Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

47 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression study of leukemic and premalignant hematopoietic tissues from NUP98-PHF23 (NP23) mice.

ABSTRACT: NUP98-PHF23 is oncogenic and results in a Hoxa/b + Meis1 overexpression in NP23 leukemias and in premalignant (clinically healthy) hematopoietic tissues. Gene expression profiles from AML, pre-T LBL and B-ALL were compared to wild type bone marrow, thymus and spleen tissues respectively. Similarly, gene expression profiles from premalignant (clinically healthy) NP23 bone marrow, thymus and spleen were compared to wild type bone marrow, thymus and spleen tissues respectively. 106A and 748T lymphoblastic cell lines were compared to wild type thymic tissue.

ORGANISM(S): Mus musculus

SUBMITTER: Yuelin Zhu

PROVIDER: E-GEOD-54787 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

NUP98-PHF23 is a chromatin-modifying oncoprotein that causes a wide array of leukemias sensitive to inhibition of PHD histone reader function.

Gough Sheryl M SM Lee Fan F Yang Fan F Walker Robert L RL Zhu Yeulin J YJ Pineda Marbin M Onozawa Masahiro M Chung Yang Jo YJ Bilke Sven S Wagner Elise K EK Denu John M JM Ning Yi Y Xu Bowen B Wang Gang Greg GG Meltzer Paul S PS Aplan Peter D PD

Cancer discovery 20140217 5

In this report, we show that expression of a NUP98-PHF23 (NP23) fusion, associated with acute myeloid leukemia (AML) in humans, leads to myeloid, erythroid, T-cell, and B-cell leukemia in mice. The leukemic and preleukemic tissues display a stem cell-like expression signature, including Hoxa, Hoxb, and Meis1 genes. The PHF23 plant homeodomain (PHD) motif is known to bind to H3K4me3 residues, and chromatin immunoprecipitation experiments demonstrated that the NP23 protein binds to chromatin at a ...[more]

PMID: 24535671

Similar Datasets

Mouse Wild Type Tissue Survey

Project description:Survey of gene expression in 9 types of C57/Bl mouse wild type tissue. RNA was extracted from homogenized whole organs/tissues and include brain, spleen, liver, thymus, kidney, lung, testes, bone marrow, and lymph node. 8 week old male littermate C57/Bl mice

2011-02-17 | E-GEOD-27346 | biostudies-arrayexpress

Papio anubis Transcriptome or Gene expression

Project description:This data set consists of tissue-specific RNA-seq reads from 14 different tissues from a single female adult olive baboon (Papio anubis): bone marrow, brain cerebellum, brain frontal cortex, brain pituitary, brain temporal lobe, colon, heart, kidney, liver, lymph node, spleen, lung, skeletal muscle and thymus. The data set was generated by the non-human primate reference transcriptome resource (NHPRTR) project (http://nhprtr.org/), and was first made public on 14 Jan 2014.

2013-12-09 | E-MTAB-2848 | biostudies-arrayexpress

DNA methylation profiles of 30 tissues from a 112 year old woman

Project description:The main goal of the study was to measure the epigenetic age (also known as DNA methylation age) of these tissues. Toward this end, we used the epigenetic clock software described in Horvath S (n=2013) DNA methylation age of human tissues and cell types. Genome Biology.2013, 14:R115. DOI: 10.1186/10.1186/gb-2013-14-10-r115 PMID: 24138928 Human DNA methylation Beadchip v1.2 was used to obtain n=64 Illumina DNA methylation arrays from 30 tissues. For each of the following tissues, we obtained at least 2 replicates: adipose, adrenal gland, aorta, bone, bone-marrow, breast, buccal cells, cartilage, cerebellum, colon, diaphragm, esophagus , frontal cortex, kidney, heart, hippocampus, liver, lung, lymph node, midbrain, muscle, occipital cortex, pancreas, pericardium skin, spleen, stomach, temporal cortex, thyroid, whole blood.

2015-06-03 | E-GEOD-64491 | biostudies-arrayexpress

Type 1 immunity enables neonatal thymic ILC1 production

Project description:We used scRNA seq to analyze mice organ cells (liver, spleen, thymus and bone marrow) as well as neonatal thymus organ cultures that were treated cytokines IL-12 and IL-18.

2024-03-04 | GSE229632 | GEO

Expression of known and predicted genes in tissues of Gallus gallus (chicken)

Project description:Expression of known and predicted genes in tissues of Gallus gallus (chicken) pooled from multiple healthy individuals. Two-colour experiments with two different tissues hybridized to each array. Each tissue is arrayed in replicate with dye swaps. Tissues: Bursa of Fabricius, Cerebellum, Cerebral cortex, Eye, Femur with bone marrow, Gallbladder, Gizzard, Heart, Intestine, Kidney, Liver, Lung, Muscle, Ovary, Oviduct, Skin, Spleen, Stomach, Testis, Thymus

2010-06-19 | E-GEOD-12974 | biostudies-arrayexpress

Real-time quantitative PCR analysis of expression profiles of dual-specificity phosphatase family members in mouse tissues

Project description:Mouse tissues (including heart, skeletal muscle, brain, lung, stomach, small instestine, colon, liver, kidney, testis, uterus, bone marrow, thymus, lymph node, spleen and embryo) were isolated from three C57BL/6 mice (eight-week-old, uterus from female and other tissues from male). We used Applied Biosystems 7500/7500 Fast Real-Time PCR Systems to quantitate expression levels of DUSP family members in the indicated mouse tissues.

2018-08-17 | GSE72130 | GEO

Gene expression profile of Human tissues and cells

Project description:We performed microarray experiments to examine gene expression in human tissues. This data was used for comparison with our humanized mouse study (GEO ID GSE33846) and threshold determination of our tiling array data (GEO ID GSE18490, public in the near future). A total of 22 tissues (bone marrow, cerebellum, colon, cortex, fetal brain, heart, kidney, liver, lung, pancreas, prostate, salivary gland, skeletal muscle, small intestine, spinal cord, spleen, stomach, testes, thymus, thyroid, trachea and uterus) and 2 cell lines (HeLa and SH-SY5Y) were examined. Total RNA isolated from Human tissues and cell cultures were labeled and hybridized to the GeneChip Human Genome U133 Plus 2.0 Array according to the manufacturer's protocol.

2012-11-12 | E-GEOD-18674 | biostudies-arrayexpress

Genome-scale DNA methylation profiling of TEL/AML positive childhood acute lymphoblastic leukaemia

Project description:DNA methylation profiling of 48 samples to determine a DNA methylation signature specific to leukaemic bone marrow samples. Matching Leukaemia bone marrow and day 28 remission bone marrow or post induction follow up (follow up up to 2 years post induction) genomic DNA were extracted from archived microscope smear slides from 11 children diagnosed with TEL/AML positive Acute Lymphoblastic Leukaemia (ALL). Unmatched bone marrow samples from an additional 8 children were also analysed. Primary tissue control samples from CD34+ and CD19+ bone marrow from adult and childhood samples as well as model cell lines (cancer and non cancerous) were compared to primary diseased samples. Disease specific DNA methylation changes were identified from these results and then verified using SEQUENOM EpiTYPER. A total of 48 samples were analysed by Infinium DNA methylation analysis. As per manufacturer's protocols. Replicates were performed on one primary tumour sample and one cell line sample.

2012-12-31 | E-GEOD-29189 | biostudies-arrayexpress

Transcription profiling of tissues from chickens infected with Chicken Anaemia Virus CAV

Project description:Chicken anaemia virus (CAV) causes severe anaemia and immunosuppression in young chickens. Such effects reduce the efficiency of routine vaccinations while aggravating the effects of other pathogens in chicken populations. So far, the host responses to CAV have not been studied in vivo on a whole genome-wide scale. In this study, we compared gene expression profiles of chicken tissues (thymus, bone marrow, bursa of Fabricius and spleen-in vivo) from SPF chickens at 14-day-old following intramuscular inoculation at day-old. A chicken specific-immune microarray (5k) developed at Roslin Institute was used throughout the study. Statistically significant gene expression changes occurred mainly in the thymus (in vivo).

2008-08-21 | E-MEXP-1228 | biostudies-arrayexpress

Expression data of human induced pluripotent stem cells (hiPSCs), human embryonic stem cells (hESCs) and those differentiated cells.

Project description:We examined hiPSCs, hESCs and those differentiated cells to identify pluripotent signature genes, differentiation marker genes and relationship between expression and phenotypes. Additionally, we performed microarray experiments to examine gene expression in human tissues. This data was used for comparison with hESCs, hiPSCs and those differentiated cells. A total of 22 tissues (bone marrow, cerebellum, colon, cortex, fetal brain, heart, kidney, liver, lung, pancreas, prostate, salivary gland, skeletal muscle, small intestine, spinal cord, spleen, stomach, testes, thymus, thyroid, trachea and uterus) were examined.

2023-05-09 | GSE39144 | GEO

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