|
| Status |
Public on Mar 11, 2014 |
| Title |
WT plus mucin vs minus mucin_Biological Rep 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
WT plus mucin replicate 2
|
| Organism |
Candida albicans |
| Characteristics |
source strain background: SC5314
strain: SN425
treatment: mucin
|
| Growth protocol |
Log phase in the presence and absence of mucin for 8 hours at 37C using RPMI 1640 (Gibco 31800-089) buffered with 165mM MOPS and supplemented with 0.2% NaHCO3 and 2% glucose with and without 0.5% mucin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Ambion RiboPure Yeast RNA Kit (AM1926)
|
| Label |
Cy5
|
| Label protocol |
cDNA was synthesized from 8 ug total RNA using Superscript II Reverse Transcriptase (Invitrogen, 18064-014), according to the manufacturer’s instruction, and using a mixture of 0.5 mM 3:2 aminoally-dUTP (Ambion 8437):dNTPs. cDNA was dye coupled to either Cy3 or Cy5 (GE Healthcare PA23001 or PA25001)
|
| |
|
| Channel 2 |
| Source name |
WT minus mucin replicate 2
|
| Organism |
Candida albicans |
| Characteristics |
source strain background: SC5314
strain: SN425
treatment: no mucin
|
| Growth protocol |
Log phase in the presence and absence of mucin for 8 hours at 37C using RPMI 1640 (Gibco 31800-089) buffered with 165mM MOPS and supplemented with 0.2% NaHCO3 and 2% glucose with and without 0.5% mucin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Ambion RiboPure Yeast RNA Kit (AM1926)
|
| Label |
Cy3
|
| Label protocol |
cDNA was synthesized from 8 ug total RNA using Superscript II Reverse Transcriptase (Invitrogen, 18064-014), according to the manufacturer’s instruction, and using a mixture of 0.5 mM 3:2 aminoally-dUTP (Ambion 8437):dNTPs. cDNA was dye coupled to either Cy3 or Cy5 (GE Healthcare PA23001 or PA25001)
|
| |
|
| |
| Hybridization protocol |
0.4 ug Cy3-labelled cDNA and 0.4 ug Cy5-labelled cDNA were hybridized onto custom Agilent 8*15k microarrays (AMADID #020166)
|
| Scan protocol |
4000B Axon Instrument Scanner
|
| Description |
WT plus mucin vs WT minus mucin replicate 2
252016610071_BlkH
|
| Data processing |
Arrays were gridded with Gene Pix Pro software version 7, Lowess normalization was performed using a Goulphar script for R
|
| |
|
| Submission date |
Mar 11, 2014 |
| Last update date |
Mar 11, 2014 |
| Contact name |
Clarissa Jane Nobile |
| E-mail(s) |
[email protected]
|
| Organization name |
University of California - Merced
|
| Department |
Molecular and Cell Biology
|
| Lab |
Clarissa Nobile
|
| Street address |
5200 North Lake Rd
|
| City |
Merced |
| State/province |
CA |
| ZIP/Postal code |
95343 |
| Country |
USA |
| |
|
| Platform ID |
GPL13830 |
| Series (1) |
| GSE55766 |
Transcriptional profiling of C. albicans in the presence of mucin versus absence of mucin |
|
