EF0858-PIP variable region deep sequencing
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB13161 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1337980.fastq.gz | Fastqsanger.gz | |||
| ERR1337980_1.fastq.gz | Fastqsanger.gz | |||
| ERR1337980_2.fastq.gz | Fastqsanger.gz | |||
| ERR1337981.fastq.gz | Fastqsanger.gz | |||
| ERR1337981_1.fastq.gz | Fastqsanger.gz |
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Project description:We used PIP-seq with a CROP-seq library to evaluate the feability of PIP-seq for large pooled CRISPR screens
2023-01-12 | GSE202915 | GEO
Project description:The study of the compond PIP-RBPJ-1‘ function on neural stem cell. Synthetic DNA-binding inhibitors capable of gaining precise control over neurogenesis factors could obviate the current clinical barriers associated with small molecule use in regenerative medicine. Here, we show the design and bio-efficacy of a synthetic ligand PIP-RBPJ-1 to cause promoter-specific suppression of neurogenesis-associated HES1, and its downstream genes. Furthermore, PIP-RBPJ-1 alone could alter the neural system-associated notch signaling factors and remarkably induce neurogenesis with an efficiency that is comparable to a conventional approach. Here is one day treatment of the PIP-RBPJ-1 on neural stem cells.
2018-07-19 | GSE109916 | GEO
Project description:Background The PIP (prolactin-inducible protein) gene has been shown to be expressed in breast cancers, with contradictory results concerning its implication. As both the physiological role and the molecular pathways in which PIP is involved are poorly understood, we conducted a combined gene expression profiling and network analysis studies on selected breast cancer cell lines presenting distinct PIP expression levels and hormonal receptor status, to explore the functional and regulatory network of PIP co-modulated genes. Results Microarray analysis allowed identification of genes co-modulated with PIP independently of modulations resulting from hormonal treatment or cell line heterogeneity. Relevant clusters of genes that can discriminate between [PIP+] and [PIP-] cells were identified. Functional and regulatory network analyses based on knowledge database revealed a master network of PIP co-modulated genes, including many interconnecting oncogenes and tumor suppressor genes, half of which were detected as differentially expressed through high-precision measurements. The networks identified appear associated with an inhibition of proliferation coupled with an increase of apoptosis and an enhancement of cell adhesion in breast cancer cell lines. Finally, the STAT5 motif was identified in promoters of an important part of genes belonging to the PIP networks. Conclusion Our global exploratory approach was found to be an effective strategy to identify the biological pathways modulated along with the PIP expression, thus supporting good prognostic value of disease-free survival time in breast cancer based on previous reports focusing on PIP’s favorable signature. Moreover, our data allowed us to provide the first insight in its regulatory subnetwork in which STAT5 appears as a potential key regulator.
2009-03-06 | GSE11627 | GEO
Project description:Drosophila melanogaster pip, pipe, is differentially expressed in 16 experiment(s);
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Project description:Drosophila melanogaster pip, pipe, is expressed in 3 baseline experiment(s);
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Project description:Circulating antibodies provide valuable information about an individual’s immune status and constitute a significant portion of the human plasma proteome. Proteomic analysis of plasma is challenged by the large dynamic concentration range of plasma proteins, including antibodies. Peptide fractionation prior to data-independent (shotgun) proteomics has the potential to overcome this obstacle and enable increased coverage of plasma proteins. In this work, we evaluated the detection of tryptic immunoglobulin variable region peptides using multidimensional chromatography (high-pH preparative LC) or gas-phase ion mobility spectrometry (FAIMS). Typical digests of eight serum samples were obtained by (a) direct LC-MS (without prior fractionation, 1D), (b) LC-FAIMS-MS, and (c) high-pH reversed-phase fractionation into 24 fractions and subsequent measurement of each fraction. As de novo search is an essential step in antibody variable region peptide identification, all MS/MS spectra were acquired in high resolution Orbitrap mode.
2024-08-09 | PXD046072 | Pride
Project description:Arabidopsis thaliana PIP, Proline iminopeptidase [Source:UniProtKB/Swiss-Prot;Acc:P93732], is differentially expressed in 86 experiment(s);
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Project description:Rattus norvegicus Pip, prolactin induced protein [Source:RGD Symbol;Acc:70946], is differentially expressed in 6 experiment(s);
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Project description:Arabidopsis thaliana PIP, Proline iminopeptidase [Source:UniProtKB/Swiss-Prot;Acc:P93732], is expressed in 16 baseline experiment(s);
| AT2G14260 | ExpressionAtlas