Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Archival chromatin sequencing in eastern water dragon museum specimens

ABSTRACT: Archival chromatin sequencing in eastern water dragon museum specimens

PROVIDER: PRJNA1078353 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28016102_1.fastq.gz	Fastqsanger.gz
	SRR28016102_2.fastq.gz	Fastqsanger.gz
	SRR28016103_1.fastq.gz	Fastqsanger.gz
	SRR28016103_2.fastq.gz	Fastqsanger.gz
	SRR28016104_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 64

Similar Datasets

Archival chromatin sequencing in eastern water dragon museum specimens

Project description:Formalin induces inter- and intra-molecular crosslinks within exposed cells. This cross-linking can be exploited to characterise chromatin state as in the MNase (micrococcal nuclease) assays. Our team aims to optimise these assays for application in museum preserved formalin-exposed specimens. To do so, we applied an optimised MNase assay to fresh-frozen and archival eastern water dragon specimens, as old as 1905. We found that heavy formalin fixation modulates rather than eliminates signatures of differential chromatin accessibility and that these chromatin profiles are sex-specific and environmental condition dependent.

2024-03-01 | GSE256157 | GEO

Archival chromatin sequencing in formalin-fixed mouse specimens

Project description:Formalin induces inter- and intra-molecular crosslinks within exposed cells. This cross-linking can be exploited to characterise chromatin state as in the FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) and MNase (micrococcal nuclease) assays. Here, we optimised the FAIRE and MNase assays for application upon heavily-fixed tissues as is typically found in historical formalin-preserved museum specimens. We demonstrate these assays in formalin-fixed mouse specimens and compare the chromatin signatures to specimen-matched fresh tissues. We found that heavy formalin fixation modulates rather than eliminates signatures of differential chromatin accessibility and that these chromatin profiles are reproducible, tissue-specific and sex-specific in vertebrate specimens.

2024-03-01 | GSE256158 | GEO

Archival chromatin sequencing in formalin-fixed mouse specimens [FAIRE and Mnase]

Project description:Formalin induces inter- and intra-molecular crosslinks within exposed cells. This cross-linking can be exploited to characterise chromatin state as in the FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) and MNase (micrococcal nuclease) assays. Here, we optimised the FAIRE and MNase assays for application upon heavily-fixed tissues as is typically found in historical formalin-preserved museum specimens. We demonstrate these assays in formalin-fixed mouse specimens and compare the chromatin signatures to specimen-matched fresh tissues. We found that heavy formalin fixation modulates rather than eliminates signatures of differential chromatin accessibility and that these chromatin profiles are reproducible, tissue-specific and sex-specific in vertebrate specimens.

2024-03-15 | GSE261169 | GEO

Screening great ape museum specimens for DNA viruses

Project description:Screening great ape museum specimens for DNA viruses

| PRJEB75038 | ENA

Archival chromatin sequencing in formalin-fixed mouse specimens

Project description:Archival chromatin sequencing in formalin-fixed mouse specimens

| PRJNA1078348 | ENA

Clinical relevance of DNA microarray analyses using archival formalin-fixed paraffin-embedded breast cancer specimens

Project description:This SuperSeries is composed of the following subset Series: GSE23384: Gene profiling using archival formalin-fixed paraffin-embedded breast cancer specimens can generate informative microarray data: A comparison with matched fresh fine needle aspiration biopsy samples (FFPE samples) GSE23385: Gene profiling using archival formalin-fixed paraffin-embedded breast cancer specimens can generate informative microarray data: A comparison with matched fresh fine needle aspiration biopsy samples (FNA samples) Refer to individual Series

2011-06-22 | E-GEOD-23386 | biostudies-arrayexpress

Assessing the hidden potential of beeswax specimens in Natural History Museum collections

Project description:Natural history museum specimens of historical honeybees have been successfully used to explore the genomic past of the honeybee, indicating fast and rapid changes between historical and modern specimens, possibly as a response to current challenges. In our study we explore a potential untapped archive from natural history collections - specimens of beeswax. We examine an Apis mellifera mellifera queen cell specimen from the 19th century. The intact and closed cell was analysed by X-ray Computed Tomography (CT) to reveal a perfectly preserved queen bee inside her cell. Subsequently, a micro-destructive approach was used to evaluate the possibility of protein extraction from the cell. Our results show that studies on specimens such as these provide valuable information about the past rearing of queens, their diet and development, which is relevant for understanding current honeybee behaviour. In addition we evaluate the feasibility of using historical beeswax as a biomolecular archive for ancient proteins to study honeybees.

2024-09-05 | PXD034106 | Pride

Mitochondrial genome capture from fecal samples and museum-preserved specimens

Project description:Whole mitochondrial genome capture from fecal samples and museum-preserved specimens of the endangered Grauer's gorilla and eastern chimpanzee

| PRJEB21370 | ENA

Archival chromatin sequencing in formalin-fixed mouse specimens [FAIRE and Mnase]

Project description:Archival chromatin sequencing in formalin-fixed mouse specimens [FAIRE and Mnase]

| PRJNA1085716 | ENA

Project description:Archival DNA from historical ethanol preserved museum specimens.

| PRJNA837973 | ENA