Attention: World-2DPAGE is no longer maintained.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.

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)

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

Total exceeds 100% as some of the spots have been identified by several methods.