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Sequencing-based assays (Page 119)
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GSE156361: Role of c-Myc haploinsufficiency in the maintenance of HSCs
Here we report a dosage effect of c-Myc on hematopoiesis and its distinct role in mediating the Wnt/...
GSE154567: Single cell RNAseq reveal covid19 patient immune response
Eighteen patients admitted to CSMC and diagnosed with COVID19 by RT-PCR were stratified into COVID19...
GSE157476: NAIL: an evolutionarily conserved lncRNA essential for coordinating p38 activation and NFB mediated chromatin remodelling in inflammation_4
We report the differential gene expression analysis of lncRNAs in wild-type, p65 KO and IKK2 KO MEFs...
GSE146681: Identification of a nerve-associated, lung-resident interstitial macrophage subset with distinct localization and immunoregulatory properties [bulk-seq]
Tissue-resident macrophages are a diverse population of cells that perform specialized functions inc...
GSE154202: Role of HRP2 in mixed lineage leukemia compared to its paralog LEDGF/p75
Mixed lineage leukemia-rearranged (MLLr) leukemia is a genetically distinct subtype of leukemia driv...
GSE156904: Integrative analysis of coding, non-coding transcriptome and chromatin accessibility reveals a distinct gene expression and epigenetic landscape in human memory B cells
Memory B cells (MBCs) are long-lived and rapidly respond to cognate antigen with production of high-...
GSE153077: Targeting Smyd3 by antisense oligonucleotides attenuates liver tumor growth
We investigated whether pharamacological inhibition of Smyd3 by antisense oligonucleotides (ASOs) ca...
GSE156487: IER5 is required for Notch-mediated induction of squamous cell differentiation [RNA-seq]
Conditional activation of Notch in squamous cells activates a context-specific gene expression prog...
GSE154646: RNA-seq analysis of various colon cancer cell lines treated with TGFb1 and repsox
Four cancer cell line, ie SW480-Vector, SW480-TET2, SW620-Vector and SW620-TET2 were treated with tg...
GSE150077: Interleukin-18 and cytotoxic impairment are independent and synergistic causes virus-induced hyperinflammation in mice
To determine the effects of excess IL-18 on virus-induced immunopathology, we infected Il18-transgen...
GSE147882: Transcriptome profiling of organoids and tissues derived from murine oviductal and ovary surface epithelium (OSE) to study high-grade serous ovarian cancer (HG-SOC)
Purpose: Transcriptome profiling of organoids/tissues derived from murine oviduct and OSE was perfor...
GSE150937: RNA-binding Protein ZFP36L2 Downregulates Helios Expression and Suppresses the Function of Regulatory T Cells
The zinc finger protein 36-like 2, ZFP36L2, is a member of a small family of RNA-binding proteins co...
GSE154644: CX3CL1 and IL-15 Promote CD8 T Cell Chemoattraction in HIV and in Atherosclerosis
Atherosclerotic cardiovascular disease (ASCVD) remains an important cause of morbidity in the gen...
GSE145273: Integrated single-cell analysis reveals coupled molecular gradient and functional subnetworks in the thalamic reticular nucleus
The thalamic reticular nucleus (TRN), the major source of thalamic inhibition, is known to regulate ...
GSE156454: Breast Cancer Stem Cells Regulated Phenotypic Equilibrium Drives Tamoxifen Resistance
Breast cancers consist of heterogeneous cellular subpopulations that differ in molecular properties ...
GSE156648: Gene expression data from IMR90 Control, IMR90 HRAS-G12V, IMR90 HRAS-G12V+shDOT1L, IMR90 DOT1L Overexpression
Oncogene-induced senescent cells display a robust change in their epigenome and have increased trans...
GSE156966: Gene expression profiling of murine BCR-ABL+ CDK6-wt and CDK6-KO cells
Dertermination of chromatin accessibility in murine BCR-ABL+ CDK6-wt and CDK6-KO cells SOURCE: Mark...
GSE150264: Reduced Brd1 expression leads to reversible depression-like behaviors and gene-expression changes in female mice [anterior cingulate cortex (aCC)]
Background: The schizophrenia associated gene, BRD1, encodes an epigenetic regulator which chromatin...
GSE157560: pan-Kinase degrader response time course
Targeted protein degradation (TPD) refers to the use of small molecules to induce ubiquitin-dependen...
GSE149335: A Hedgehog-FGF signaling axis patterns anterior mesoderm during gastrulation
Single cell technologies hold promise for resolving complex early developmental phenotypes. Here we ...
GSE148038: Ythdf m6A readers compensate each other in a context dependent manner [3'UTR RNA-seq]
YTH domain family proteins Ythdf1, Ythdf2, Ythdf3 are three readers with highly similar structure, w...
GSE157360: AK-192_pmel-BO112
Bulk Tumor RNAseq of B16-JAK1KO tumor cells after exposure to vehicle or BO112 SOURCE: Anusha Kalbas...
GSE154546: Transcriptom analysis of normal and Slug overexpressing human endothelial cells in a 3D fibrin-gel bead angiogenesis assay
Purpose:To identify transcriptional changes in human endothelial cells (HUVEC) both during normal sp...
GSE148146: The role of lncRNA Sarrah in human cardiomyocytes
Long non-coding RNAs (lncRNAs) contribute to (patho)physiological processes in the heart. Aging is t...
GSE150936: ALKBH1 deficiency leads to loss of homeostasis in human diploid somatic cells
DNA N6-methyladenosine (6mA) in eukaryotic genomes has recently been observed in diverse species. 6m...
GSE148135: Organoid-transplant model systems to study the effects of obesity on the pancreatic carcinogenesis in vivo
Pancreatic ductal adenocarcinoma (PDAC) is the third leading cause of cancer-related mortality among...
GSE148075: Wild mice with different social network sizes vary in brain gene expression
Background; Appropriate social interactions influence animal fitness by impacting several processes,...
GSE157282: Gene expression changes in hiPS-derived cardiomyocytes under R-2HG exposure and doxorubicin treatment
RNA sequencing and immunostaining in hiPS-derived cardiomyocytes indicated that the oncometabolite R...
GSE157194: Atopic dermatitis displays stable and dynamic skin transcriptome signatures
To gain a deeper understanding of the atopic dermatitis (AD) skin transcriptome and the effects of s...
GSE153556: Endogenous glucocorticoid signaling regulates effector differentiation and development of dysfunction in CD8+ T cells in the tumor microenvironment
Identifying signals in the tumor microenvironment (TME) that shape CD8+ T cell phenotype can inform ...
GSE156689: Transcriptional Profile of Brain Endothelial Cells in Response to Perturbations of Glutamatergic Neural Acticity
Bulk RNA sequencing of Brain Endothelial Cells from brain regions that underwent 3 hours of DREADDs-...
GSE148178: Cardiolipin is required for membrane docking of mitochondrial ribosomes and protein synthesis
The mitochondrial inner membrane contains a unique phospholipid known as cardiolipin (CL), which sta...
GSE149442: Role of Gdpd3 in chronic myelogenous leukemia stem cells
We examined gene expression profiling in long-term chronic myelogenous leukemia (CML) stem cells iso...
GSE156515: Profiling the mRNA pattern in B3GALT5 knockout hESCs cultured in basal and 2iLAF media
We analyzed the RNA expression pattern in B3GALT5-Knockout H9 cells (B3GALT5-KO) relative to wild ty...
GSE154649: Next generation sequencing to reveal the transcriptome of a DUX4 inducible FSHD model
Bulk RNA sequencing was performed on a CML derived cell line, which contains an TET-ON inducible sys...
GSE150349: Next Generation Sequencing Facilitates Quantitative Analysis of Msx1-overexpressed and Control C2C12 Cells Transcriptomes
Purpose: RNA-seq analysis to evaluate the impact of Msx1-overexpression on the transcriptome of C2C1...
GSE156578: Temporal transcriptomic analysis of Tfh cells in lupus
Spleens were harvested from B6.Sle1.Yaa at 2, 4, and 7 months of age or from LCMV infected mice 8 da...
GSE150017: Basal gene expression in Daxx deficient murine pancreas
We conducted basal gene expression analysis from total pancreas isolated from six week old mice SOUR...
GSE156208: Gene expression changes associated with malignant transformation of oral potentially malignant disorders
A large number of oral squamous cell carcinomas (OSCCs) are believed to be preceded by oral potentia...
GSE150835: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type (WT) and E4BP4 Overexpressed Liver Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE149441: RNAseq analysis of resting and TDM-stimulated DGCR8-deficient macrophages
Pathogenic mycobacteria subvert immune responses to survive and replicate in macrophages. Mycobacter...
GSE153461: RNA-seq analysis of Scn1a +/- mouse
In this study we recapitulated in the mouse, an SCN1A mutation found in a human Dravet syndrome (DS)...
GSE157569: Brown adipose expansion and remission of glycemic dysfunction in obese SM/J mice
The purpose of the study was to identify differential expression in the interscapular brown adipose ...
GSE150151: RNA-seq analysis of Men1-/- versus Men1wt MN1-driven AML
Purpose: To characterize transcriptional changes associated with homozygous inactivation of Men1 in ...
GSE154949: Changes in DNA methylation accompany changes in gene expression during chondrocyte hypertrophic differentiation in vitro.
BACKGROUND: During osteoarthritis (OA), articular chondrocytes undergo phenotypic changes that resem...
GSE149454: Prm2 deficiency triggers a Reactive Oxygen Species (ROS)-mediated destruction cascade during epididymal sperm maturation in mice
Protamines are the safeguards of the paternal sperm genome. They replace most of the histones during...
GSE156212: Effects of vitamin D on non-specific inflammatory response in aged skin.
We have previously demonstrated older skin exhibits increased sterile inflammation 6 hours after sal...
GSE150872: Coupled single cell RNA-seq and intracellular protein activity reveals immune-suppressive role of Trem2 in cancer I
Cell function and activity is regulated through integration of signaling, epigenetic, transcriptiona...
GSE157518 (human): VISTA re-programs macrophage biology through the combined regulation of tolerance and anti-inflammatory pathways
1) BMDMs treated with anti-VISTA under tolerizing and immunizing conditions. 2) Time course analysis...
GSE152474: Transcriptomic profiling in juvenile P23H Retinitis Pigmentosa mouse retinas
Neuronal plasticity of the inner retina has been observed in response to photoreceptor degeneration....
GSE156204: ext Generation Sequencing Facilitates Quantitative Analysis of Wild Type and MAP4K1-/- tumor inflitrating T cell Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE157419: Transcriptome information of RAW-Rv3722c and RAW-Vector cell lines
RAW-Rv3722c and RAW-Vector cells were collected for RNA extraction and subject to transcriptome sequ...
GSE155641: G-protein coupled receptor Gpr115 (Adgrf4) is required for enamel mineralization mediated by ameloblasts
Dental enamel, the hardest tissue in the human body, is derived from dental epithelial cell amelobla...
GSE157383: RNA-seq analysis of human breast cancer cell lines treated with abemaciclib
We measured changes in gene expression after treatment of human breast cancer cell lines with abemac...
GSE106290: Induced MIST1 and PTF1a Expression in Pancreatic Ductal Adenocarcinoma Cells
Purpose: The goal of the study was to determine the effects of forced expression of the acinar trans...
GSE103872: The CCR4-Not complex is a tumor suppressor in Drosophila melanogaster eye cancer models
The CNOT3 protein is a subunit of the CCR4-Not complex, a cytoplasmic protein complex mediating mRNA...
GSE110499: Single cell RNA sequencing of multiple myeloma II
To investigate the relationship between genetic and transcriptional heterogeneity in a context of ca...
GSE150865: Atg7-dependent autophagy regulates the naive to primed transition by selective Nanog degradation in mouse embryonic stem cells [RNA-seq]
Autophagy is a conserved cellular mechanism to degrade unwanted cytoplasmic proteins and organelles ...
GSE155106: Human dendritic cell and macrophage response to SARS-CoV-2 infection
The goal of this study is to use RNA-sequencing to profile the transcriptional changes in human PBMC...
GSE157593: Effects of long-term and brain-wide colonization of peripheral bone marrow-derived myeloid cells in the CNS
This dataset allows for the exploration of irradiation and long-term monocyte engraftment on gene ex...
GSE154852: Stromal upregulation of SOX2 promotes tumorigenesis through the generation of a SFRP1/2-expressing cancer-associated fibroblast population [Quant-seq]
Although how CAFs impact the tumor epithelium is being progressively unveiled, transcriptional proc...
GSE156221: Anti-cancer activity of Cotyledon orbiculata extract
We investigated the effects of the crude extract of a South African medicinal plant, Cotyledon orbic...
GSE149508: Gene Expression Patterns of Quiescent and Activated Mouse Primary Hepatic Stellate Cell (HSC)
Liver fibrosis is a manifestation of chronic liver injury. It leads to hepatic dysfunction and is a ...
GSE157325: mTOR inhibition by INK128 extends ovarian functions in aging and premature aging mice following germline stem cell transplantation
Germline stem cell transplantation in combination with mTOR inhibition by INK128 can improve and ext...
GSE107932: Global transcriptional changes in U87MG glioblastoma cells upon shRNA-mediated TRIM52 knockdown
shRNA-mediated ablation of the RING-finger protein TRIM52 from multiple glioblastoma cell lines redu...
GSE154677: Zinc Uptake and Storage During the Formation of the Cerebral Cortex in Mice
The aim of this work was to analyse the transcriptome of the mice cerebral cortex (or neocortex) dur...
GSE104788: Easy characterization of transcription by Chromatin-Associated Transcript sequencing
In the last decade, new high-throughput sequencing techniques have revealed the complexity of the hu...
GSE157594: Subacute toxicity study of nicotinamide mononucleotide via oral administration
To investigate genome-wide gene expression changes induced by 1340mg/kg/d or 2680mg/kg/d NMN adnimis...
GSE154679: Single cell gene expression of melanocyte specific Braf mutant mouse skin
Mutational activation of the BRAF proto-oncogene in melanocytes reliably produces benign nevi (pigme...
GSE148380: Analysis of FGF20-regulated genes in differentiating cochlear hair and supporting cell progenitors via ribosome affinity purification
Background: Understanding the developmental mechanisms that regulate hair cell differentiation in th...
GSE150679: RNA-seq analysis of gestationally Cd-exposed hepatic transcriptome
We report the RNA-sequencing analysis of hepatic RNA isolated from CD-1 mice following gestational e...
GSE155133: Ribosomal profiling of WT and mORF4/NBDY KO hearts [WT_vs_mORF4-NBDYKO_RNAseq]
Left ventricles from the hearts of adult WT and mORR4/NBDY KO mice were obtained. SOURCE: Eva van Ro...
GSE153341: Batf3 programs CD8 T cell memory
Anti-viral CD8 T cell responses are characterized by an initial activation/priming of T lymphocytes ...
GSE155019: The Innate Immune Factor IRF3 Reduces Adipose Thermogenesis via ISG15-mediated Reprogramming of Cellular Metabolism
Purpose: Interferon regulatory factor 3 (IRF3) is activated by pro-inflammatory cytokines, but its r...
GSE148382: PWWP2A variant NuRD complex represses intragenic spurious transcription initiation
H3 trimethylation at K36 deposited over the body of actively transcribed gene, is recognized by read...
GSE156340: Dynamic changes in RNA-chromatin interactome promote endothelial dysfunction (RNA-seq)
Chromatin-associated RNA has been proposed as a type of epigenomic modification. Here, we test wheth...
GSE157442: PRKCQ-dependent transcriptome in MyLa and HuT 78 cells
Transcriptional profiling controlled by PRKCQ of human CTCL cell lines MyLa and HuT 78 comparing cel...
GSE154682: CD95 suppresses immune infiltration in a model of triple negative breast cancer
CD95 acts as an immune suppressor for TNBC tumors when grown in syngeneic mice. 4T1 cells were grown...
GSE148515: Epigenetic Profiling of Cardiac Pacemaker Cells Reveals a Conserved Isl1 Enhancer That Regulates Sinoatrial Node Development and Function
Cardiac pacemaker cells (PCs) in the sinoatrial node (SAN) have a distinct gene expression program t...
GSE148583: Heme oxygenase-1 orchestrates the immunosuppressive program of tumor-associated macrophages [RNA-Seq]
Tumor-Associated Macrophages (TAMs) contribute to the maintenance of a strong immunosuppressive envi...
GSE155201: EBV LMP1 manipulates the content and functions of extracellular vesicles to enhance metastatic potential of recipient cells [RNA-seq]
Here, we report EBV oncogene LMP1 modified EV have the ability to enhance metastatic potential of no...
GSE157615: CircRNA ARFGEF1 functions as a ceRNA to promote oncogenic KSHV-encoded viral interferon regulatory factor induction of cell invasion and angiogenesis by upregulating glutaredoxin 3
To understand the regulatory work of KSHV vIRF1, we profiled dysregulated RNAs by RNA-seq. SOURCE: X...
GSE152506: Spatial Transcriptomics and In Situ Sequencing to Study Alzheimers Disease
While complex inflammatory-like alterations are observed around the amyloid plaques of Alzheimer dis...
GSE156501: Chidamide used in MM primary cells [RNA-seq]
Most patients with multiple myeloma (MM) will eventually relapse and current treatments have limited...
GSE153367: Transcriptional Sequencing of Epicardium-Derived Cells from the Mouse Embryo
The goal of this study was to perform transcriptional profiling of epicardium-derived cells during c...
GSE155130: Transcriptomic analysis of shCtrl and shCTCL organoids by bulk RNA-seq
To explore the mechanism for the role of CTCLduring cortical development, we compaired the transcrip...
GSE49379 (human): Large-scale multi-species survey of metabolome and lipidome
This dataset was generated with the goal of comparative study of gene expression in three brain regi...
GSE157622: The RNA-binding protein SFPQ preserves long-intron splicing and regulates circRNA biogenesis
Circular RNAs (circRNAs) represent an abundant and conserved entity of non-coding RNAs, however the ...
GSE53481: Cell cycle positioning drives heterogeneity within the pluripotent stem cell compartment
Heterogeneity in pluripotent cells marks a metastable state where cells may drift between native and...
GSE156534: TRF2-mediated telomere protection is dispensable in pluripotent stem cells
Transcriptional response to telomere dysfunction in ES and differentiated cells SOURCE: Eros Lazzeri...
GSE157462: Comparison of macrophages that have or have not received mitochondria from adipocytes in vivo
Epididymal white adipose tissue from adipocyte-specific mitochondria reporter (MitoFat) mice was har...
GSE34448: RNA Subcellular CAGE Localization from ENCODE/RIKEN
This data was generated by ENCODE. If you have questions about the data, contact the submitting labo...
GSE36952: Transcriptome wide analysis of classically and alternatively activated macrophages
Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The...
GSE51403: RNA-seq differential expression studies: more sequence, or more replication?
Motivation: RNA-seq is replacing microarrays as the primary tool for gene expression studies. Many R...
GSE154897: Investigating the role of DOCK8 in T follicular helper cells positioning and function in germinal centers
T follicular helper (Tfh) cell migration into germinal centers (GC) is essential for the generation ...
GSE148460: Role of human CYP2B6 in vivo in diet-induced obesity
To investigate the role of human CYP2B6 in vivo under high-fat diet conditions, we compared our pre...
GSE155270: ZNF354C is a transcriptional repressor that inhibits angiogenesis in endothelial cells
RNA-Sequencing of human microvascular endothelial cells (HMEC) that overexpressed ZNF354C demonstrat...
GSE156258: Genome-wide analysis of the JAM-C over-expressed trophoblasts
During pregnancy, trophoblasts in the placenta are important in the success of pregnancy. We identif...
GSE157526: Single cell resolution of SARS-CoV-2 tropism, antiviral responses, and susceptibility to therapies in primary human airway epithelium
The human airway epithelium is the initial site of SARS-CoV-2 infection. We used flow cytometry and ...
GSE151015: The transcription factor EGR2 is the molecular linchpin connecting STAT6 activation to the stable epigenomic program of alternative macrophage polarization
Macrophages polarize into functionally distinct subtypes while responding to microenvironmental cues...