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ProteomicsIntegrated Mass Spectrometry Imaging and Omics Workflows on the Same Tissue Section Using Parafilm-Assisted Microdissection
In this work, we demonstrate the use of grid-aided, parafilm-assisted microdissection to perform MALDI MS imaging and shotgun proteomics and metabolomics in a combined workflow and using only a single tissue section. The grid is generated by microspotting of acid dye 25 using a piezoelectric microsp...
ORGANISM(S): Rattus norvegicus (Rat) 
2017-03-20 | PXD005345 | Pride
Proteomics Lipidomics Maldi ms imaging Parafilm-assisted microdissection 
TranscriptomicsTranscription profiling of Arabidopsis replum cells at two development time points using cells obtained from laser capture microdissection of tape-transferred paraffin sections to promote recovery of structurally intact RNA
RNA prepared from specialized replum cells within siliques provided targets for profiling the Arabidopsis genome during replum cell development.
ORGANISM(S): Arabidopsis thaliana 
2008-02-08 | E-MEXP-1451 | biostudies-arrayexpress
GenomicsLaser Capture Microdissection-Reduced Representation Bisulfite Sequencing (LCM-RRBS) maps changes in DNA methylation associated with gonadectomy-induced adrenocortical neoplasia in the mouse
DNA methylation is a mechanism for long-term transcriptional regulation and is required for normal cellular differentiation. Failure to properly establish or maintain DNA methylation patterns leads to cell dysfunction and diseases such as cancer. Identifying DNA methylation signatures in complex tis...
ORGANISM(S): Homo sapiens 
2013-03-21 | E-GEOD-45361 | biostudies-arrayexpress
TranscriptomicsTranscript Profiling of Soybean Seed Compartments Using Laser Capture Microdissection Coupled With RNA-Seq
We used laser capture microdissection (LCM) to capture soybean seed compartments and profiled the transcriptomes of several compartments using next-generation sequencing. We profiled the transcriptomes of the embryo-proper and the suspensor region from globular stage embryos and the seed coat paren...
ORGANISM(S): Glycine max 
2011-05-10 | E-GEOD-29162 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Arabidopsis laser microdissected cells at the powdery mildew infection site
Obligate biotrophs such as the virulent powdery mildew Golovinomyces orontii alter plant host cellular architecture, metabolism, and defense in order to acquire nutrients while suppressing cell death and senescence. G. orontii exclusively infects epidermal cells of Arabidopsis with clearly defined s...
ORGANISM(S): Arabidopsis thaliana 
2009-12-14 | E-GEOD-15680 | biostudies-arrayexpress
TranscriptomicsGene Expression Data from Senescent vs Non-senescent Cells in the in Vivo Human Annulus
The presence of senescent cells in the aging/degenerating human disc is now well-recognized. Senescent cells are viable, cannot divide, remain metabolically active and accumulate within the disc over time. Molecular analysis of senescent cells in tissue, however, offers a special challenge since the...
ORGANISM(S): Homo sapiens 
2009-07-15 | E-GEOD-17077 | biostudies-arrayexpress
TranscriptomicsWhole Transcriptome Amplification for Gene Expression Profiling and Development of Molecular Archives
Type of experiment: This study used microarray experiments to evaluate the reproducibility and fidelity of Whole Transcriptome Amplification (WTA). Experimental factors: This study contains multiple categories of microarray experiments. Self-self hybridizations from WTA amplified total RNA were p...
ORGANISM(S): Homo sapiens 
2010-06-11 | E-GEOD-2618 | biostudies-arrayexpress
TranscriptomicsLaser capture microdissection and microarray analysis of ectomycorrhizas formed by the ascomycete Tuber melanosporum reveal functional heterogeneity between mantle and Hartig net compartments
The aim of this analysis was to better understand the complex symbiotic stage of Tuber melanosporum by combining the use of laser capture microdissection and microarray gene expression analysis. We isolated the fungal/soil (i.e. the mantle) and the fungal/plant (i.e. the Hartig net) interfaces from ...
ORGANISM(S): Corylus avellana 
2013-03-01 | E-GEOD-36870 | biostudies-arrayexpress
TranscriptomicsCell- and tissue-specific transcriptome analyses of Medicago truncatula root nodules
We used laser-capture microdissection (LCM) to isolate specific cells from the Medicago truncatula nodule meristem (M), the distal infection (DIZ), the proximal infection zone (PIZ), infected cells (IC) and uninfected cells (UIC) from the fixation zone. Based on Medicago GeneChips, we identified the...
ORGANISM(S): Medicago truncatula 
2013-05-29 | E-GEOD-43354 | biostudies-arrayexpress
TranscriptomicsHaploinsufficiency of interstitial genes between TMPRSS2 and ERG contributes to prostate tumorigenesis
TMPRSS2-ERG gene fusions that are frequently identified in prostate cancer can be generated either through chromosomal translocation or via interstitial deletion. The latter mechanism deletes an interstitial region of ~3Mb and it remains largely unanswered whether genes deleted within this region co...
ORGANISM(S): Mus musculus 
2015-12-31 | E-GEOD-63070 | biostudies-arrayexpress
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