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Sequencing-based assays (Page 32)
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GSE66173: Genetic disruption of COX-1 inhibits multiple oncogenic pathways
We performed RNA sequencing in isogenic models of COX-1 proficient (OV3/SCR) and COX-1 deficient (OV...
GSE105792: T47D RNA-seq and ChrRNA-seq data
We performed genome-wide RNA-seq and ChrRNA-seq experiments in T47D cell lines after PADI2 knock do...
GSE126849: Role of TLR9 signaling in GC response
NGS analysis of transcriptomes of MyD88 sufficient vs deficient GC B cells SOURCE: Eric,Joseph,Wigto...
GSE60648: From mouse to humans: detecting preventing vaccination targets associated to melanoma cancer stem cells. Gene-level analysis: TUBO
The efficacy of cancer treatments have improved constantly in the last decade. However, therapeutic ...
GSE64451: Pervasive transcription read-through promotes aberrant expression of oncogenes and RNA chimeras in renal carcinoma
Aberrant expression of cancer genes and non-canonical RNA species is a hallmark of cancer. However, ...
GSE124369: Inducible bronchus-associated lymphoid tissues (iBALT) serve as sites of B cell selection and maturation following influenza infection in mice
GC-like structures within iBALT serve as a distinct niche that independently support the maturation ...
GSE64008: Nucleoporin Nup153 Regulates Stem Cell Pluripotency through Gene Silencing
Nucleoporins (Nups) are a family of proteins best known as the constituent building blocks of nuclea...
GSE64590: Estrogen Receptor Beta Impacts Hormone-Induced Alternative mRNA Splicing in Breast Cancer Cells
Estrogens play an important role in breast cancer (BC) development and progression, where the two is...
GSE98527: Mouse lung transcriptome response to infection with H1N1, H3N2, and H5N1 influenza virus.
The cellular transcriptome of C57BL/6 mouse lungs was profiled by mRNA-Seq analysis at multiple time...
GSE63794: Apoptotic caspases prevent the induction of type I interferons by mitochondrial DNA
RNA sequencing of wild-type or Interferon Alpha receptor 1 Knockout MEF cells treated with DMSO or t...
GSE100546: Defining the responses governing disease tolerance during Citrobacter rodentium infection of mice by deep RNA sequencing
We performed deep RNA sequencing and systematically analyzed the global gene expression profiles of ...
GSE63493: Inhibition of miR-29 has a significant lipid-lowering benefit through suppression of lipogenic programs in liver
MicroRNAs (miRNAs) are important regulators and potential therapeutic targets of metabolic disease. ...
GSE100971: Next Generation Sequencing of total RNA from 9 bladder cancer cell lines and 3 fractionated bladder cancer cell lines
We profile the cell line expression of 279 circRNAs, that are highly expressed across 457 bladder ca...
GSE119108: Apoptotic endothelial cells release nanovesicles loaded with immunostimulatory viral-like RNAs
Purpose: Compare the RNA content of apoptotic human umbilical vein endothelial cells (HUVECs)-releas...
GSE61389: MEF2D drives photoreceptor development through a genome-wide competition for tissue-specific enhancers (RNA-Seq)
Organismal development requires the precise coordination of genetic programs to regulate cell fate a...
GSE64455: Regulation of B cell early development by CNOT3
The CCR4-NOT complex, bearing poly(A) deadenylation activity, is a highly conserved regulator that i...
GSE98423: Analysis of transcriptional differences between ZIKV-infected Ifnar-/- and Ifnar+/- placentas
Purpose: While type I interferons (IFN) are important for control of viral replication, we see that,...
GSE64545: Msi2 sustains the MLL leukemia stem cell regulatory program
Leukemia stem cells (LSCs) are found in most aggressive myeloid diseases and contribute to therapeut...
GSE114981 (mouse): Activation of HOTTIP lncRNA perturbs HSC function leading to AML like disease
We found that posterior HOXA-associated HOTTIP lncRNA is aberrantly activated in MLL-rearranged AMLs...
GSE64099: Transcriptome profiling for genes transcriptionally regulated by Smchd1 in lymphoma cell lines.
Purpose: The aim of this study is to identify genes that are under the transcriptional control of th...
GSE70351: Oncogene-dependent regulation of tumor cells via stromal reciprocal signalling
Cancer is a heterocellular disease composed of tumor cells and stromal cells. Although stromal cells...
GSE147832 (human): Cell type- and replication stage-specific influenza virus responses in vivo
We used two different influenza viruses lacking either PB1 or HA to differentiate the antiviral resp...
GSE66484: PDGF and FGF treatment in E13.5 MEPMs II
PDGF and FGF treatment in E13.5 MEPMs. 4 hr PDGF treated MEPMs (3 replicates), 4 hr FGF treated MEP...
GSE109565: Identification of transcriptome and metabolome signatures of fatty liver disease in HepaRG cells exposed to PCB 126 and glyphosate
We provide here the alterations in gene expression profiles of HepaRG cells, a validated model for c...
GSE66231: Effect of pharmacological inhibition of ASBT on bile composition and sclerosing cholangitis in mdr2 knockout mice
We report the effect of a potent pharmacological inhibition of ASBT in mdr2 -/- mice, compared to ge...
GSE66550: Efficient and quantitative high-throughput transfer RNA sequencing
Despite its biological importance, transfer RNA (tRNA) could not be adequately sequenced due to the ...
GSE129186: RNA sequencing of WT and AICDA KO iPCS clones
We report AICDA facilitates nave pluripotency of mouse iPSCs by suppressing FGF/ERK signaling. In th...
GSE66243: Circadian rhythm in NIH3T3 cells
Identification of cyclical expressed coding and non-codind genes during the circadian rhythm in NIH3...
GSE66264: Myelodysplastic syndrome: NUP98-HoxD13 (NHD13) expression effect on hematopoietic stem cells
Analysis of Lin-c-Kit+Sca-1- haematopoietic stem cells (HSCs) expressing the Nup98-HoxD13 (NHD13) fu...
GSE64771: Top2a identifies and provides epigenetic rationale for novel combination therapeutic strategies for aggressive prostate cancer
We perform RNA-seq on matched orthotopic murine primary and metastatic prostate cancer samples to id...
GSE64113: Comparison of poly(A) and capture RNA-seq: controlled degradation in vitro
We compare the performance of two library preparation protocols (poly(A) and exome capture) in in vi...
GSE61523: Epigenetic targeting of activation-induced cytidine deaminase
Precisely how AID is recruited to these off-target sites is not entirely understood. To gain further...
GSE62559: B cell survival and development is dependent on the coordination of NFkappaB family members RelB and cRel
Identify genes which are induced in wild type, crel ko, and relbcrle dbko B cells under BAFF stimul...
GSE131773: RNA-seq of the cultured testis sample of ICR mice treated with busulfan and/or Alginate Oligosaccharides (AOS)
We profiled a RNA-seq on ICR mouse testis. We found that AOS can improve the expression of the gene...
GSE64959: RNA-SEQ analysis of various developing and adult kidney components.
We used micro-dissection techniques and/or FACS to isolate cell types from the developing and adult ...
GSE63497: Deregulation of the Ras-Erk Signaling Axis Modulates the Enhancer Landscape [RNA-seq]
Unrestrained receptor tyrosine kinase (RTK) signaling and epigenetic deregulation are root causes of...
GSE70849: The DAXX/ATRX Complex Protects Tandem Repetitive Elements in the Absence of DNA Methylation by Promoting H3K9 Trimethylation [RNA-Seq]
In mammals, DNA methylation is essential for protecting repetitive sequences from aberrant transcrip...
GSE112213: Next Generation Sequencing of LdlrKO LXR-phosphorylation disrupted macrophage transcriptomes
Liver X Receptors (LXR and ) are ligand-activated transcription factors that play a key role in the ...
GSE63048: MORC1 represses transposable elements in the mouse male germ line
The Microrchidia (Morc) family of GHKL ATPases are present in a wide variety of prokaryotic and euka...
GSE66286: Chromatin Response to UV Damage
These findings reveal the global chromatin response to UV damage and its relation to impaired gene r...
GSE65713: Dynamics and Function of Distal Regulatory Elements during Neurogenesis and Neuroplasticity
Gene regulation in mammals involves a complex interplay between promoter and distal regulatory eleme...
GSE64138: Pachytene piRNAs target endogenous mRNAs for silencing during meiosis
During embryonic germ cell development in mice, transposon-enriched, piwi-interacting RNAs (piRNAs) ...
GSE64489: Allele-specific regulation of gene expression through enhancer function and transcriptional elongation control at imprinted loci
Genomic imprinting is a critical developmental process characteristic of parent-of-origin- specific ...
GSE128866: C19ORF66 broadly escapes viral-induced endonuclease cleavage and restricts Kaposis Sarcoma Associated Herpesvirus (KSHV)
We report the application of RNA-seq to identify the mRNA targets of 4 herpesviral endonucleases and...
GSE64510: Analysis of Nestin-GFP+ pericytes from adipose tissue: PDGFRa wild type versus PDGFRa+/D842V (constitutively active mutant)
Analysis of Nestin-GFP+ pericytes flow sorted from 3-day-old mouse cutaneous adipose tissue, compari...
GSE65337: RNA-sequencing of Postnatal Day 10 Wild-type and Nfix KO Subventricular Zone-derived Primary Monolayer-cultured Neural Stem Cells
Purpose: To study the mechanisms involved in the regulation by NFIX on neural stem cell development ...
GSE129138: Selenium Deficiency is Associated with Pro-Longevity Mechanisms
Selenium deficiency in mice is associated with pro-longevity mechanisms due to reduced amino acid le...
GSE62874: The Partitioning of RNAs in sperm
A diverse pool of RNAs remain encapsulated within the transcriptionally and translationally silent s...
GSE64526: RNA-SEQ profiling of mouse whole midbrain and dopaminergic neurons from the mouse mid-brain
RNA-SEQ profiling of mouse whole midbrain and dopaminergic neurons from the mouse mid-brain SOURCE: ...
GSE65299: ALKBH1-Mediated Transfer RNA Demethylation
Transfer RNA (tRNA) is a central component of protein synthesis and cell signaling network. One sali...
GSE89434: Gene bivalency at Polycomb domains regulates cranial neural crest positional identity [RNA-seq]
The cranial neural crest cells are pluripotent cells that provide head skeletogenic mesenchyme and a...
GSE66312: Spatially heterogeneous choroid plexus transcriptomes encode positional identity and contribute to regional cerebrospinal fluid production
A sheet of choroid plexus epithelial cells extends into each cerebral ventricle and secretes signali...
GSE64642: SIRT6 regulates redox homeostasis in human mesenchymal stem cells by the transactivation of NRF2
We investigated the effect of SIRT6-knockout on gene expression and H3K4me3 modification profile in ...
GSE128910: RNA-seq on AML patient samples and umbilical cord blood derived CD34+
We aim to identify differentially expressed genes between AML patient samples and normal hematopoeit...
GSE64179: Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells (mRNA-Seq)
DNA methylation is an epigenetic mark thought to be robust to environmental perturbations on a short...
GSE86460: Comparison of mRNA expression profiles of 3q21q26 and 3q21q26::Gata2+/ mouse leukemic cells
The 3q21q26 mice harboring a transgene recapitulating GATA2 enhancer-drived EVI1 overexpression in i...
GSE67835: A survey of human brain transcriptome diversity at the single cell level
We used single cell RNA sequencing on 466 cells to capture the cellular complexity of the adult and ...
GSE70352: RNA-sequencing analysis of liver from mice overexpressing miR-30c
This study aims to investigate the role of microRNA-30c on hepatic and metabolic gene expression and...
GSE102312: RNA-sequencing of Chronic Myelomonocytic Leukemia and healthy donors bone marrow samples
RNA-seq of bone marrow samples of chronic myelomonocytic leukemia (CMML) patients and healthy donor...
GSE65349 (human): SRSF2 mutations impair hematopoiesis and alter exon recognition
Mutations within genes encoding spliceosomal proteins are the most common class of mutations in pati...
GSE65543: Identification of the miRNA targetome in hippocampal neurons using RIP-seq
We established a neuron-specific Argonaute2:GFP-RNA immunoprecipitation followed by high throughput ...
GSE100811: Transcriptomics analysis in 3T3L1 preadipocytes with activation of p53 via Nutlin-3a treatment
3T3L1 preadipocytes were treated with DMSO control and Nutlin-3a (prepared in DMSO) and total RNA e...
GSE98913: Cortical gene expression profiles in the forebrain-specific Foxp1 conditional knockout (cKO) mice at P0 and P7.
Examination of 2 different developmental time points (P0 and P7) in the cortex of control and Foxp1 ...
GSE61602: Opposing Roles for C/EBP and Notch in Irradiation-induced Hematopoietic Stem Cell Defects
Ionizing radiation (IR) has long been associated with reduced hematopoietic function and increased m...
GSE102086: Single Cell and Open Chromatin Analysis Reveals Molecular Origin of Epidermal Cells of the Skin
Skin and its appendages such as hair follicle and sweat gland are formed by Keratin-5 expressing (Kr...
GSE97666: RNA-seq analysis of regulatory T cells in thymus, placenta, spleen and white adipose tissue of pregnant mice
In this study we performed RNA sequencing to determine and compare the transcriptome of regulatory T...
GSE62042: Transcriptome analyses of cortical projection neurons and interneurons via Tbr2(Eomes)-mediated transgenic lineage tracing
In the cerebral cortex, projection neurons and interneurons work coordinately to establish functiona...
GSE65364: Single Cell triple omics sequencing reveals genetic and epigenetic heterogeneity in hepatocellular carcinoma
Single cell genome, DNA methylome, and transcriptome sequencing has been achieved separately. Howeve...
GSE133159: Next Generation Sequencing Facilitates Quantitative Analysis of self-reactive B cells Transcriptomes in PPs
Purpose: The purpose of this study is to identify novel regulator of B cell tolerance to gut associa...
GSE62826: Environment Drives Selection and Function of Enhancers Controlling Tissue-Specific Macrophage Identities
Macrophages reside in essentially all tissues of the body and play key roles in innate and adaptive ...
GSE62579: Prostaglandin E2-mediated T cell suppression requires expression of hydroxyprostaglandin dehydrogenase in regulatory T cells.
Prostaglandins are involved in maintaining tissue integrity under homeostatic conditions. However, i...
GSE64824: Hepatic transcriptome profiling of liver-specific Xbp1 knockout mice fed a high fat diet
Xbp1 is an important regulator of unfolded protein response and lipid metabolism. Its dyregulation h...
GSE65246: Expression profiling of E14 cells overexpressing Hk2/Pkm2
Purpose: In this study, we compared transcriptome profiling (RNA-seq) between normal mouse embryonic...
GSE65361: Tcf7 biology in mouse beta-cells
We set out to identify differences in the transcriptome influenced by knockout of the transcription ...
GSE62795: Monocytic myeloid-derived suppressor cells accumulate in the lungs of influenza A virus-infected mice
InfluenzaAvirus (IAV) infection causes an acute respiratory disease characterized by a strong inflam...
GSE108588: GR and LSD1/KDM1A-targeted gene activation requires selective H3K4me2 demethylation at enhancers
NA SOURCE:
GSE64182: Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells (wtRNA-Seq)
DNA methylation is an epigenetic mark thought to be robust to environmental perturbations on a short...
GSE97115: Ebf2 Knockout Brown Adipose Tissue [RNA-Seq]
The helix-loop-helix transcription factor Early B-Cell Factor 2 (EBF2) is required for the different...
GSE65778: The Small Molecule ISRIB Reverses the Effects of eIF2 Phosphorylation on Translation and Stress Granule Assembly
We recently identified ISRIB as a potent inhibitor of the integrated stress response (ISR). ISRIB re...
GSE64880: RNA expression in mutants of the miRNA pathway during myelination
RNA sequencing was performed comparing sciatic nerves of Schwann cell specific DICER mutants with SC...
GSE65112: Genome-wide effect of inhibition of glutamine transporter ASCT2 in PC-3 cells by BenSer or GPNA
To determine the global effects of ASCT2 inhibition, we used next generation sequencing to determine...
GSE95706: mRNA expression data from ESCs derived by polar body transfer reconstructed embryos (PBTESCs)
Here we report the derivation of human PBTESCs from polar body transfer resconstructed embryos. We u...
GSE97640: Gene expression profiling in pre-leukemic hematopoietic stem cells carrying both NrasG12D/+ and Tet2+/- mutations
By using a genetically accurate mouse model, we demonstrate that endogenous expression of oncogenic ...
GSE63738: Next Generation Sequencing Facilitates Comparisons of Control and Schizophrenia-Patient derived hiPSC-derived NPCs
Cell-based models of many neurological and psychiatric diseases, established by reprogramming patien...
GSE93524: Antagonistic activities of Sox2 and Brachyury control the fate choice of neuro-mesodermal progenitors
The spinal cord and mesodermal tissues of the trunk such as the vertebral column and skeletal muscul...
GSE64529: Assembly of methylated LSD1 and CHD1 drives AR-dependent transcription and translocation [RNA-Seq]
The aim of the study is to identify AR target gens in LNCaP cells SOURCE: Eric Metzger Uniklinik-Fre...
GSE97587: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and PVT1 Knockdown by CRISPRi in MDA-MB-231 human breast cancer cell line
Induced MYC expression by CRISPRi targeting PVT1 was validated by RNA-seq SOURCE: Howard,Y.,Chang (h...
GSE65000 (mouse): Human-specific gene ARHGAP11B promotes basal progenitor amplification and neocortex expansion
The evolutionary expansion of the human neocortex reflects increased amplification of basal progenit...
GSE64912: RNA-Sequencing of human papillary thyroid carcinomas
RNA-Sequencing analysis of 18 papillary thyroid carcinoma biopsies and of 4 healthy donors' thyroids...
GSE62063: B cell super-enhancers and regulatory clusters recruit AID tumorigenic activity
The antibody gene mutator AID promiscuously damages oncogenes and B cell identity genes leading to c...
GSE64357: Knockout mice reveal an essential role for Epithelial splicing regulatory proteins (Esrps) in mammalian development and epithelial splicing in vivo
Tissue- and cell-type specific regulators of alternative splicing (AS) are an essential layer of pos...
GSE97929: Endometrial cell-type specific RNA-seq
Cell-type specific RNA-seq is a powerful approach for unravelling molecular processes of endometrial...
GSE64558: A combined genomic approach unveils the transcriptional basis of heterogeneity of human pancreatic ductal adenocarcinoma [RNA-seq]
The histological grade of carcinomas describes the ability of tumor cells to organize differentiated...
GSE61636: Isolation and functional characterization of the arteriole hematopoietic stem cell niche
Hematopoietic stem cells (HSCs) inhabit distinct microenvironments within the adult bone marrow (BM)...
GSE65508: Modeling the early phenotype at the neuromuscular junction of spinal muscular atrophy using patient-derived iPSCs (RNA-Seq)
Spinal muscular atrophy (SMA) is a neuromuscular disorder caused by mutations of the survival of mot...
GSE97685: A versatile drug delivery system targeting senescent cells
Senescent cells accumulate in many ageing-associated diseases such as pulmonary fibrosis, and target...
GSE63857: Comparison of tamoxifen and letrozole response in mammary preneoplasia of ER and aromatase over-expressing mice defines an immune-associated gene signature linked to tamoxifen resistance
To investigate response or resistance to endocrine therapy, mice with targeted over-expression of Es...
GSE61734: mRNA- and RISC-sequencing of mouse hearts overexpressing miR-378a
Rationale: MicroRNAs play key roles in hypertrophic stress responses. miR-378(-3p) is a highly abund...
GSE106579: Functional TRIM24 degraders via conjugation of ineffectual bromodomain and VHL ligands [RNA-Seq 2]
The addressable pocket of a target protein is often not functionally relevant. This is particularly ...
GSE68645: The DAXX co-repressor is directly recruited to active regulatory elements genome-wide to regulate autophagy programs in a model of human prostate cancer (RNA-seq)
This study was aimed at understanding the genome-wide binding and regulatory role of the DAXX transc...