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Sequencing-based assays page 104
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GSE133260: miR206 family is important for mitochondrial and muscle function, but not essential for myogenesis in vitro [RNA-Seq]
miR-206, miR-1a-1 and miR-1a-2, foundational members of the myomir family, promote skeletal muscle d...
GSE143505: mRNA sequencing of human colorectal cancer organoids
Given that colorectal cancer stem cells (CCSCs) play key roles in the tumor dormancy, metastasis and...
GSE141645: Symmetric arginine dimethylation is selectively required for mRNA splicing and the initiation of type I and type III interferon signaling
The goal of this study was to assess the extent of symmetric arginine dimethylation-dependent splici...
GSE141666: RNA-seq of H1299 cells in which either PRKCI or SOX2 was silenced by validated lentiviral shRNA constructs
RNA-seq data of H1299 from NT versus PRKCI KD and NT versus SOX2 KD cells. Analysis revealed activat...
GSE153923: The effects of liraglutide and dapagliflozin on cardiac function and structure in a multi-hit mouse model of Heart Failure with Preserved Ejection Fraction
Aims: Heart failure with preserved ejection fraction (HFpEF) is a multifactorial disease that consti...
GSE154829: Placental Genomic and Epigenomic Signatures in Infants Borns at Extremely Low Gestational Age
These analyses set out to evaluate placental genomic and epigenomic signatures in newborns from the ...
GSE141940: RNA-seq analysis of mouse cardiomyocytes at postnatal day 6 (P6) and P30
Compare transcriptome between P6 and P30 cardiomyocytes in mouse. SOURCE: Yuxuan Guo (yuxuan.guo@chi...
GSE142085: Cell type specificity of intralocus interactions reveals oligodendrocyte intrinsic mechanisms for multiple sclerosis [RNA-Seq]
Multiple sclerosis (MS) is an autoimmune disease characterized by attack on oligodendrocytes within ...
GSE142152: RNA sequencing analysis revealed a distinct motor cortex transcriptome in spontaneously-recovered mice after stroke
The goal of this study is to elucidate the intrinsic changes in spontaneous recovery after stroke, b...
GSE145905: PD-L1 Engagement on T cells Promotes Self-tolerance and Suppression of Neighboring Macrophages and Effector T cells in Cancer
PD-1 ligation delimits immunogenic responses in T cells. However, the consequences of PD-L1 ligation...
GSE136866: Sestrin prevents skeletal muscle atrophy
We identify sestrins, a family of stress-inducible metabolic regulators, as protective factors again...
GSE145601: RNA-seq of rd1 retinal microglia after treatment with AAV8-GFP vs. AAV8-GFP + AAV8-TGFB1
Transcriptional profiling of microglia (seven biological replicates per experimental condition) or n...
GSE135075: FUS-mediated dysregulation of Sema5a, an autism-related gene, in FUS mice with hippocampus-dependent cognitive deficits
Pathological FUS inclusions are found in 10% of patients with frontotemporal dementia (FTD) and thos...
GSE141685: Transcriptomic profiling ofLung adenocarcinoma brain metastasis
Brain metastasis developed in nearly 40% of lung adenocarcinoma (LUAD) patients diagnosed with dista...
GSE142066: Mouse brain transcriptome responses to inhaled nanoparticulate matter differed by sex and APOE in Nrf2-Nfkb interactions
The neurotoxicity of air pollution is undefined for sex and APOE alleles. These major risk factors o...
GSE142124: Identifying and overcoming a mechanism of resistance to Wee1 kinase inhibitor AZD1775 in high grade serous ovarian cancer cells (ES-2)
Treatment of Human high grade serous ovarian cancer cell line, ES-2, with WEE1 kinase inhibitor AZD...
GSE134235: Mutant Kras co-opts a progenitor-derived enhancer network to initiate pancreatic tumorigenesis [RNA-seq]
Oncogenes are highly specific in the cells they can transform, although the molecular basis for this...
GSE128647: An intramolecular salt bridge linking TDP43s RNA recognition motifs dictates RNA binding, protein stability and TDP43-dependent neurodegeneration
The majority of individuals with amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FT...
GSE141675: RNA-seq analysis of human WI-38 fibroblast cell line treated with a chalcone that promotes resistance to oxidative stress
We have identified through high-throughput screen a number of small molecules that promote resistanc...
GSE142067: Gene expression of Abhd11 knock-out or over-expression embryonic stem cells
Abhd11 is previously identified as a conserved lipase in lipid metabolism. However, its physiologica...
GSE145359: SIRT3, a therapeutic target in DLBCL
We report that in absence of ATM signaling SIRT3 stimluated pathways are critical for development of...
GSE142073: Long-term exposure of early-transformed human mammary cells to low-doses of Benzo[a]pyrene and/or Bisphenol-A enhances their cancerous phenotype via an AhR/GPR30 interplay
We report that long term exposure to BPA and B(a)P enhances cancerous phenotype via an Ahr/GPR30 int...
GSE152298: Addressing the essential role of cohesin STAG2 in embryos and adult mice
STAG2 is commonly mutated in cancer and germline mutations have been identified in cohesinopathy pat...
GSE142083: Transcriptome sequencing of laryngeal squamous cell carcinoma and paired adjacent normal mucosa tissues
Laryngealsquamous cell carcinoma (LSCC) is a common form of head and neckcancer. However, the mechan...
GSE145291: Identification of endothelial derived factors that promote metastasis II
To identify endothelial-derived factors that may instructively drive cancer metastasis, we generated...
GSE142103: Complete loss of H3K9 methylation dissolves mouse heterochromatin organization [RNA-seq]
Establishment and charcterization of mouse embryonic fibroblasts deficient for 6 H3K9 lysine methylt...
GSE149100: Transcriptomic comparison of young and aged choroid at the bulk and single-cell levels (single cells)
Purpose: The goals of this study were to identify cell specific expression patterns from infant and ...
GSE143279: TGF-beta-activated cancer-associated fibroblasts limit cetuximab efficacy in preclinical models of head and neck cancer
Most head and neck cancer (HNC) patients are resistant to cetuximab, an antibody against the epithel...
GSE142131: Genome wide RNA-sequencing of human pluripotent stem-cell derived endothelial cells 48h after transduction with adenoviruses expressing either empty vector of different combination of transcription factors
To induce barrier of stem-cell derived endothelial cells in vitro cells have been transduced with a ...
GSE134234: RIPK3 activation leads to cytokine synthesis that continues after loss of cell membrane integrity
Necroptosis is a form of programmed cell death that is defined by activation of the kinase RIPK3, an...
GSE143282: Profiling astrocyte spatial heterogeneity and region-specific transcription factor networks
The goals of this study are to profile the molecular signatures of astrocytes from four brain region...
GSE144285: Targeting transcription-replication conflicts is an effective therapeutic principle for MYCN-driven neuroblastoma [RNA-seq mouse GB]
Targeting the function of MYC proteins for therapy is a major challenge in tumor biology. MYC protei...
GSE142151: Chromatin states and transcriptome of CD8+ T cells over the course of differentiation
The goal of this study is to analyze the contribution of transposable elements (TEs) tocis-regulatio...
GSE156799: Compartment-specific transcriptomics of ozone-exposed murine lungs reveal sex- and cell type- associated perturbations relevant to mucoinflammatory lung diseases
Ozone is known to cause lung injury and resident cells of the respiratory tract, i.e., epithelial ce...
GSE142125: Inhibition of BRD4 Partially Rescues Dilated Cardiomyopathy and Cardiac Arrhythmias in Myocyte-Specific Lamin A/C Null Mice [RNA-Seq]
Deletion of Lmna, encoding nuclear membrane protein LMNA, specifically in mouse cardiac myocytes act...
GSE143534: Fluoride alters Ca2+ signaling and mitochondrial function in enamel cells [Human]
We analyzed the effects of fluoride exposure in mouse enamel cells to assess its impact on cell Ca2+...
GSE149126: RNAseq data comparing KRAS*-independent HDAC5 eccaper PDAC cells and KRAS*-dependent iKPC PDAC cells
HDAC5 drives PDAC cells to bypass KRAS* dependency. To dissect the molecular mechanisms that regulat...
GSE136896: Identification of transcripts regulated in the HN4 cells incubated with NGF
We performed RNA-Seq analysis to identify the transcripts that were differentially regulated in the ...
GSE141689: LTi-like cells in the gut, mLN and spleen
We plan to describe different characters of LTi-like cells from distinct tissues. Also, we further c...
GSE135018: Bhlhe40 and Bhlhe41 transcription factors regulate alveolar macrophage self-renewal and identity
Tissues in multicellular organisms are serviced by resident macrophages, which perform both generic ...
GSE145293: Identification of endothelial derived factors that promote metastasis I
To identify endothelial-derived factors that may instructively drive cancer metastasis, we generated...
GSE141678: Transcriptomic analysis of the effect of iron overload in human iPSC-CMs
We used human iPSC-CMs generated from healthy individuals and performed RNA-sequencing after 5 days ...
GSE142538: Analyzing Presymptomatic Tissue to Gain Insights into Late-Onset Degenerative Trinucleotide Repeat Disease
How genetic defects trigger late-onset disease is important for understanding disease progression an...
GSE152421: Episignatures stratifying ADNP syndrome show modest correlation with phenotype [RNA-seq]
We conducted an independent study on 24 individuals with ADNP syndrome and replicated the existence ...
GSE145308: Pooled CRISPR screens in human intestinal organoids [RNA-seq]
We performed CRISPR screens on both a sub-library and a genome-wide scale in human intestinal organo...
GSE142586: RNA sequencing data of paired parental and therapy resistant cancer cell lines transfected with negative control siRNA's or a pool of siRNA's targeting DNMT1, DNMT3A and DNMT3B
RNA sequencing data of paired parental and therapy resistant cancer cell lines. Parental cell lines ...
GSE147642: Oncogenic ALKF1174L drives tumorigenesis in cutaneous squamous cell carcinoma
Cutaneous squamous cell carcinoma (cSCC) is the second most common skin cancer characterized by incr...
GSE142556: The oncogenomic function of androgen receptor in esophageal squamous cell carcinoma is directed by GATA3
Esophageal squamous cell carcinoma (ESCC) is the sixth leading cause of cancer death worldwide. Emer...
GSE134249: Erk1/2 mediated negative feedback regulation is essential for postnatal intestinal development and homeostasis
Objective: Homeostasis of intestinal stem cells (ISCs) is maintained by external niche signals and c...
GSE143581: P53 dynamics vary between tissues and are linked with radiation sensitivity
We used RNAseq to explore the gene expression changes induced by ionizing radiation across multiple ...
GSE144093: RNA-seq analysis of transcriptomes in control and LAMP2A-overexpressed D3 ES cells
The role of autophagy and metabolism in regulating the pluripotency of stem cells is not well unders...
GSE148650: Next Generation Sequencing Facilitates Quantitative Analysis of mock oligodendrocytes (Ols) and tdTomato+ and tdTomato- Ols Transcriptomes.
Purpose: Comparision transcriptomes of isolated tdTomato+ and tdTomato- OLs from the brains and spin...
GSE136405: Gene expression changes following Knock-down of eRNA_06347 in post-stroke mouse cortex
RNA-sequencing was conducted to profile the transcriptome of the eRNA_06347 knockdown post-stroke mo...
GSE144115: Distinct and overlapping roles of STAG1 and STAG2 in cohesin localization and gene expression in embryonic stem cells [RNA-seq]
Purpose: Cohesin is a ring-shaped complex that is critical to genome organization and is an importan...
GSE148703: Corneal tissue induces transcription of metallothioneins in monocyte-derived human macrophages
Purpose Immune reactions following corneal transplantation are the most common cause of transplant...
GSE142600: Global translation during early development depends on the essential transcription factor PRDM10 [RNA-Seq_2]
Members of the PR/SET domain-containing (PRDM) family of zinc finger transcriptional regulators play...
GSE140125: DeepH&M: Simultaneous determination of single-CpG hydroxymethylation and methylation levels from enrichment and restriction enzyme sequencing methods
Increased appreciation of 5-hydroxymethylation (5hmC) as a stable epigenetic mark, which defines cel...
GSE156687: Nrg1/ErbB4 signaling contributes to the effects of the ketogenic diet on GABAergic activity and seizures
The ketogenic diet (KD) has been used as an effective therapy to treat epilepsy. Previous studies in...
GSE140482 (mouse): Squamous trans-differentiation of pancreatic cancer cells promotes stromal inflammation (RNA-seq)
A highly aggressive subset of pancreatic ductal adenocarcinomas undergo trans-differentiation into t...
GSE148689: Transcriptomal profiling of early and late response of cells to cell penetrating peptides
We performed transcriptional profiling of cells treated with different cell penetrating peptides for...
GSE144596: RNA extracted from the left ventricle of 3 different mouse heart disease models, wild type, mdx, and mdx sln+/- hearts
We report that ablation of one SLN allele positively affects mouse mdx DMD heart failure model mice ...
GSE145287: Transcriptomes of mesenteric lymph node WT and Tph1-deficient ILC2s
RNA sequencing of mesenteric natural and inflammatory ILC2s sorted from Il7rCre/+ Tph1flox/flox or I...
GSE141990: Identifying and overcoming a mechanism of resistance to Wee1 kinase inhibitor AZD1775 in high grade serous ovarian cancer cells (OVCAR8)
Treatment of Human high grade serous ovarian cancer cell line, OVCAR8, with WEE1 kinase inhibitor A...
GSE142612: mRNAseq in SBMA and control iPSC-derived motor neurons
RNA sequence was performed using mRNAs of motor neurons derived from iPSCs of four patients of spina...
GSE142809: CRISPRi screen of prostate cancer associated risk cis-regulatory elements [RNA-seq]
Prostate cancer (PCa) associated risk SNPs are enriched in cis-regulatory elements (CREs). In this s...
GSE133369: Hippocampal transcriptome analysis following maternal separation in a mouse model of fetal alcohol spectrum disorder
Fetal alcohol spectrum disorders (FASD) are common, seen in 1-5% of the population in the United Sta...
GSE143535: Fluoride alters Ca2+ signaling and mitochondrial function in enamel cells [Mouse]
We analyzed the effects of fluoride exposure in mouse enamel cells to assess its impact on cell Ca2+...
GSE142005: Pre-established chromatin interactions mediate acute transcriptional response to Epo [RNA-seq]
Although chromatin architecture has been established in a variety of cell and tissue types, chromati...
GSE152327: Fluvastatin-perturbed RNA expression in two t(4;14)-positive multiple myeloma cell lines
The goal of this study was to determine the gene expression changes following fluvastatin treatment ...
GSE143586: Ectopic Osx+ Cells Affect Tumor Growth
Tumor growth and metastases are dependent on interactions between cancer cells and the local environ...
GSE144052: Understanding Heterogeneity of Fetal Hemoglobin Induction through Comparative Analysis of F- and A-erythroblasts
Here we set out to understand the heterogeneity of fetal hemoglobin (HbF) activation by developing t...
GSE142590: Transcriptomic signature of spinal cord from CHMP2Bintron5 mice
We report transcriptomic dysregulations in the spinal cord of asymptomatic (A: 1.5 months) symptomat...
GSE134462: In vivo protein complementation demonstrates direct detection of presynaptic -synuclein oligomerization and age-dependent accumulation of 8-16mer oligomer species
Intracellular accumulation of a-synuclein (a-syn) and formation of Lewy bodies are neuropathological...
GSE143598: Inhibiting neuroinflammatory reactive astrocytes slows disease progression in a mouse model of ALS
To determine the relationship between mutant Sod1G93A expression and reactivity in astrocytes and mi...
GSE134276: Gastrointestinal tissue-specific chromatin accessibility and gene expression during development (RNA-Seq)
We used ATAC-Seq to profiling epigenomic changes and RNA-Seq to profiling gene expression changes du...
GSE141721: Transcriptionnal coregulator GRIP1 differentially modulate myeloid cell-driven neuroinflammation and response to IFN-beta therapy
Growing evidence are showing a pivotal role of macrophages (M) and microglia (MG) in the pathogenesi...
GSE148641: Hypothalamic REV-ERBs Control Circadian Food Intake and Leptin Sensitivity [RNA-seq]
Obesity occurs when energy expenditure is outweighed by food intake. Tuberal hypothalamic nuclei, in...
GSE144008: Genome wide gene-expression and mRNA splicing profile in human cardiomyocytes differentiated from Wt and QKI mutant embryonic stem cells
We sequenced mRNA from cardiomyocytes derived from hESCS in vitro. By using the Cas9n, we generated...
GSE143524: The Hepatocyte Clock and Feeding Interdependently Control Chrono-Homeostasis of Multiple Liver Cell Types (RNA-seq)
Most cells in the body contain a cell autonomous molecular clock, but the requirement of peripheral ...
GSE136914: Integrative genomic and epigenomic profiling reveals cell-type specific signaling networks in activated lung mononuclear phagocytes [RNA-seq]
The lung is inhabited by resident alveolar and interstitial macrophages as well as monocytic cells t...
GSE147054: mSeq of vtRNA1.1 and vtRNA1.3 knockout or control cells in standard and starvation condition
We report on how the loss of vtRNA1.1 reshapes the transcriptome in starved Hela cells. We observe m...
GSE142629: Effect of Th2 cytokines on AEC2 transcriptome
We report the effect of exposure to IL13 or IL4 of alveolar epithelial type 2 cells (AEC2s) in organ...
GSE148284: Essential functions of glycans in human epithelia dissected by a CRISPR/Cas9-engineered human organotypic skin model
We used RNA_Seq to quantify cellular transcripts in human immortalized N/TERT-1 keratinocytes upon k...
GSE134933: Activation of the Mitochondrial Stress Response in Clear Cell Renal Cell Carcinoma
Kidneys from our transgenic mouse model of early stage cancer of the kidney (TRACK) exhibit a mitoch...
GSE154778: Single-cell transcriptomics analysis of pancreatic primary tumor and metastatic biopsy tissues
The single-cell RNA profiles of dissociated 10 pancreatic primary tumors and 6 metastatic biopsies w...
GSE139484: Hepatic PPAR function and lipid metabolic pathways are dysregulated in polymicrobial sepsis
Despite intensive research and constant medical progress, sepsis remains one of the most urgent unme...
GSE144119: Alternative splicing and the epigenome in CML remission [RNA-Seq]
Transcriptomic and epigenomic profiling of matched CML diagnosis/remission samples revealed a reconf...
GSE143567: Transcriptomic characterisation of phenotypic haematopoietic stem cells from human adult bone marrow, spleen and peripheral blood
Haematopoietic stem cells (HSCs) and multipotent progenitors (MPPs), the precursors of all blood cel...
GSE155813: RNA-seq analysis of feeder cells for NK cells expansion
K562 and 221 cells SOURCE: Dongfang Liu (dongfang.liu@rutgers.edu) - Dongfang Liu Rutgers-The State ...
GSE133533: Follicular Regulatory T Cells Regulate the Development of Cytotoxic-like Follicular Helper T Cells
T follicular regulatory (TFR) cells are found in the germinal center (GC) response and help shape th...
GSE135028: CD97 is a Critical Regulator of Acute Myeloid Leukemia Stem Cell Function
Despite significant efforts to improve therapies for acute myeloid leukemia (AML), clinical outcomes...
GSE155715: The S enantiomer of 2-hydroxyglutarate increases central memory CD8 populations and improves CAR-T therapy outcome
Study aim: Investigate the effect of S-2HG (2-hydroxyglutarate) metabolite on the mRNA levels of hum...
GSE136402: Activation of Myd88-dependent TLRs mediates local and systemic inflammation in a mouse model of primary Sjgrens syndrome
Toll-like receptors (TLRs) are important mediators of chronic inflammation in numerous autoimmune di...
GSE154787: Next generation sequencing of wild-type and Meis2 otic vesicle transcriptomes
We report the RNAseq analysis of otic vesicles isolated from mouse wild-type and Meis2 mutant embryo...
GSE141692: mRNA profiles of tumor infiltrating macrophage and monocyte derived from C3 wild-type and knock-out mice, subjected to sarcoma transplantable model
Complement has emerged as a component of tumor promoting inflammation. We conducted a systematic ass...
GSE145323: Next-Generation Sequencing Analysis of Wild Type and Rfx1-/- or Rfx2-/- or Rfx3-/- Mouse Ependymal Cells
Purpose: This study was carried out to determine the consequences of inactivating either Rfx1, or Rf...
GSE135143: NFI Transcription Factors Govern Stem Cell Chromatin Accessibility and Guard Against Irreversible Hair Loss [scRNA-seq]
Tissue homeostasis and regeneration rely upon resident stem cells (SCs), whose behavior is regulated...
GSE152385: MYC regulates ribosome biogenesis and mitochondrial gene expression programs through its interaction with Host Cell Factor-1
MYC is an oncoprotein transcription factor that is overexpressed in the majority cancers. Although M...
GSE148584: Endothelial cells control muscle regeneration through angiocrine lactate
We studied metabolic angiocrine mechanisms by which endothelial cell_ECs_ can contribute to muscle r...
GSE133505: RNA-Seq of Myf6-knockout versus Wild-type satellite cells
In metazoans, skeletal muscle evolved to contract and produce force. Recent experimental evidence, ...