liver tissue, SDS-PAGE and 2-D PAGE of nucleolar proteins from Human HeLa cells, Lymphocyte, from mouse (Liver, Gastrocnemius muscle, Pancreatic islet cells, Brow adipose tissue, White adipose tissue, Soluble nuclear proteins and matrix from liver tissue), Arabidopsis thaliana, Dictyostelium discoideum, Escherichia coli (for 7 pI ranges: 3.5 - 10, 4 - 5, 4.5 - 5.5, 5 - 6, 5.5 - 6.7, 6 - 9, 6 - 11; and DIGE 4.5 - 6.5), Saccharomyces cerevisiae and Staphylococcus aureus.1. Availability of SWISS-2DPAGE
- Through the ExPASy server: the most efficient and user-friendly way to browse interactively in SWISS-2DPAGE, with active links to other databases.
- Downloading SWISS-2DPAGE by FTP
2. SWISS-2DPAGE Documents
- User manual
- Release notes
- FAQ (Frequently Asked Questions about SWISS-2DPAGE)
- Technical information about 2-D PAGE (IPG's, silver staining, protocols, etc)
- Technical information about the Make2D-DB II package
3. Changes made to SWISS-2DPAGE
- SWISS-2DPAGE has a new URL since June 2011: http://world-2dpage.expasy.org/swiss-2dpage. It becomes part of the World-2DPAGE Constellation (http://world-2dpage.expasy.org)
- SWISS-2DPAGE has been updated using the new version of the Make2D-DB II package. Make2D-DB II is a freely available tool to create, convert, interconnect and keep up-to-date proteomics databases; which has been developed by the Swiss Institute of Bioinformatics.
- We are continuing on our efforts in promoting the large proteomics data network, with
high-level annotations, and where SWISS-2DPAGE and remote proteomics
databases are searchable from a single point of access. The
World-2DPAGE Portal is available as a portal to the
accessible proteomics databases, also built with the Make2D-DB package.
World-2DPAGE Portal is accessible at: http://world-2dpage.expasy.org/portal where one can query simultaneously a large set of proteomics databases, in addition to SWISS-2DPAGE. - The World-2DPAGE Repository (http://world-2dpage.expasy.org/repository.) continues to serve the proteomics community in hosting more and more data for publication and review. should you have data you may want to share with fellow scientists.
5. Current content of the SWISS-2DPAGE database
| Master | Creation | Last modified | Detected spots | Identified spots | No. of Entries | |
|---|---|---|---|---|---|---|
| ARABIDOPSIS | Dec-00 | May-03 | 1111 | 79 | 57 | |
| DICTYSLUG | Sep-97 | Sep-97 | 3164 | 25 | 16 | |
| ECOLI | 3.5-10 | Aug-95 | Jan-98 | 2364 | 206 | 180 |
| 4-5 | Jun-99 | Dec-00 | 449 | 70 | 33 | |
| 4.5-5.5 | Oct-98 | Dec-00 | 1025 | 97 | 65 | |
| 5-6 | Oct-99 | Mar-04 | 1536 | 106 | 81 | |
| 5.5-6.7 | Dec-00 | Dec-00 | 605 | 16 | 16 | |
| 6-9 | Dec-00 | Dec-00 | 1100 | 2 | 2 | |
| 6-11 | Dec-00 | Dec-00 | 1237 | 34 | 31 | |
| DIGE 4.5-6.5 | May-03 | Mar-04 | 858 | 174 | 153 | |
| HUMAN | CEC | Jan-98 | Mar-04 | 3077 | 56 | 40 |
| CSF | Aug-93 | Mar-04 | 1664 | 309 | 30 | |
| DLD1 | Jan-99 | Mar-04 | 3440 | 108 | 67 | |
| ELC | Aug-93 | Mar-04 | 2144 | 35 | 19 | |
| HEPG2 | Aug-93 | Mar-04 | 2862 | 98 | 45 | |
| HEPG2SP | Aug-93 | Mar-04 | 1734 | 155 | 25 | |
| HL60 | Sep-97 | Mar-04 | 3164 | 26 | 17 | |
| KIDNEY | Sep-97 | Mar-04 | 2896 | 44 | 28 | |
| LIVER | Aug-93 | Mar-04 | 2413 | 138 | 68 | |
| NUCLEI LIVER | Apr-00 | Mar-04 | 1497 | 27 | 14 | |
| LYMPHOCYTE | Mar-04 | Mar-04 | 926 | 77 | 62 | |
| LYMPHOMA | Aug-93 | Mar-04 | 1890 | 60 | 33 | |
| NUCLEOLI HELA 2-D PAGE | Nov-01 | Mar-04 | 1271 | 51 | 44 | |
| NUCLEOLI HELA SDS-PAGE | Nov-01 | Mar-04 | 115 | 98 | 189 | |
| PLASMA | Aug-93 | Mar-04 | 1966 | 626 | 70 | |
| PLATELET | Aug-93 | Mar-04 | 2193 | 41 | 18 | |
| RBC | Aug-93 | Mar-04 | 1800 | 190 | 33 | |
| U937 | Aug-93 | Mar-04 | 895 | 42 | 32 | |
| MOUSE | ISLETS | Sep-98 | May-03 | 2528 | 63 | 44 |
| BAT | Dec-00 | Dec-00 | 2242 | 85 | 37 | |
| WAT | Sep-98 | Oct-01 | 3540 | 136 | 76 | |
| LIVER | Sep-98 | Apr-00 | 2836 | 200 | 107 | |
| NUCLEI LIVER | Apr-00 | May-03 | 4000 | 15 | 8 | |
| MUSCLE | Sep-98 | May-03 | 2650 | 136 | 71 | |
| STAPHYLOCOCCUS | Mar-04 | Mar-04 | 596 | 250 | 198 | |
| YEAST | Feb-95 | Mar-04 | 1940 | 101 | 62 | |
6. Some relevant statistics
- Species distribution of the SWISS-2DPAGE entries (Total: 1265 entries)
Species code Entry number Frequency (%) Arabidopsis thaliana 57 4.5 Dictyostelium discoideum 16 1.3 Escherichia coli 336 26.6 Homo sapiens 420 33.2 Mus musculus 176 13.9 Staphylococcus aureus 198 15.7 Saccharomyces cerevisiae 62 4.9 - Identification methods distribution of the identified spots (Total: 3971 spots)
Total exceeds 100% as some of the spots have been identified by several methods.Identification method Spot number Frequency (%) Amino acids composition 180 4.5 Co-migration 88 2.2 Gel matching 1579 39.8 Immunoblotting 657 16.5 Microsequencing 524 13.2 Peptide mass fingerprinting 1094 27.5 Tandem mass spectrometry 741 18.7