|
| Status |
Public on May 23, 2019 |
| Title |
SN1589-H3-2 |
| Sample type |
SRA |
| |
|
| Source name |
yeast
|
| Organism |
Candida albicans |
| Characteristics |
strain: SN1589
tissue: yeast cells
genetic tag: H2A.2-FLAG
antibody: anti-H3
molecule subtype: Affinity purified DNA
treatment: No treatment
|
| Treatment protocol |
Fluconazole: samples were grown in YEPD overnight and seeded the next day at an OD600=0.1 in YEPD + Fluconazole (10mg/ml). Samples were grown to an OD600=1.0 and harvested.
Pre-spo media: Samples were grown in YEPD overnight and seeded the next day at an OD600=0.1 in pre-spo media. Samples were grown to an OD600=1.0 and harvested.
|
| Growth protocol |
Samples were grown in YEPD overnight and seeded the next day at an OD600=0.1 in YEPD. Samples were grown to an OD600=1.0 and harvested.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP DNA was extracted by bead beater with 0.5mm zirconia beads. ChIP DNA was isolated by antibodies directed to our proteins of interest (10 mg of anti-Histone H3, 10 mg anti-FLAG M2, or 4 mg of anti-Cse4). DNA was then isolated by incubation with SDS/proteinase K followed by column purification (Macherey-Nagel Nucleospin Gel Cleanup Columns).
Described in Dumesic et al. Cell 2015
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
H2A.1/H2A.1/H2A.1/H2A.1, H2A.2/H2A.2-FLAG-FRT/H2A.2/H2A.2-FLAG-FRT, leu2Δ/leu2Δ/leu2Δ/leu2Δ, ura3Δ/URA3/ura3Δ/URA3, his1Δ/his1Δ/his1Δ/his1Δ, arg4Δ/arg4Δ/arg4Δ/arg4Δ, iro1Δ/IRO1/iro1Δ/IRO1, mtlaΔ::C.m.LEU2/MTLα/MTLa/mtlαΔ::C.d.ARG4
|
| Data processing |
Illumina adaptor removed from read 3' ends using Cutadapt
Reads were aligned to the genome with bowtie v 1.1.2
Analysis performed using custom scripts
Genome_build: C_albicans_SC5314_version_A21-s02-m09-r10
|
| |
|
| Submission date |
Oct 31, 2018 |
| Last update date |
May 24, 2019 |
| Contact name |
Suzanne M Noble |
| E-mail(s) |
suzanne.noble@ucsf.edu
|
| Organization name |
UCSF
|
| Street address |
513 Parnassus Ave., Box 0414
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143-0414 |
| Country |
USA |
| |
|
| Platform ID |
GPL24129 |
| Series (1) |
| GSE122037 |
Chromatin rewiring mediates programmed evolvability via aneuploidy |
|
| Relations |
| BioSample |
SAMN10355925 |
| SRA |
SRX4963138 |
