Pig Expressed Sequence Tags database
Development of Resources for Functi onal genomes
News Query Database BLAST Statistics FAQ Home


Table 1.
Porcine cDNA Library Information, Sequence Data and Summary of Cluster Analysis*

Library Name Tissue Source Library Recomb^ Insert Size# Internal AnalysisTIGR Analysis##
N Self Novelty Singletons in TCs+ in Singletons+
A1Ant. Pituitary E-D07.91,44025786% (223)32.68% (84)32% (84)72312
A2Ant. Pituitary E-D571,390100483% (843)41% (414)40% (406)768285
A3Ant. Pituitary E-D122.41,43037883% (314)34% (130)33% (128)342101
NAA1-A3 - NormalizedND1,410154484% (1297)41% (631)38% (602)1164404
AY0Term Placenta1.31,500101073% (743)31% (316)29% (293)1056268
AY1AY0 -Normalized51,500289079% (2310)47% (1346)41% (1211)25871117
CP0Uterus G12/141.31,500151769% (1048)35% (537)26% (409)1474323
CP1CP0 –Normalized71,500298885% (2559)55% (1638)50% (1494)2327914
E3Embryo G-D454.21,43081165% (529)30% (247)29% (242)707173
E4Conceptus G-D141.21,360109771% (787)27% (300)25% (284)965185
E6Embryo G-D2014.81,64090391% (823)52% (466)50% (460)653339
E7Conceptus G-D12ND95099868% (688)27% (267)24% (249)860146
H1Hypothalamus E-D02.799053891% (493)48% (260)47% (256)423157
H3Hypothalamus E-D1215.51,44065289% (586)41% (270)39% (260)530153
HOH1,H3, O1-3- Norm.ND84084191% (769)43% (358)41% (349)633204
O1Ovary E-D01.41,21048083% (400)35% (166)32% (156)410128
O2Ovary E-D51.874029785% (253)43% (127)38% (115)26084
O3Ovary E-D123.31, 56041379% (327)36% (149)30% (128)416109

NOTES:

* Total sequences deposited: 21,499. Total sequences in clustering above: 19,218. Data shown above does not include 600 high quality sequences used in clustering but were from several libraries which were not sufficiently complex for extensive sequencing (E1, E2, E5, H2, H4, H5, and NF). Also not shown is 2,281 sequences of sufficient quality for deposition into Genbank but that contained long polyA sequences and/or had lower quality near the beginning of the sequence.

^ Library recombinants, in millions of theoretical independent recombinants. ND= not determined.

# calculated as follows: at least 30 randomly selected clones were PCR-amplified and insert size calculated. Estimate was based on average of all amplified inserts over total inserts measured (at least 24 were required for calculation).

N - The number of sequences in a library.

Self - The Self-novelty of a library. This is the number of clusters the library forms divided by the total number of sequences (N).

Novelty - The number of clusters that consist only of that library within this dataset, divided by the total number of sequences (N).

Singletons - The number of singletons in the overall clustering contributed by this library.

## TIGR= The Institute for Genome Research (http://www.tigr.org/). Total cluster numbers shown are not directly comparable to our internal analysis due to different set of sequences used in TIGR cluster analysis (21,369).

+ Numbers indicate sequence totals for each library that are in tentative clusters (TC) or in singletons.


Web Access Statistics © 2003-2005 NAGRP - Bioinformatics Coordination Program.
Contact: NAGRP Bioinformatics Team
::Helpdesk::