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ChIP-Seq DnaA-SPA and AcpS-SPA control

ABSTRACT: ChIP-Seq DnaA-SPA and AcpS-SPA control

PROVIDER: PRJEB56374 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR10295482_1.fastq.gz	Fastqsanger.gz
	ERR10295482_2.fastq.gz	Fastqsanger.gz
	ERR10295483_1.fastq.gz	Fastqsanger.gz
	ERR10295483_2.fastq.gz	Fastqsanger.gz
	ERR10295484_1.fastq.gz	Fastqsanger.gz

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ChIP-Seq DnaA-SPA and AcpS-SPA control

Project description:ChIP-seq was performed to map the association of SPA-tagged DnaA across the Escherichia coli MG1655 chromosome during exponential phase growth in LB. As a control to remove background, ChIP-Seq was also performed on SPA-tagged AcpS, a protein that is not known to bind DNA.

2022-10-16 | E-MTAB-12223 | biostudies-arrayexpress

E. coli SymE-SPA binds DNA in a wide variety of genomic locations in vivo [ChIP-seq]

Project description:The purpose of this experiment was to demonstrate that SymE-SPA binds DNA in vivo when overexpressed, and identify where in the genome SymE-SPA binds. To do this SymE-SPA and an untagged SymE control were expressed, and areas of the genome enriched for SymE-SPA binding were identified.

2021-10-16 | GSE185893 | GEO

Identification of ChIP-seq and RIME grade antibodies for Estrogen Receptor alpha

Project description:Estrogen Receptor alpha (ERα) is a key driver of most breast cancers, and it is the target of endocrine therapies used in the clinic to treat women with ERα positive (ER+) breast cancer. The two methods ChIP-seq (chromatin immunoprecipitation coupled with deep sequencing) and RIME (Rapid Immunoprecipitation of Endogenous Proteins) have greatly improved our understanding of ERα function during breast cancer progression and in response to anti-estrogens. A critical component of both ChIP-seq and RIME protocols is the antibody that is used to pull down the bait protein. To date, most of the ChIP-seq and RIME experiments for the study of ERα have been performed using the sc-543 antibody from Santa Cruz Biotechnology. However, this antibody has been discontinued, thereby severely impacting the study of ERα in normal physiology as well as diseases such as breast cancer and ovarian cancer. Here, we compare the sc-543 antibody with other commercially available antibodies, and we show that 06-935 (EMD Millipore) and ab3575 (Abcam) antibodies can successfully replace the sc-543 antibody for ChIP-seq and RIME experiments.

2019-03-21 | PXD012930 | Pride

Comparison of Gene Expression between stromal vascular cells (SVC) and newly identified adipose precursor (SPA)

Project description:We have identified proliferative cells in adipose tissue expressing adipocyte specific genes, which were named small proliferative adipocytes (SPA). Comparison of gene expression by microarray and real time PCR among stromal vascular cells (SVC), SPA and mature adipocyte (MA) revealed that adipocyte specific genes and several neuronal genes were increased in the order of SVC < SPA < MWA. However, proliferin 2 (PLF) was detected only in SPA. We found that SPA changed to lipid laden cells by incubation with differentiation medium containing insulin/dexamethasone/IBMX. In this study, we investigated the gene expression of differentiated SPA (D-SPA) comparing with differentiated SVC (D-SVC). Further study using microarrays and real time PCR revealed that uncoupling protein 1 (UCP1) and PLF were strongly expressed in D-SPA. These data suggested that SPA might be able to differentiate into beige cells.

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Enhancers predominantly control transcription initiation [ChIP-seq]

Project description:Enhancers predominantly control transcription initiation [ChIP-seq]

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Exoproteomes of S. aureus spa type t437 isolates

Project description:A total of 20 S. aureus spa type t437 isolates were used for exoproteome analyses in the present study. Ten of them were selected from MLVA type (MT) 621 group which has was shown to represent the most predominant class of S. aureus isolates with the spa type t437; the other ten isolates belonged to different MTs, namely MT1870, MT4125, MT1035, MT1297, MT2075, MT1875, MT2322, MT1831, MT4183 and MT1830.

2019-05-24 | PXD009082 | Pride

ChIP-seq of Escherichia coli RpoS during stationary phase

Project description:To determine sites where RpoS binds (and hence likely plays a direct role in transcription), we used ChIP-seq to map the association of RpoS across the Escherichia coli chromosome during stationary phase growth in minimal medium. To facilitate ChIP, RpoS was C-terminally SPA-tagged at its native locus.

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ZEB1 ChIP-seq Data from Control CD8+cDC1

Project description:ZEB1 ChIP-seq Data from Control CD8+cDC1

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Genomic evidence reveals SPA-regulated developmental and metabolic pathways in dark-grown Arabidopsis seedlings

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Brachypodium distachyon strain:Spa-Sou-GR6.4 | cultivar:Spa-Sou-GR6.4

Project description:Brachypodium distachyon strain:Spa-Sou-GR6.4 | cultivar:Spa-Sou-GR6.4 Genome sequencing

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