|
| Status |
Public on Sep 29, 2011 |
| Title |
HudsonAlpha_ChipSeq_SK-N-SH_NRSF_PCR2x |
| Sample type |
SRA |
| |
|
| Source name |
SK-N-SH
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: neuroblastoma, newly promoted to tier 2: not in 2011 analysis, the SK-N-SH line was established from a neuroblastoma in a 4 year old individual.
antibody antibodydescription: Mouse monoclonal. Antibody Target: NRSF
antibody targetdescription: Neuron-restrictive silencer transcription factor
antibody vendorname: Dr. David Anderson at Caltech
antibody vendorid: (Made by Protein Expression Center: pec@caltech.edu)
protocol description: a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
controlid: SL108,SL410
labexpid: SL83,SL409
replicate: 1,2
softwareversion: MACS
antibody targetdescription: Neuron-restrictive silencer transcription factor
antibody vendorname: David Anderson, Caltech
antibody vendorid: (Made by Protein Expression Center: pec@caltech.edu)
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR2x
protocol description: 2-cycles of PCR (Myers)
controlid: SL108
labexpid: SL83
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
ATCC
|
| Treatment protocol |
None
|
| Growth protocol |
SK-N-SH_Myers_protocol.pdf
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
|
| |
|
| Submission date |
Sep 28, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
encode-help@lists.stanford.edu
|
| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL9052 |
| Series (2) |
| GSE32465 |
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB |
| GSE51334 |
DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions |
|
| Relations |
| SRA |
SRX100380 |
| BioSample |
SAMN00738297 |
| Named Annotation |
GSM803335_hg19_wgEncodeHaibTfbsSknshNrsfPcr2xRawRep1.bigWig |
| Named Annotation |
GSM803335_hg19_wgEncodeHaibTfbsSknshNrsfPcr2xRawRep2.bigWig |
