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MetabolomicsThe Genome of Medicinal Plant Macleaya cordata Provides New Insights into Benzylisoquinoline Alkaloids Metabolism
The overuse of antibiotics in animal agriculture and medicine has caused a series of potential threats to public health. Macleaya cordata is a medicinal plant species from the Papaveraceae family, providing a safe resource for the manufacture of antimicrobial feed additive for livestock. The active ...
2017-04-24 | MTBLS435 | MetaboLights
TranscriptomicsCellular aging can be monitored by DNA-methylation changes at specific CpG sites
Long-term culture associated changes need to be considered for quality control of cell preparations – especially in cellular therapy. Here we describe a simple method to track cellular aging based on continuous DNA-methylation changes at six specific CpG sites. This epigenetic signature can be used ...
ORGANISM(S): Homo sapiens 
2012-05-21 | E-GEOD-29661 | biostudies-arrayexpress
GenomicsDetecting differential peaks in ChIP-seq signals with ODIN
Motivation: Detection of changes in DNA-protein interactions from ChIP-seq data is a crucial step in unraveling the regulatory networks behind biological processes. The simplest variation of this problem is the differential peak calling problem. Here one has to find genomic regions with ChIP-seq sig...
ORGANISM(S): Mus musculus 
2015-01-07 | E-GEOD-57563 | biostudies-arrayexpress
TranscriptomicsPCGF6, a polycomb group protein, regulates mesodermal lineage differentiation in murine ES cells and functions in iPS reprogramming
Polycomb group (PcG) proteins comprise a large group of evolutionary conserved factors with essential roles for embryonic development and adult stem cell function. PcG proteins constitute two main multiprotein polycomb repressive complexes (PRC1 and PRC2) that operate in a hierarchical manner to sil...
ORGANISM(S): Mus musculus 
2014-09-26 | E-GEOD-56126 | biostudies-arrayexpress
ProteomicsConotoxin Exploitation from Conus betulinus
Employing Conus betulinus as a representative, we sequenced and assembled the first Conus genome. After integration of multi-omics data, we provide novel insights into the genetic central dogma of conotoxins, assuming a number ratio of ~1:1:10s for genes/transcripts/peptides.
ORGANISM(S): conus betulinus 
2021-09-08 | PXD014892 | Pride
Conus  genome  conotoxins  multi-omics  transcript  proteomics  peptide 
TranscriptomicsTGF-β1 Accelerates Dendritic Cell Differentiation from Common Dendritic Cell Progenitors (CDPs) and Directs Subset Specification Towards Conventional Dendritic Cells
Dendritic cells (DCs) in lymphoid tissue comprise conventional DCs (cDCs) and plasmacytoid DCs (pDCs) that develop from common DC progenitors (CDPs). CDPs are Flt3+c-kitintM-CSFR+ and reside in bone marrow. Here we describe a two-step culture system that recapitulates DC development from c-kithiFlt3...
ORGANISM(S): Mus musculus 
2010-10-04 | E-GEOD-22432 | biostudies-arrayexpress
TranscriptomicsMethylation Pattern of Human Dermal Fibroblasts
In this study, we have analyzed DNA methylation changes upon aging of human dermal fibroblasts by using the HumanMethylation27 BeadChip assessing 27,578 unique CpG sites. Cells were isolated from skin samples donated by young (6-23 years) and elderly (60-73 years) patients undergoing surgical interv...
ORGANISM(S): Homo sapiens 
2012-02-14 | E-GEOD-22595 | biostudies-arrayexpress
TranscriptomicsPolycomb protein EED is required for selective silencing of pluripotency genes upon ESC differentiation
Eed (embryonic ectoderm development) is a core component of the Polycomb Repressive Complex 2 (PRC2) which catalyzes the methylation of histone H3 lysine 27 (H3K27). Trimethylated H3K27 (H3K27me3) can act as a signal for PRC1 recruitment in the process of gene silencing and chromatin condensation. P...
ORGANISM(S): Mus musculus 
2014-08-28 | E-GEOD-49305 | biostudies-arrayexpress
TranscriptomicsIn vitro Expansion of Hematopoietic Stem Induces Gene Expression Changes
Hematopoietic stem and progenitor cells (HPCs) can be maintained in vitro, but the vast majority of their progeny loses M-bM-^@M-^\stemnessM-bM-^@M-^] during culture. We have analyzed DNA methylation (DNAm) profiles of freshly isolated CD34+ cells and upon expansion on either tissue culture plastic ...
ORGANISM(S): Homo sapiens 
2013-12-03 | E-GEOD-40669 | biostudies-arrayexpress
TranscriptomicsDNA methylation profiles of freshly isolated CD34+ cells and upon expansion on either tissue culture plastic (TCP) or mesenchymal stromal cells (MSCs)
Hematopoietic stem and progenitor cells (HPCs) can be maintained in vitro, but the vast majority of their progeny loses M-bM-^@M-^\stemnessM-bM-^@M-^] during culture. In this study, we have analyzed DNA methylation (DNAm) profiles of freshly isolated CD34+ cells and upon expansion on either tissue c...
ORGANISM(S): Homo sapiens 
2013-12-03 | E-GEOD-40799 | biostudies-arrayexpress
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