Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics [CITE-seq]

ABSTRACT: Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics [CITE-seq]

PROVIDER: PRJNA1127594 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics

Project description:Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics

| PRJNA1128547 | ENA

Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics [CITE-seq]

Project description:We used CITE-seq (10x Gemoics-based) to profile and compare the transcriptomes and cell surface expression of a set of immune markers of brain immune cells from young-adult C57BL/6 mice with and without antibiotics induced gut microbiota depletion (ABX) during brain metastasis. Brain immune cells were collected from naive brains (D00) and at different time points throughout brain metastasis outgrowth (4 (D04), 8 (D08) and 14 (D14) days post injection). We sequenced a total of 24 different mouse brains (3 biological replicates per group: (1) D00 control, (2) D00 ABX, (3) D04 control, (4) D04 ABX, (5) D08 control, (6) D08 ABX, (7) D14 control, (8) D14 ABX). We created an antibody pool consisting of 31 different antibodies (CCR2/CD192, C117/c-kit, CD11b, CD11c, CD172a/SIRPα, CD25, CD3, CD38, CD4, CD44, CD45, CD45R/B220, CD86, CD8a, CD90.1, Cx3cr1, F4/80, I-A/I-E, Ly6C, Ly6G, NK1.1, PD-1, PD-L1, CD169/Siglec-1, Siglec-H, TMEM119, XCR1, CD24, CD103, CD64, CD83) and stained each brain individually with this antibody pool. Then, we stained each brain with it's own unique hashing antibody so that we could subsequently pool samples. Two groups were collapsed into one to generate four samples, each loaded into one well on the 10x Chromium (D00 control + D00 ABX, D04 control + D04 ABX, D08 control + D08 ABX, D14 control + D14 ABX). Sequencing libraries were prepared for each of the four collapsed groups (6 samples per group). Following sequencing, each sample is separated in silico by it's unique hashing antibody.

2025-02-05 | GSE270629 | GEO

Gut Dysbiosis Impacts Brain Metastasis Outgrowth and Immune Response Dynamics

Project description:We used 16S V3/V4 region amplification to evaluate the composition of bacteria species in mouse fecal pellets after vehicle or ABX treatment and before and after fecal matter transplant.

2025-02-05 | GSE270809 | GEO

A Spatially-Defined Metastasis-Associated Microglia Subset Promotes Brain Metastasis Outgrowth through Cx3cr1-Mediated Interferon Response

Project description:A Spatially-Defined Metastasis-Associated Microglia Subset Promotes Brain Metastasis Outgrowth through Cx3cr1-Mediated Interferon Response

| PRJNA488552 | ENA

Platelets favor the outgrowth of established metastases

Project description:Despite abundant evidence demonstrating that platelets foster metastasis, anti- platelet agents have low therapeutic potential due to the risk of hemorrhages. In addition, whether platelets can regulate metastasis at the late stages of the disease remains unknown. In this study, we subjected syngeneic models of metastasis to various thrombocytopenic regimes to show that platelets provide a biphasic contribution to metastasis. While potent intravascular binding of platelets to tumor cells efficiently promotes metastasis, platelets further support the outgrowth of established metastases via immune suppression. Genetic depletion and pharmacological targeting of the platelet-specific receptor GPVI in humanized mouse models efficiently reduced the growth of established metastases, independently of active platelet binding to tumor cells in the bloodstream. Our study is the first to demonstrate therapeutic efficacy when targeting animals bearing growing metastases. It further identifies GPVI as the first molecular target whose inhibition can impair metastasis without inducing collateral hemostatic perturbations.

2024-03-10 | E-MTAB-13864 | biostudies-arrayexpress

Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

Project description:Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

| PRJNA420348 | ENA

Transcriptome analysis during axillary shoot outgrowth

Project description:In plant axillary bud dormancy and outgrowth are regulated by phytohormones, but it is still unknown about its molecular mechanism. We reveal that Arabidopsis axillary buds located at axil of rosette leaves show dormancy and that this is broken by the decapitation of main stem, resulting in the bud outgrowth. To investigate about the molecular mechanisms of dormancy and outgrowth, we carried out gene expression analysis during axillary shoot outgrowth in Arabidopsis wild type Columbia accession. Since axillary buds did not initiate outgrowth (dormancy) at 5 day after bolting of main stem, we used 5-day bolted plants as a control (before decapitation). Then, main stems were decapitated, and axillary shoots were collected at 24 hours after decapitation (named as growing shoot). Total RNA was prepared from either control or growing shoots and used for the microarray analysis. We carried out duplicate microarray analysis using independent plant materials.Ref):Tatematsu et al., Plant Physiol. 138: 757-766 (2005). Keywords: Expression profilling by array 4 samples were used in this experiment

2009-11-17 | E-GEOD-18987 | biostudies-arrayexpress

Transcriptome and chromatin changes during CRC organoid outgrowth as proxy for metastatic outgrowth

Project description:Transcriptome and chromatin changes during CRC organoid outgrowth as proxy for metastatic outgrowth

| PRJNA853548 | ENA

Transcriptome analysis during axillary shoot outgrowth

Project description:In plant axillary bud dormancy and outgrowth are regulated by phytohoromones, but it is still unknown about its molecular mechanism. We reveal that Arabidopsis axillary buds located at axil of rosette leaves show dormancy and that this is broken by the decapitation of main stem, resulting in the bud outgrowth. To investigate about the molecular mechanisms of dormancy and outgrowth, we carried out gene expression analysis during axillary shoot outgrowth in Arabidopsis wild type Columbia accession. Since axillary buds did not initiate outgrowth (dormancy) at 5 day after bolting of main stem, we used 5-day bolted plants as a control (before decapitation). Then, main stems were decapitated, and axillary shoots were collected at 24 hours after decapitation (named as growing shoot). Total RNA was prepared from either control or growing shoots and used for the microarray analysis. We carried out duplicate microarray analysis using independent plant materials.Ref):Tatematsu et al., Plant Physiol. 138: 757-766 (2005). Keywords: Expression profilling by array

2009-11-18 | GSE18987 | GEO

Transcription profiling of mouse neurite outgrowth and regeneration (super series)

Project description:This SuperSeries is composed of the following subset Series:; GSE9738: Analysis of gene expression during neurite outgrowth and regeneration (430A and 420A 2.0 array); GSE9739: Analysis of gene expression during neurite outgrowth and regeneration (MG-U74A); GSE9740: Analysis of gene expression during neurite outgrowth and regeneration MG-U74B Experiment Overall Design: Refer to individual Series

2008-04-10 | E-GEOD-9744 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data