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Sequencing-based assays (Page 92)
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GSE128228: AGO-bound virus-derived RNA in Influenza infected WT and AGO4 knockout bone marrow derived macrophages performed by Immunoprecipitation following by High Throughput Sequencing
We identified virus-derived RNA bound to AGO in Influenza A or Influenza delNS1-infected macrophage...
GSE130217: Investigating the role and mechanism of stress induced protein Sesn2 in aged-related adaptive response to cardiac ischemia reperfusion injury
Purpose: to reveal the myocardium transcriptomic profile shift pattern before/after Ischemia Reperfu...
GSE136154: Calcitonin gene related peptide negatively regulates alarmin-driven type 2 innate lymphoid cell responses
Neuroimmune interactions have emerged as critical modulators of allergic inflammation, and type 2 in...
GSE134097: Investigation of transcriptional response upon loss of individual Y-complex nucleoporins
Transcriptional changes were assessed using RNA-Seq after depleting Nup160, Nup133, Nup96, Nup85 and...
GSE136848: Endothelial Heterogeneity Across Distinct Vascular Beds During Homeostasis and Inflammation Using RiboTag Strategy
Several studies have suggested that endothelial cells which line the blood vessels in each organ sig...
GSE134137: Androgen deprivation in PTEN/LXR -/- mice
The project is based on the transcriptomic analysis from 8 groups of animal samples : Wild Type Sham...
GSE134712: RNA-seq analysis dataset: Hippocampal tissues from Emx1-Cre;Auts2-flox/flox and Auts2-flox/flox mice at P14
Previous studies have revealed that AUTS2 regulates cytoskeletal organization as well as gene expres...
GSE126772: Macrophages directly contribute collagen to scar formation during zebrafish heart regeneration and mouse heart repair
The adult mammalian heart heals after myocardial infarction (MI) by deposition of scar tissue, leadi...
GSE136846: Discovery and verification of liver cancer marker genes and variable scission based on second-generation sequencing data analysis
The RNA-seq technique was used to sequence the liver cancer tissues and paracancerous tissues of 6 c...
GSE138691: Loss of MBNL1 induces RNA mis-processing in the thymus and peripheral blood.
The thymus is a primary lymphoid organ that plays an essential role in T lymphocyte maturation and s...
GSE137101: Neuronal impact of patient-specific aberrant NRXN1 splicing [whole]
We performed targeted long-read and short-read RNA sequencing to identify and quantify NRXN1 isoform...
GSE126560: Effect of Rgnef knockout in an aggressive ovarian cancer cell line
CRISPR/Cas9-mediated Rgnef knockout was performed in the aggressive ID8-IPs (alternaate name is KMF ...
GSE134937: Tandem CAR and single CAR T cells have different fates and therapeutic potency
Chimeric antigen receptor T (CAR T) cells targeting CD19 have achieved breakthroughs in the treatmen...
GSE124214: Increased sulfation of bile acids in mice and human subjects with sodium taurocholate cotransporting polypeptide deficiency
Purpose: To decipher the biochemical basis for the declining of total bile acids (TBA) levels in the...
GSE134131: Attenuated epigenetic suppression of muscle stem cell necroptosis is required for efficient regeneration of dystrophic muscle [RNA-seq 2]
We performed a thorough study to analyze the epigenetic suppression of genes enabling programmed cel...
GSE136286: Splicing factor SRSF1 controls T cell hyperactivity and systemic autoimmunity
Purpose: The goals of this study are to determine the role of the serine/ arginine-rich splicing fac...
GSE133031: Bcl6 neurogenic activity in in vitro cortical progenitors [RNA-Seq]
Transcriptome analysis following Bcl6 induction (24h doxycycline) in mouse ES-cell-derived cortical ...
GSE137366: Gene expression after treatment with Nutlin 3a in Neuroblastoma Cells
RNA from NBAT1 knockdown and its respective control (Csh) SH-SY5Y cells after nutlin-3a (10 M) or DM...
GSE135769: Single Cell RNA-Seq Reveals Changing Landscape of Cell-to-Cell Variation Induced by CTCF Knockdown
In this study, we knockdown the expression of CTCF in EL4 cells by shRNA, followed by single cell RN...
GSE125101: Environmental Arginine Controls Multinuclear Giant Cell Metabolism and Formation
Multinucleated giant cells (MGCs) are implicated in many diseases including schistosomiasis, sarcoid...
GSE125097: A gain-of-function p53 mutant oncogene promotes cell fate plasticity and myeloid leukemia through the pluripotency factor Foxh1
Mutations in the TP53 tumor suppressor gene are common in many cancer types, including the acute mye...
GSE130419: DCAF1 regulates Treg senescence via the ROS axis during immunological aging
Total RNA of regulatory T (Treg) cells and conventional CD4 T (Tconv) cells from young WT (2 months)...
GSE141100: Primary alcohol-activated human and mouse Hepatic Stellate Cells (HSCs) share similarities in gene expression profiles
Alcoholic liver disease (ALD) is a leading cause of cirrhosis in the United States, which is charact...
GSE139542: RNA-seq of lipid droplet-low and lipid droplet-rich microglia isolated from the hippocampi of aged mice
Sequencing data related to the manuscript entitled, "Lipid droplet accumulating microglia represent ...
GSE135640: Seminal plasma promotes decidualization of endometrial stromal fibroblasts from women with and without inflammatory disorders in a manner dependent on IL11 signaling
SP promotes decidualization of eSF from women with and without inflammatory disorders (polycystic ov...
GSE135785: RNASeq of bone lining niche cell components from myeloma-bearing mice treated daily with small molecule LDN193189 (LDN) or vehicle control
We compare gene expression in FACS-sorted bone lining cell components (stromal progenitors, osteopro...
GSE136564: Transcriptional profiling of the adult mouse retina in wild-type and Nrl deficient mice
We performed mRNA transcriptional profiling of mouse retina in the wild-type and Nrl-null context to...
GSE124375: Regulation of CHD2 expression by a long noncoding RNA is essential for mammalian development
Long noncoding RNAs (lncRNAs) are enriched in regions flanking transcription- and chromatin-associat...
GSE136275: Transcriptome profiling of Blimp-1-deficient B cells from distinct divisions during plasma cell differentiation
To examine the cell division that Blimp-1 functioned during B cell differentiation we adoptively tra...
GSE135691: RNASeq of bone lining niche cell components from healthy vs. myeloma-bearing mice
We compare gene expression in FACS-sorted bone-lining cell components: stromal progenitors, osteopro...
GSE138283: Assessment of Viral RNA in Idiopathic Pulmonary Fibrosis Using RNA-seq [nonPoly(A) RNA]
Results: We identified sporadic low-level evidence of viral infections in our lung tissue specimens,...
GSE124197 (mouse): A Genome-wide CRISPR Screen Identifies Novel Genes Reinforcing Human Aging
A variety of cellular stresses including telomere erosion, genomic instability, DNA damage and heter...
GSE128379: Transcriptional profiling to compare gene expression in supraorbital mesenchyme (SOM) and early migration mesenchyme (EMM) of wild type mouse embryos
During embryonic development, the mesenchyme surrounding the brain (cranial mesenchyme) gives rise t...
GSE134147: MUC1-C ACTIVATES THE NURD COMPLEX IN DEDIFFERENTIATION OF TRIPLE-NEGATIVE BREASTCANCER CELLS
The NuRD chromatin remodeling and deacetylation complex, which includes MTA1, MBD3, CHD4 and HDAC1 a...
GSE136303: Splenic Tfh that express SLAM reside in the follicular mantle zone
Splenic Tfh that express SLAM reside in the follicular mantle zone SOURCE: Ramin Herati (ramin.herat...
GSE134768: Craniofacial neural crest cell-specific deletion of Ihh causes skeletal malocclusion in mice
Although our data is providing the evidence that Ihh regulates nasal and mandibular cartilage develo...
GSE135716: Differential mRNA expression upon 9p21 deletion in HEK TE single-cell derived clones
RNA sequencing was performed to identify mRNAs that are dysregulated upon loss of 9p21. Subsequently...
GSE134151: Sustained microglial depletion with CSF1R inhibitor impairs parenchymal plaque development in an Alzheimers disease model
This dataset allows for the exploration of microglial function on gene expression in wild-type and t...
GSE124846: Astrocyte molecular signatures during Huntingtons disease progression and following huntingtin lowering with zinc finger protein transcriptional repressors
The Khakh laboratory used gfaABC1D-RiboTag AAVs to purify and sequence astrocyte actively translated...
GSE135776: Transcriptome profiling of subcutaneous and visceral adipose tissue from obese individuals
Distinct characteristics of adipose tissue at different localization of human body has shown greater...
GSE157352: The neurotransmitter receptor Gabbr1 regulates proliferation and function of hematopoietic stem and progenitor cells
To better understand molecular phenotypes of Gabbr1 null mutant hematopoietic stem and progenitor ce...
GSE132191: RADICL-seq identifies general and cell type-specific principles of genome-wide RNA-chromatin interactions (CAGE)
Mammalian genomes encode tens of thousands of noncoding RNAs. Most noncoding transcripts exhibit nuc...
GSE145898: Effect of lipoprotein(a) on Arterial Endothelial Cells
Human Arterial Endothelial Cells (HAECs; Lonza) were incubated with either 5mg/dl or 100mg/dl isolat...
GSE128914: RNA-Seq of LEF1 overexpression ECA109 cells
RNA-seq was performed on three biological replicates. Total RNA from ECA109 LV-GFP/LV-LEF1.Different...
GSE157159: Transcriptomic and Network Analysis of Minor Salivary Glands of Patients with Sjgrens Syndrome
Transcriptomic and Network Analysis of Minor Salivary Glands of Patients with Sjgrens Syndrome SOURC...
GSE134145: Locally transplanted human urine-induced nephron progenitor cells contribute to renal repair in mice kidney with diabetic nephropathy
Analysis of induced nephron progenitor cells from female/male urine cells (iNPC-F/INPC-M) by defined...
GSE134726: Glucose-dependent Insulinotropic polypeptide receptor-expressing cells in the hypothalamus regulate food intake
Ambiguity regarding the role of glucose-dependent insulinotropic polypeptide (GIP) in obesity arises...
GSE145955: RNA sequencing from T47D and MCF-7 breast cancer cells
We report the RNA sequencingn onT47D and MCF-7 cells infected by either vehicle or shMEN1 virus SOUR...
GSE138379: Fibroblast-specific genome-scale modelling predicts an imbalance in amino acid metabolism in Refsum disease
In this study, we reconstructed a fibroblast-specific genome-scale model based on the recently publi...
GSE125159: Phosphorylation of the ancestral histone variant H3.3 amplifies stimulation-induced transcription
Complex organisms are able to rapidly induce select genes among thousands in response to diverse env...
GSE134923: Nuclear Receptor Corepressor 1 (NCoR1) deletion changed the expression profile in cardiomyocytes
NCoR1 played an important role in regulating the expression of many genes. We were wondering what ki...
GSE134763: Sequencing of mRNA with N6-methyladenosine (m6A) modification in AML cells upon ALKBH5 knockdown or overexpression
To identify the potential mRNA targets of ALKBH5, we conducted m6A-seq with mRNA samples enriched fr...
GSE135633: Analysis of the Clustered Protocadherin (cPcdh) Locus in Human Pluripotent Stem and Derived Cells [RNA-seq II]
In the mammalian genome, the clustered protocadherin (cPcdh) locus is a paradigm of stochastic gene ...
GSE134938: Estrogen deprivation triggers and immunosuppressive phenotype in breast cancer cells
Our study reveals that while antiestrogen therapies effectively limit tumor growth in ER-positive br...
GSE135800: MYCi975 regulates MYC target genes
We report MYCi975 regulates MYC taraget genes in PC3 and P493-6 cells by deep sequencing (RNA-seq). ...
GSE126834: Single-cell analysis of homeostatic and regenerative adult skeletal muscle stem cells
Skeletal muscle stem cells (MuSCs) ensure the formation and homeostasis of skeletal muscle and are r...
GSE134909: Comparative gene expression profiling of human primary endotheliocytes cultivated on polyurethane-based electrospun 3D matrices and natural decellularized vein
We have evaluated the functional state of HUVEC cultivated on the surface of autologous decellulariz...
GSE134985: RNA-sequencing of human peripheral blood mononuclear cells from Tanzanian children
Total RNA sequencing of peripheral blood mononuclear cells (PBMC) from Tanzanian children from the P...
GSE134731: Mitigating antagonism between transcription and proliferation allows near-deterministic cellular reprogramming (Single Cell)
RNA sequencing analysis of Hb9::GFP mouse embryonic fibroblasts infected with control or reprogrammi...
GSE135142: NFI Transcription Factors Govern Stem Cell Chromatin Accessibility and Guard Against Irreversible Hair Loss [bulk RNA-seq]
Tissue homeostasis and regeneration rely upon resident stem cells (SCs), whose behavior is regulated...
GSE133098: Histone Demethylases KDM3A and KDM4C regulate mesenchymal stromal cell senescence and bone aging through condensin-mediated heterochromatin organization
Epigenomic changes and stem cell exhaustion are two hallmarks of aging. Accumulating evidence sugges...
GSE133947: Hematopoietic stem cell response to acute thrombocytopenia requires signaling through distinct receptor tyrosine kinases
Although bone marrow (BM) niche cells are essential for hematopoietic stem cell (HSC) maintenance, t...
GSE135684: Role of NF-kappaB2-p100 in regulatory T cell homeostasis and activation
RNAseq analysis of Ex vivo Treg cells were isolated from wild type or Nfkb2-/- mice. SOURCE: G Anees...
GSE135752: Tamoxifen induction of Cre recombinase does not cause long lasting or sexually divergent responses in the CNS epigenome or transcriptome: implications for the design of aging studies (RNA-Seq).
The systemic delivery of tamoxifen (Tam) to activate inducible CreERT2-loxP transgenic mouse systems...
GSE127938 (mouse): Transcriptome profiling of organoids from the human and murine gastrointestinal tract
The epithelial layer of the gastrointestinal tract is the bodys first line of defense against gut pa...
GSE134174: Dissecting the cellular specificity of smoking effects and reconstructing lineages in the human airway epithelium
Cigarette smoke first interacts with the lung through the cellularly diverse airway epithelium and g...
GSE133993: RNA-seq of CDKN2A and EZH2-deficient pro-B and DN3 lymphocyte progenitors
This goal of this study was to identify genes that are deregulated in the absence of EZH2 in early l...
GSE141772: RNASeq of LCMV Kb NP396+ CD45RBhi and CD45RBlo Memory CD8+ T Cells
We reported the differential expression of genes between CD45RBhi and CD45RBlo LCMV-specific CD8+ T ...
GSE135128: Transcriptome analysis of SFP45 knockdown cells
Examination of transcriptome of SPF45 knockdown cells by Ribosomal RNA depleted RNA-Seq SOURCE: Rei ...
GSE126914: Transcriptome-wide analysis of long and short RNAs in mouse embryonic stem cells (ESC) and differentiated cells depleted of a functional Htt gene
The HTT gene mutated in Huntingtons Disease (HD) has essential roles during normal development. Howe...
GSE143281: Transcriptome changes in mouse retina after conditional knockout of UXT
Ubiquitously expressed transcript (UXT), a small chaperone-like protein, is widely expressed in dive...
GSE135184: Gliotoxin, identified from a screen of Aspergillus fumigatus metabolites, reverses HIV-1 latency via release of P-TEFb
A leading pharmacological strategy towards HIV cure requires shock or activation of expression of th...
GSE135833: JC Polyomavirus Infection of Primary Human Renal Epithelial Cells Is Controlled by a Type I IFN-Induced Response
JC polyomavirus (JCPyV) established a persistent infection, but BK polyomavirus (BKPyV) killed the c...
GSE125188: Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune cells in human
The liver plays a critical role in both immune defense and tolerance in the body. The liver-resident...
GSE134158: Expression data from wild-type and TIF1a-knockout mouse macrophages stimulated with or without mouse IL-4(20ng/mL) for 6 h.
We conducted gene expression profile analysis by using wild-type and TIF1a-knockout peritoneal macro...
GSE133261: Nicotinamide riboside augments the human skeletal muscle NAD+ 1 metabolome and induces transcriptomic and anti-inflammatory signatures in aged subjects: a placebo-controlled, randomized trial
NAD+is modulated by conditions of metabolic stress and has been reported to decline with aging, but ...
GSE129440: Bronchioalveolar stem cells are a main source for regeneration of distal lung epithelia
Bronchioalveolar stem cells (BASCs) are a potential source for lung regeneration, but direct in vivo...
GSE136280: RNAseq of souble factors in RPE cells from Cryba1 conditional knockout (cKO) mice
The study was aimed at understanding the expression of known neutrophil regulating factors in the re...
GSE134159: CpG dinucleotides introduced into gag can inhibit HIV-1 gene expression by modulating pre-mRNA splicing
Progressively longer regions of the gag gene sequence in HIV-1 were codon-optimized, which introduce...
GSE136309: Transcriptome analysis suggests a compensatory role of the cofactors coenzyme A and NAD+ in medium-chain acyl-CoA dehydrogenase knockout mice
During fasting, mitochondrial fatty-acid -oxidation (mFAO) is essential for the generation of glucos...
GSE142248: Chronic circadian misalignment accelerates immune senescence and abbreviates lifespan in mice
Modern society characterized by a 24/7 lifestyle leads to misalignment between environmental cycles ...
GSE38838: Cross-presenting CD103+ dendritic cells are protected from influenza virus infection
CD8+ cytotoxic T cells are critical for viral clearance from the lungs upon influenza virus infectio...
GSE136300: Deep sequencing of GSK-126 treated HER2+ PDX tumours
Monoclonal antibodies (mAbs) targeting the oncogenic receptor tyrosine kinase ERBB2/HER2, such as Tr...
GSE145596: Detecting Tumor Specific Antigen-Reactive T cells from Tumor Infiltrating Lymphocytes via Interaction Dependent Fucosyl-biotinylation [RNA-seq]
Reactivation and clonal expansion of tumor specific antigen (TSA)-reactive T cells are key to the su...
GSE142270: Allelic silencing analysis for A-repeat and m6A region in mouse Xist
We show that a deletion encompassing the entire Xist 5 m6A region results in a modest reduction in X...
GSE128207: Meningeal lymphatic vasculature mediates cervical lymph node metastasis of brain tumors through VEGF-C/VEGFR3/eNOS signaling pathway
Purpose: The rediscovery of meningeal lymphatic vessels (MLVs) suggests a potential linkage between ...
GSE132156: Polycomb group proteins regulate chromatin architecture in mouse oocytes and early embryos
In mammals, chromatin organization undergoes drastic reorganization during oocyte development. Howev...
GSE134190: Regulation of stem cell property and drug resistance of cancer cells by targeting transcriptional machinery via inhibition of neddylation
MLN4924, also known as pevonedistat, is a small molecule inhibitor of NEDD8 activating enzyme (NAE),...
GSE135364: High Resolution Genome Wide Expression Analysis of Single Myofibers Using SMART-Seq
Skeletal muscle is a heterogeneous tissue. Individual myofibers that make up the contractile muscle ...
GSE136221: Differential gene expression in the brainstem of uninfected and West Nile Virus infected C57BL6/J and Sarm1-em3AGS mice
The Toll/IL-1R domain-containing adaptor protein SARM1 is expressed primarily in the brain, where it...
GSE136312: Time course regulatory analysis based on paired expression and chromatin accessibility data
We propose a tool named TimeReg to do Time Course Regulatory Analysis from paired gene expression an...
GSE137080: Transcriptional profiling of neurons in the hypothalamus of a Lhx5-TRAP (DT154) mouse line
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE138986: Transcriptome profiling of lung tissue from influenza-infected mice treated with plasma gelsolin
Recombinant human plasma gelsolin (rhu-pGSN) improves survival and reduces morbidity of mice infecte...
GSE134769: Filamin B extensively regulates the transcription and alternative splicing and is associated with apoptosis in HeLa cells
Post-transcriptional mechanisms is an important means for the body to fight against cancer, and it m...
GSE135398: RNA-Seq of embryonic, adult lacrimal gland and lacrimal gland stem cells
The transcriptional expression analysis of 17.5, 19.5 days embryonic lacrimal gland (LG), adult lacr...
GSE138398: Global transcriptional profile of hESC-derived macrophage (iMAC), human monocyte-derived macrophage and THP-1 macrophage
We report here a modified protocol for generating homogenous populations of macrophage-like cells fr...
GSE134144: The Dynamic Transcriptional Cell Atlas of Testis Development During Human Puberty
The human testis undergoes dramatic developmental and structural changes during puberty, including p...
GSE140284: Hhex promotes NK cell homeostasis by repressing BIM-dependent apoptosis
Hhex encodes a homeobox transcriptional regulator that plays a key role in embryonic development and...
GSE134782: Gene expression profiles in HMC3 cells after exposure to ketamine or its active metabolites: 2R6R-HNK and 2S6S-HNK
This study was designed to clarify mechanisms of action for ketamine and its active metabolites, (2R...
GSE141055: Transcriptomic profiling of a CamKII-Dars2 neuronal knockout mouse
Purpose: Leukoencephalopathy with brain stem and spinal cord involvement and lactate elevation (LBSL...