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Sequencing-based assays (Page 69)
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GSE144539: Ribosome profiling and RNA-seq of Tsc2+/- hippocampal slices
Tuberous sclerosis (TSC) is caused by loss of function in Tsc2 and haploinsufficiency of the protein...
GSE126276: Nuclear receptors and coregulators in triple negative breast cancer
The underlying mechanisms of how NCOA3 and SHC1 regulate drug response and metastasis of triple nega...
GSE115622: Quiescence modulates stem cell maintenance and regenerative capacity in the aging brain SMART-seq2
Single cell RNA-seq of neural stem cell and astrocytes from old mice SOURCE: Ana Martin-Villalba Ger...
GSE125526: PRC2 proteins EZH1 and EZH2 regulate postnatal hepatic maturation [RNA-seq2]
The inability to derive fully functional cell types, such as hepatocytes, from stem cells may emanat...
GSE119949: Defining Essential Enhancer for Pluripotent stem cells using Features Oriented CRISPR-Cas9 Screen (RNA-Seq 1)
Cis Regulatory Elements (CREs) regulate the expression of the genes in their genomic neighborhoods a...
GSE107635: Neuronal integrity, not activity, drives synaptic material clearance by microglia after CNS injury
Phagocytosis of synaptic debris by microglia is critical for CNS development and homeostasis. Less w...
GSE137970: Next Generation Sequencing Facilitates Quantitative Analysis of TFH2 cell Transcriptomes
Emergence of IgE antibodies that bind allergens with high affinity is highly correlated with the sev...
GSE114781: Regulation of mRNA half-life by an inhibitor of human decapping enzyme Dcp2 following transcription shutoff in HEK293T cells
We report the application of next generation sequencing for measurement of mRNA levels under the eff...
GSE125549: The efficiency of MLL-ENL driven leukemia initiation changes with age and peaks during neonatal development
MLL-ENL target gene expression after fetal or adult induction SOURCE: Jeffrey Magee (magee_j@kids.wu...
GSE115169: Nodal signaling maintains H3K18ac landscape to promote mesendodermal differentiation through TRIM33
The epigenome of a cell is established and maintained by chromatin modifiers and remodelers, which a...
GSE105049: Chemoresistant Cancer-Initiating Cell Expansion is Inhibited by Repurposing a Classic Chemotherapeutic Drug as a Targeted Therapy
Cancer therapeutic resistance remains a critical, unsolved problem. Residual cancer stem cells (CSC...
GSE115641: Nonalcoholic fatty liver, but not nonalcoholic steatohepatitis is a protective factor to tetrachloroethylene-associated kidney effects in male C57BL/6J mice
Purpose: We investigated the tetrachloroethylene associated changes in kidney transcriptomes among h...
GSE114336: Merkel Cells Activate Sensory Neural Pathways through Adrenergic Synapses
Epithelial-neuronal signaling is essential for sensory encoding in touch, itch and nociception; howe...
GSE119973: Gene regulation of PHF6 in mouse developing cortex
we performed RNAseq between WT/KO and WT/C99F to understand the function of PHF6 in gene regulation ...
GSE115364: IDH3a KO RNA-seq
RNA-seq of NHAs with either wild-type IDH3a expression (control) or IDH3a KO via CRISPR/Cas9 SOURCE:...
GSE107671: Setdb1 is essential for meiotic sex chromosome inactivation in mice
Meiotic synapsis and recombination ensure correct homologous segregation and genetic diversity. Asyn...
GSE119711: Elucidating the microRNA-203 specific biological processes in glioblastoma cells from comprehensive high-throughput RNA-sequencing transcriptome profiling
We report the application of high-throughput RNA-sequencing Profile of miR-203 expressing glioma U25...
GSE126262: Remodeling of active endothelial enhancers is associated with aberrant gene-regulatory networks in pulmonary arterial hypertension [RNA-seq]
Pulmonary Arterial Hypertension (PAH) is a cardiovascular disease characterized by progressively inc...
GSE115198: Distinct immune responses to type I and III interferons are regulated by interferon regulatory factor 1
Type I and III interferons (IFNs) are critical antiviral molecules thought to activate similar signa...
GSE105151: Cell stimulation-induced plasticity in the small non-coding RNA transcriptome of extracellular vesicles from dendritic cells
PURPOSE: The molecular composition of extracellular vesicles (EV) is regulated by cellular activatio...
GSE115150: LKB1 deficiency in T cells promotes the development of gastrointestinal polyposis
mRNA expression in CD8+ T cells expressing or lacking LKB1 SOURCE: Russell Jones (russell.jones@vai....
GSE118751: A Functional Role for REST Co-Repressor 2 (Rcor2) in Callosal Development
Pallial functional organization is mediated by the dynamic interplay of a broad spectrum of cellular...
GSE119974: Enriched EWSR1 and EWS-FLI1 RNA-seq of HNRNPH1-silenced TC32 Ewing sarcoma and 293T human embryonic kidney cells.
Identification of EWSR1 and EWS-FLI1 transcript variants associated with the silencing of HNRNPH1 in...
GSE106530: Translatome analysis of the ribosomal protein L10 R98S mutation reveals altered serine metabolism in acute lymphoblastic leukemia [supplementaryRNA-seq]
Somatic ribosomal protein defects have recently been described in cancer, yet their impact on cellul...
GSE116357: Active Mycobacterium tuberculosis regulatory networks from in vitro infection of mouse macrophages uncovered by Path-seq
Transcriptional profiling of Mycobacterium tuberculosis mRNA enriched from host-pathogen samples fro...
GSE121286: Evaluation of APOL1 ASO in a novel model of APOL1-associated renal disease
African Americans develop end-stage renal disease at a higher rate compared to European Americans du...
GSE144575: Effect of systemic adipsin overexpression on db/db mouse pancreatic islets
RNAseq of pancreatic islets of db/db mice treated with AAV- Adipsin vs AAV-GFP 4 weeks post AAV inje...
GSE116637: RNA-seq of eight lymphoblastoid cell lines after AHR ligand treatments
RNA-seq was done on eight different lymphoblastoid cell lines for vehicle control, 3-MC agonist trea...
GSE104243: Distinct distribution of H3K27me3 and DNA methylation stabilizes the segregation of extraembryonic and embryonic lineages
One of the most important topic in mammalian embryogenesis is cell lineage segregation. Briefly, one...
GSE113885: Multi-axial self-organisation properties of mouse embryonic stem cells into gastruloids [E6.5 to E9.5]
Gastruloids are small aggregates of murine Embryonic Stem (ES) cells stimulated to undergo gastrulat...
GSE114625: Metabolic reprogramming of Kaposis sarcoma associated herpes virus infected B-cells in hypoxia
We report differential gene expression in BJAB-KSHV/BJAB cells treated with Cobalt chloride/BJAB-KSH...
GSE119788: Immune Phenotype of CD4+ T cells and Tcells in WT mice and TCR-/- Mice fed Ctl or MCD diet
Gene ontology analysis suggests that MCD diet induced changes in CD4+ T cells and Tcells SOURCE: Va...
GSE106591: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and miR-211-/- Whole Eye Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE116662: GATA3 enhances the neurogenic potential of primary human astrocytes after traumatic injury [exp1]
Astrocytes are an abundant cell type in the vertebrate central nervous system and can act as neural ...
GSE115552: miR22 is a master regulator of genes predictive of patient survival in clear cell renal cell carcinoma
RNA sequencing libraries were made for RLC cell line to detect the transcripts regulated by the miR2...
GSE111602: Defects in the alternative splicing-dependent regulation of REST cause deafness - [mouse brain cortex].
The DNA-binding protein REST forms complexes with histone deacetylases (HDACs) to repress neuronal g...
GSE107086: Endogenous glucocorticoid rhythms regulate the circadian sensitivity to noise
The cochlea possesses a robust circadian clock machinery that regulates auditory function. How the c...
GSE116407: SUMOylation of ROR-gt inhibit IL-17 expression and inflamatiion
RNA sequencing of ROR-gt-/- mouse-derived T cells reconstituted with either WT-ROR-gt or mutant (SUM...
GSE114398: Cutaneous T effector transcriptomic responses triggered by early colonization of Staphylococcus species in new-born mice
We used the next generation sequencing method to profile gene expression changes in cutaneous T effe...
GSE116454: Next Generation Sequencing of Wild Type and Nlrp6-/- T cells
Nlrp6 is expressed by T cells, but whether Nlrp6 influences the transcriptom of T cells is not known...
GSE120423: Brain transcriptome profiling in wildtype mice and mice with Igf2 enhancer deletion (Igf2enh-/-) [RNA-seq]
Impaired neuronal processes, including dopamine imbalance, are central to the pathogenesis of major ...
GSE107727: A single cell hematopoietic landscape resolves 8 lineage trajectories and defects in Kit mutant mice
Haematopoietic stem and progenitor cells (HSPCs) maintain the adult blood system and their dysregula...
GSE120386: RNA-seq, ChIP-seq and single cell RNA-seq of human skin Langerhans cells
Langerhans cells (LCs) in the epidermis promote immune homeostasis, efficiently activating tolerogen...
GSE117385: Host-pathogen transcriptomics of Mucor circinelloides spores phagocytosed by mouse macrophages
Here, we have studied the first stage of this infectionthe interaction of Mucor circinelloides spore...
GSE118794: The Chromatin Reader ZMYND8 Regulates Igh Enhancers to Promote Immunoglobulin Class Switch Recombination
Class Switch Recombination (CSR) is a DNA recombination reaction that diversifies the effector compo...
GSE137954: Gene Expression Profiling of siRNA Knockdown and overexpression of SMYD3 in C2C12
Members of the SMYD family of Histone Lysine Methyltransferases, including SMYD3, were shown to be i...
GSE114549: H3.3 phosphorylation promotes enhancer acetylation and lineage specification [RNA-seq]
H3.3 phosphorylation promotes high levels of histone acetylation in mouse embryonic stem cells, whic...
GSE126659: Specific contributions of cohesin-SA1 and cohesin-SA2 to TADs and Polycomb domains in embryonic stem cells.
Cohesin complex, a main organizer of mammalian genomes, exists in two versions that differ in the id...
GSE113907: RNA Sequencing of Human iPS derived Cardiomyocytes
To investigate transcriptional differences between HCM and WT cells SOURCE: Travis Hinson The Jackso...
GSE116675: The Epstein Barr virus circleRNAome
Our appreciation for the extent of Epstein Barr virus (EBV) transcriptome complexity continues to gr...
GSE118814: MicroRNA-7 regulates the plasticity of the enteroendocrine lineage
Systematic evaluation of the cell populations of the intestinal crypt confirms the plasticity of the...
GSE113720: Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells [RNA-seq]
Transcriptional regulatory networks (TRNs) provide insight into cellular behavior by describing inte...
GSE116799: Chromatin capture defines AHCY as regulator of pluripotent stem cells proliferation
Profiling of the proteome bound to the chromatin in a simple, direct and reliable manner might resul...
GSE106760: TCR transmembrane domain coordinates antigen triggering by regulating bilayer immersion and CD3 associations
Initial molecular details of cellular activation following T-cell receptor (TCR) ligation by pMHC re...
GSE116682: RNA sequencing for mouse arcuate nucleus in male miR-17-92 knockout mice and female miR-7-sponge mice
To address the molecular basis of miR-7 and miR-17-92 regulation in the POMC neuron and sex-differen...
GSE115097: Effect of nuclear IL-33 on gene expression
The aim of this study was to examine the transcriptional regulatory activity of nuclear IL-33 indepe...
GSE115936: Simultaneous quantification of antibody-RNA conjugates and the transcriptome by single cell RNA-sequencing
Undifferentiated and differentiated Keratinocytes (AG1478 treated) were stained with antibody-RNA co...
GSE118819: Adipose tissue RNAseq in T-cell-specific IFNAR-deficient mice.
We sequenced whole adipose tissue from control and LCMV infected mice 6dpi, in control vs T cell-spe...
GSE117111: FACS Sequencing Analysis of DCX+ cells in the DG of Wild Type and Fmr1-/y; Dcx-DsRed mice
Purpose: The goals of this study are to investigate the molecular mechanism underlying FMRP-regulate...
GSE116703: RiboTag translatome analysis of outer hair cell postnatal development
In order to determine the regulators of outer hair cell postnatal maturation, we utilized the RiboTa...
GSE117358: RNA-sequencing of pretreatment AB1 (mesothelioma) and Renca (kidney cancer) tumours mice both respondant and non-respondant to immunotherapy with CTLA4 and PD-L1
Purpose: Cancer immunotherapy has shown outstanding results in the past few years. Specifically, ant...
GSE109352: Astrocyte-derived Interleukin-33 promotes microglial synapse engulfment and neural circuit development I
Neuronal synapse formation and remodeling is essential to central nervous system (CNS) development a...
GSE113947: RNA-Seq of isogenic human iPS cell-derived cardiomyocytes with RBM20 mutations created by genome editing
RBM20 heterozygous (Het) and homozygous (Homo) R636S and homozygous 8-bp deletion (which causes nons...
GSE115205: Genome wide analysis of SAHA (vorinostat) treatment in human iPSC-derived neurons from Tau A152T patients and controls
Purpose: The goal of this study was to assess gene expression changes upon SAHA treatment in neurons...
GSE134520: Dissecting the single-cell transcriptome network underlying gastric premalignant lesions and early gastric cancer [10x genomics]
Intestinal-type gastric cancer is preceded by premalignant lesions including chronic atrophic gastri...
GSE104331: Precise modulation of genome functions and live tracking of genome regions in CRISPR/dCas9 knock-in mice
we demonstrated ex vivo and in vivo validation of dCas9 KI functions such as transcription SOURCE: X...
GSE105455: H3K27me3 dynamics dictate evolving uterine states in pregnancy and parturition [RNA-seq]
Uncovering the causes of pregnancy complications such as preterm labor requires greater insight into...
GSE114602: RNA-seq analysis of Prss14 target genes in mouse thymoma cells
Prss14/ST14 is a type II transmembrane serine protease which is reported to be overexpressed in many...
GSE121307: mRNA sequencing analysis of cultured human primary airway epithelial cells upon exposure to PMN exosomes
We analyzed the mRNA expression of monolayers of human primary airway epithelial cells after exposur...
GSE114450: Genetic analyses reveal the signaling and transcriptional mechanisms of stomach stromal stem cell niches. [RNA-Seq]
We demonstrate the conserved Hh-GLI2-mediated chromatin and transcriptional regulation of both stoma...
GSE129616: Transcriptomics of BCR-stimulated IgG1 and IgG4 human B cell clones
We characterize the transcriptomic profile of a set of human IgG1 and IgG4-switched memory B cell cl...
GSE104138: LEDGF/p75 is Dispensable for Hematopoiesis but Essential for MLL-rearranged Leukemogenesis
Mixed-lineage leukemia (MLL) represents a genetically distinct and aggressive subset of human acute ...
GSE113926: CDK12 mediated transcriptional regulation in U2OS cells
While activation of canonical NF-B signaling through the IKK complex is well studied, few regulators...
GSE114630: Profiling of murine resident adipose tissue and aortic macrophages according to their expression status of LYVE-1
Beside their role in conventional immune regulation, macrophages are now recognised as essential reg...
GSE106796: ASXL2 is recurrently mutated in t(8;21) AML and regulates hematopoietic development [RNA_Seq_Asxl2_mutant]
Chromosomal translocation t(8;21) (q22;q22) leading to generation of oncogenic RUNX1-RUNX1T1 (AML1-E...
GSE121206: Function of Epithelium BRG1 in colitis and CAC II
Here we show that epithelial BRG1, the catalytic subunit of SWI/SNF complex is critical for colitis ...
GSE120414: RNAseq in BAP1 KO primary mouse melanocytes
Malignancies arising from mutation of tumor suppressor genes display an unexplained tissue proclivit...
GSE135879: Molecular determinants of response to high dose androgen therapy in prostate cancer
Clinical trials of high-dose androgen therapy for prostate cancer have shown promising efficacy but ...
GSE105906: Comparative transcriptome analysis of murine macrophages infected with Brucella suis vaccine strain S2 and the virulent Brucella suis strain 1330
Brucellosis is one of the most common zoonotic epidemics worldwide. Vaccination against Brucellosis ...
GSE112205: scRNA-seq of Wild Type and Hmgcs2-/-epithelial cells
We characterized the compositions of cell populations and signaling underlying the lineage commitmen...
GSE113964: Sequencing based maternal whole blood expression changes with gestational age and labor in normal pregnancy
Maternal plasama colected longitudinally were profiled using paired-end Illumina RNA-Seq with globin...
GSE113887: A comprehensive spatial-temporal transcriptomic analysis of differentiating nascent mouse lens epithelial and fiber cells
The lens is comprised of the anterior lens epithelium and posterior lens fibers, which form the bulk...
GSE120439: PTEN interacts with the transcription machinery on chromatin and regulates RNA polymerase II-mediated transcription.[RNA-seq and ChIP-seq]
We demonstrate that PTEN interacts with the transcription machinery. Using ChIP-seq, we show that PT...
GSE105762: In vitro capture and characterization of embryonic rosette-stage pluripotency between naive and primed states (I, bulk RNA-Seq data)
Naive pluripotent cells in the implanting mouse blastocyst generate a rosette structure before under...
GSE121155: Effect of Influenza virus infection on lncRNA expression in A549 cells
Long non-coding RNAs (lncRNAs) are a new arm of gene regulatory mechanism as discovered by sequencin...
GSE115663: yylncT acts as a gatekeeper of the mesodermal transcriptional program by local modulation of DNMT3B [human_2]
Bidirectional transcription is a prevalent feature of eukaryotic promoters. The goal of this study i...
GSE142357: Selective inhibition of HDAC3 targets synthetic vulnerabilities and activates immune surveillance in lymphoma
CREBBP mutations are highly recurrent in B-cell lymphomas and either inactivate its histone acetyltr...
GSE114945: RNA-seq analysis of RPE cells from Sox9 cKO and wild-type control mice
RNA-seq analysis was applied in triplicates to RPE cells extracted at two developmental time-points ...
GSE115255: RNA sequence analysis of stable versus reversible EMT events and the resultant metastases
The ability of breast cancer cells to transiently transition between epithelial and mesenchymal stat...
GSE105471: A method for the acute and rapid degradation of endogenous protein
We developed Trim-Away as a a technique to degrade endogenous proteins acutely in mammalian cells wi...
GSE119509: Mitochondrial Membrane Potential Regulates Nuclear Gene Expression in Macrophages Exposed to PGE2 (RNA-seq)
Metabolic engagement is intrinsic to immune cell function. Prostaglandin E2 (PGE2) has been shown to...
GSE120399: RNA-seq, ChIP-seq and ATAC-seq analysis of MKL1 blocked cells during reprogramming
Actins and regulators of actin dynamics generate contractile forces providing major mechanical and s...
GSE117120: Deciphering the mammary stem cell niche: a role for laminin-binding integrins
Integrin dimers a3/b1, a6/b1 and a6/b4 are the receptors of mammary epithelial cells for Laminin, ma...
GSE114939: RNA-seq distinguished dominant inflammatory profile in placenta from a preterm labor mouse model and control
Purpose: No gene expression profiles for the placenta in LPS-induced preterm labor mouse model have ...
GSE119813: Next generation sequencing quantitatively analyzes transcriptomes of bone marrow derived mesenchymal stromal cells from Wild Type or prkcb-/- mice
RNA-seq profiles of Wild Type or Prkcb-/- mouse bone marrow derived mesenchymal stromal cells (BMSCs...
GSE124195: The Possible Role of Complete Loss of Myostatin in Limiting Excessive Proliferation of Muscle Cells (C2C12) via Activation of MicroRNAs (mRNA-seq)
Myostatin (MSTN) is a member of the TGF- superfamily that negatively regulates skeletal muscle growt...
GSE116674: PRMT5 Modulates Splicing in Hematopoietic Stem Cells
This study aimed to clarify the role of PRMT5 in the hematopoietic stem cell (HSC) compartment, and ...
GSE118765: TGF- and RREB1 coordinate EMT programs in development and cancer
Epithelial-to-mesenchymal transitions (EMT) play prominent roles during development, regeneration an...
GSE107981 (mouse): Effector and regulatory T cells roll at high shear stress by inducible tether and sling formation
The adaptive immune response involves T cell differentiation and migration to sites of inflammation...
GSE123971: Mechanistic and pharmacological assessment of murine IL-23 mediated psoriasiform dermatitis; implications for drug discovery
The goal of our study is to is to provide a comprehensive disease and pharmacological assessment of...