Table 1.
Oligonucleotide probes were designed separately from three different sets of ESTs.
| Types of probes | 1st oligo set1 | 2nd oligo set2 | 3rd oligo set3 | Totals4 |
|---|---|---|---|---|
| Arabidopsis matches5 | 866 | 7,419 | 4,031 | 12,316 |
| Singletons | na | 5,280 | 3,852 | 9,132 |
| Transcription factors (TF)6 | 230 | 2,223 | 677 | 3,130 |
| GO Biological Process7 | 46 | 464 | 126 | 636 |
| GO Molecular Function8 | 184 | 1,759 | 551 | 2,494 |
| PFAM9 | na | 471 | na | 471 |
| Total number of oligos | 1,154 | 12,006 | 9,629 | 22,789 |
1Oligonucleotides (oligos) were designed at Texas A&M University in the former lab of Dr. Chen [17]. 2Oligos designed at Iowa State University from a global assembly of ESTs [10]. 3Oligos designed by The Institute for Genomic Research (TIGR) from the Cotton Gene Index 8 [11]. 4Column totals are close approximations since each oligo set was designed separately. 5Arabidopsis matches are based on oligo WUBLASTX hits to the TAIR Arabidopsis protein dataset and parsed for 50 aa length and 50% percent identity. 6Transcription factor sub-total may be an over-estimate as Biological Processes and Molecular Function are not mutually exclusive categories. 7Biological Process = transcription. 8Molecular Function = nucleic acid binding activity, nucleotide binding activity, RNA and DNA binding activity, and transcription factor activity. 9Putative PFAM TF identified in the 2nd oligo set were in addition to those annotated by gene ontology.