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Sequencing-based assays page 66
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GSE114607: Human Organ-Specific Endothelial Cell Heterogeneity
The endothelium first forms in the blood islands in the extra-embryonic yolk sac and then throughout...
GSE111305: GSF1243: RNA-seq data of adipocytes treated with DNMT1 inhibitor, guadecitabine (100nM), for 3 days
Ovarian cancer (OC) cells frequently metastasize to the omentum and adipocytes play a significant ro...
GSE111970: CRISPR-Cas9-based editing of histone H3 arginine 17 reveals its methylation-dependent regulation of Yap signaling and early mouse embryo development (RNA-seq data set)
We use rAPOBEC-XTEN-Cas9n-UGI (BE3) to introduce a point mutation (R17H) into 8 loci of Hist1H3 by a...
GSE118290: RNA-seq in livers of wild-type (WT) controls, PiZ and PIZ mice deleted for Chop (PiZ/Chop-/-)
Transgenic PiZ mice have been genetically engineered to express ATZ and have been a valuable experim...
GSE134442: miR-4711-5p regulates the cancer stemness and cell cycle progression through direct binding to KLF5, MDM2 and TFDP1 in colon cancer cells
It is important to establish cancer stem cells (CSCs)-targeted therapy for eradication of cancer. In...
GSE112774: Genetic editing of colonic organoids provides a molecularly distinct and orthotopic preclinical model of serrated carcinogenesis.
Objective: Serrated colorectal cancer (CRC) accounts for approximately 25% of cases, and includes tu...
GSE111906: Patient iPSC-derived neural stem cells display progressive enlargement of lysosomes and disruptions of glycosaminoglycan pathway and autophagy in concordance with clinical severity of Mucopolysaccharidosis I
Mucopolysaccharidosis type I (MPS I) is caused by genetic defects in alpha-L-iduronidase (IDUA), a l...
GSE112348: Evaluation of the post-stroke transcriptome of the mouse cortex using genome-wide RNA-seq
RNA-sequencing was conducted to profile the transcriptome of the post-ischemic mouse cortex at multi...
GSE116428: Sexual Dimorphism of Preeclampsia-Dysregulated Transcriptomic Profiles and Endothelial Function in Fetal Endothelial Cells
Preeclampsia-offspring have increased risks of developing cardiovascular disorders in adulthood, imp...
GSE104127: Next Generation Sequencing Analysis of WT and Hectd3/ BMDMs during F. novicida infection
Purpose: The goals of this study are to compare NGS-derived WT and Hectd3/ transcrip profiling (RNA-...
GSE112087: Systemic Lupus Erythematosus patient blood with controls
The experiment consists of 31 Systemic Lupus Erythematosus patient blood samples and 29 healthy dono...
GSE111568: miR-15/16 restrain cell cycle and memory T cell accumulation
Coordinate control of T cell proliferation, survival, and differentiation are essential for host pro...
GSE107090: The thioredoxin-1 system is essential for fueling DNA synthesis during T cell metabolic reprogramming and proliferation
The thioredoxin-1 (Trx1) system is a key player of the cellular redox balance and a sensor of energy...
GSE111703: Forniceal deep brain stimulation induces gene expression and splicing changes that promote neurogenesis and plasticity
Clinical trials are currently underway to assess the efficacy of forniceal deep brain stimulation (D...
GSE115125: Single cell transcriptomic analysis (InDrops) of mouse FoxP3+ regulatory CD4+ T cells isolated from spleen and muscle after injury
Single cell transcriptomic analysis (InDrops) of mouse FoxP3+ regulatory CD4+ T cells isolated from ...
GSE114717: RNA-sequencing analysis of regulatory T cells differentiated in presence or absence of CPI-1205
We differentiated nave CD4 T cells isolated from FoxP3-eGFP mice into inducible regulatory T cells i...
GSE112946: Transcriptional and chromatin profiles of duodenum epithelium upon HNF4 loss in mice by RNA-seq and ChIP-seq
We find that HNF4G is an intestine-particular HNF4 paralog, and works redundantly with HNF4A for dri...
GSE119660: RNA-seq profiling of mouse transformed culture cells as Pax6 locus cell models
Transcriptome profiling using RNA-seq of MV+, a mouse lens epithelium cell line expressing Pax6 and ...
GSE129612: Cell-specific ablation of Hsp47 defines the collagen producing cells in the injured heart
Overall goal: To elucidate fibroblast-specific role of Hsp47 in fibroblast activation, collagen prod...
GSE117605: Transcriptional changes in mouse models in SCA3
The study examined early transcriptional changes in the brain of different mouse models of spinocere...
GSE117720: A stably self-renewing adult blood-derived induced neural stem cell exhibiting patternability and epigenetic rejuvenation
Recent reports suggest that induced neurons (iNs), but not induced pluripotent stem cell (iPSC)-deri...
GSE129619: Disease modelling of core pre-mRNA splicing factor haploinsufficiency
We generated a human EFTUD2 knockdown cell line using a CRISPR cas9 nickase strategy to investigate ...
GSE113631: Transcriptome profiling of quiescent muscle stem cells in vivo
To understand the molecular signatures of quiescent muscle stem cells in vivo, we isolated quiescent...
GSE105110: Generation of Tumor Antigen-Specific iPSC-Derived Thymic Emigrants (iTE) using a Novel 3D Thymic Culture System
Induced Pluripotent Stem Cell (iPSC)-derived T cells may provide future therapies for cancer patient...
GSE112923: RNA-seq profiling of human thymic Tregs cultured in conditions containing Th1-cytokines, Retinoic acid or control conditions
To determine the effects of Th1-cytokines (IL-12 + IFN-gamma) or retinoic acid (RA) on expanding hum...
GSE112400: Polycomb repressive complex 1 (PRC1) role in skin epithelium development [HF I53A]
Polycomb repressive complexes (PRC) 1 and 2 are essential chromatin regulators of cell identity. PRC...
GSE111634: Gene expression profiling in human nasal epithelial cells (HNEpCs) stimulated with eosinophil-derived neurotoxin (EDN)
The goal of this study is to evaluate the function of eosinophil-derived neurotoxin (EDN) in eosinop...
GSE112221: Integrating the Epigenome to Identify Novel Drivers of Hepatocellular Carcinoma
Gene expression, histone modification, DNA methylation, and DNA hydroxymethylation from normal, cirr...
GSE115601: RNA seq in human gastroparesis
Both diabetic and idiopathic gastroparesis have unique and overlapping changes in the transcriptome....
GSE113343: RNA-seq reported in "Phosphorylated Lamin A/C in the nuclear interior binds active enhancers associated with abnormal transcription in progeria"
LMNA encodes nuclear Lamin A/C that tethers lamina-associated domains (LADs) to the nuclear peripher...
GSE120449: Mitochondrial complex III is essential for regulatory T cell suppressive function. [gene expression/RNA-seq]
Regulatory T cells (Treg cells), a distinct subset of CD4+ T cells, are necessary for the maintenanc...
GSE117387: Somatic loss of WWOX is associated with TP53 perturbation in basal-like breast cancer
Inactivation of WW domain-containing oxidoreductase (WWOX), the gene product of the common fragile s...
GSE113341: Genome-wide expression from the esophageal biopsies of subjects with and without eosinophilic esophagitis
Esophageal biopsy RNA was isolated from distal esophageal biopsy RNA from EoE patients with active d...
GSE112859: Targets mediated microRNA arm-imbalance promotes gastric cancer progression
Two miRNA arms from the same precursor, miR-574-5p and miR-574-3p, were reversely expressed and play...
GSE111626: Targeting RIP1 in tumor associated macrophage induced changes in macrophage polarization
Gene ontology analysis suggested that targeting RIP1 induced changes in diverse innate inflammatory ...
GSE112935: RNA-seq analysis dataset: FACS-sorted Ptf1a-lineage cells from E14.5 hypothalamus of Ptf1a hetero and homozygous mice
Because Ptf1a is a transcription factor, this protein should regulate transcription of various genes...
GSE113957: Predicting age from the transcriptome of human dermal fibroblasts
There is a marked heterogeneity in human lifespan and health outcomes for people of the same chronol...
GSE111752: Droplet based single cell RNA sequencing profiles of a murine model of type-1 diabetes
Diabetic kidney disease remains the leading cause of end-stage renal disease, affecting ~30% of pati...
GSE111916: Layer-specific molecular expression in neocortical astrocytes
Protoplasmic astrocytes in layers II to VI of the mammalian neocortex have historically been thought...
GSE104689: Maturation of hematopoietic stem cells from pre-hematopoietic stem cells is accompanied by upregulation of programmed death ligand 1
Hematopoietic stem cells (HSCs) in the fetal liver mature from pre-HSCs that originate in the major ...
GSE102982: JNK activation of BIM promotes hepatic oxidative stress, steatosis and insulin resistance in obesity
The BCL-2 family are crucial regulators of the mitochondrial pathway of apoptosis in normal physiolo...
GSE116432: Glucocorticoids enhance the anti-leukemic activity of FLT3 inhibitors in FLT3 mutant acute myeloid leukemia
Utilizing genome wide transcriptome analysis and drug screen we demonstrate that upregulation of inf...
GSE121247: Transcriptome analysis in shNull and shSETD8 medulloblastoma cells
The goal of this study was to determine the effect on gene transcription profiles in medulloblastoma...
GSE112937: Tissue-restricted adaptive type-2 immunity is orchestrated by OX40L expression on group 2 innate lymphoid cells
We investigated the transcriptional profiles of lung ILC2, Th2 and Treg (Gata3+ and -) cells from na...
GSE103403: Oct4 regulates the embryonic axis and coordinates exit from pluripotency and germ layer specification in the mouse embryo
Lineage segregation in the mouse embryo is a finely controlled process dependent upon coordination o...
GSE121224: An enhancer in the middle of the Ig locus orchestrates nuclear architecture to generate a diverse antigen receptor repertoire
Purpose:The goal of this study is to assess transcriptome profile in the absence of a potent enhance...
GSE120463: RNAseq analysis on E14.5 cortical material from mouse, Tcf4-ko line vs WT littermates.
Tcf4 encodes cortical differentiation during development SOURCE: Marten,Piet,Smidt (smidt.mp@gmail.c...
GSE134405: Temporal dissection of breast cancer brain metastases
The goal of this study was to identify temporal changes to breast cancer cells as they adapt to the ...
GSE111938: Next Generation Sequencing Analysis of Wild Type Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics
Purpose: The goals of this study are to use NGS to perform transcriptome profiling (RNA-seq) to find...
GSE114895: Thymic tuft cell single-cell mRNA analysis
The goal of the study was to sequence mRNA from tuft cells (identified as CD11c-;CD45-;EpCAM+;IL-25+...
GSE111951: 4sU metabolic labeled transcripts in mESCs
We carried out an extensive functional genomics analysis to elucidate the roles, if any, of splicing...
GSE114724: Single-cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment - 5' RNA sequencing and TCR sequencing
Knowledge of immune cell phenotypes in the tumor microenvironment is essential for understanding mec...
GSE111822: Identification of predictive markers for human mesenchymal stromal cells chondrogenic potential is challenged by donor variability
Human bone marrow derived mesenchymal stromal cells (BMSCs) represent a putative cell source candida...
GSE112057: Whole Blood Transcriptome Profiling in Juvenile Idiopathic Arthritis and Inflammatory Bowel Disease
We report whole blood gene expression of 12 healthy controls and 190 patients with either oligoartic...
GSE103683: GLI2-mediated mesenchymal Hh signaling induces stem cell niche signals in intestinal development and tumorigenesis [RNASeq]
Mesenchymal-epithelial interactions play a critical role in organ development, stem cells and diseas...
GSE129643: Skeletal Muscle Transcriptomics
Healthy human skeletal muscle samples were processed and analyzed to infer age associated skeletal m...
GSE111824 (mouse): Zfp281 shapes the transcriptome of trophoblast stem cells and is essential for placental development
Placental development is a key event in mammalian reproduction and embryogenesis. However, the molec...
GSE114213: ChIPseq and RNAseq analysis of T47D cells with/without silencing TRPS1/CHD4
We reported the transcriptional regulation function and mechanism of TRPS1-CHD4/NuRD. SOURCE: liming...
GSE113543: Zinc Finger Protein 521 regulates early hematopoiesis through cell extrinsic mechanisms in the bone marrow microenvironment
Zinc finger protein 521 (ZFP521), a DNA-binding protein containing 30 Krppel-like zinc fingers, has ...
GSE131581 (mouse): Combined Cohesin-Runx1 Deficiency Synergistically Perturbs Chromatin Looping and Causes Myelodysplastic Syndromes [RNA-seq]
STAG2 encodes a cohesin component and is frequently mutated in myeloid neoplasms, showing highly sig...
GSE111824 (human): Zfp281 shapes the transcriptome of trophoblast stem cells and is essential for placental development
Placental development is a key event in mammalian reproduction and embryogenesis. However, the molec...
GSE117843: Microbiota Depletion Impairs Adaptive Thermogenesis of Both Brown and Beige Adipose Tissue
Comparsion of gene expression in scWAT/pgVAT of Ctrl, ABX and SZ-ABX mice. SOURCE: John,R,Speakman I...
GSE117055: Neuronal heterogeneity and stereotyped connectivity in the auditory afferent system
Spiral ganglion (SG) neurons of the cochlea convey all auditory inputs to the brain, yet the cellula...
GSE119699: Pre-clinical evaluation of cysteamine bitartrate as a therapeutic agent for mitochondrial respiratory chain disease (human)
Pre-clinical studies of cysteamine bitartrate demonstrate its narrow therapeutic window, where toxic...
GSE109740: Transcription-associated histone pruning demarcates macroH2A chromatin domains
Here, we characterized de novo chromatin deposition of macroH2A2 using temporal genomic profiling in...
GSE114772: KLF4, a gene regulating prostate stem cell homeostasis, is a barrier to malignant progression and predictor of a good prognosis in prostate cancer
We propose that genes that control adult stem cell homeostasis in slowly turning over organs, such a...
GSE114818: Cecal transcriptome by Next Generation Sequencing of WT C57Bl/6 mice treated with water (vehicle) or with antibiotics (AIMD) to induce microbiome depletion .
Antibiotic induced microbiome depletion (AIMD) has been used frequently to study the role of the gut...
GSE112787: Efficient and precise editing of endogenous transcripts with SNAP-tagged ADARs
Molecular tools to target RNA sitespecifically allow recoding of RNA information and processing. SNA...
GSE114739: Impact of cecal ligation and puncture (CLP) on splenic NK1.1+CD3- gene expression [RNA-seq]
NK cell transcriptome comparison of Day 2 Sham and Days 1,2 CLP SOURCE: Isaac,J,Jensen (isaac-jensen...
GSE156836: A Thalamic Orphan Receptor Drives Variability in Short Term Memory
Working memory is a form of short-term memory that involves maintaining and updating task relevant i...
GSE129975: Atrx deletion in neurons leads to sexually-dimorphic dysregulation of miR-137 and spatial learning and memory deficits
Ablation of the ATRX chromatin remodeler specifically in forebrain excitatory neurons of mice causes...
GSE117066: Next Generation Sequencing Facilitates Quantitative Analysis of ischemic postconditioning (IPO) to attenuate hepatic ischemia-reperfusion injury in mice
This is the first study to investigate mRNA expression profiling in regard to hepatic I/R and IPO by...
GSE103618: Direct reprogramming of fibroblasts into antigen-presenting dendritic cells
Ectopic expression of transcription factors has been used to reprogram differentiated somatic cells ...
GSE114845: Systems genetics of sleep regulation
We used a systems genetics approach in the BXD genetic reference population of mice and assembled a ...
GSE135943: Assessment of the Mode of Action Underlying the Effects of GenX in Mouse Liver and Implications for Assessing Human Health Risks
To investigate the potential role of peroxisome proliferator activated receptoralpha (PPARa) activat...
GSE112797: Kinetic analysis of TGFbeta-induced EMT in NMuMG/E9 cells
To investigate the transcriptional remodelling during EMT, we treated normal murine mammary gland ep...
GSE111739: Opposing roles of miR-290 family and muscleblind-like proteins in the regulation of embryonic stem cell-specific alternative splicing and gene expression program
RNA profiling of WT,Dgcr8-/- mESCs and miR-294 or siMbnl1/2 transfected Dgcr8-/- ESCs showed that mi...
GSE118863: Transcriptome analyses of somatotropes and lactotropes reveal novel regulators of cell identity in the pituitary
The differentiation of the hormone-producing cell lineages of the anterior pituitary represents an i...
GSE111960: Arginine methylation controls cell proliferation by integrating E2F activity with the splicing machinery (RNA-seq data set)
Residue-specific arginine methylation (meR) on the E2F1 subunit plays an essential role in determini...
GSE114166: TWEAK/Fn14 axis is a therapeutic target for post-angioplasty restenosis
Aim: Next generation sequencing-based methods were performed to identify genes and pathways regulate...
GSE114126: Comparing the Transcriptomes of Wild Type (WT) and Gdf9-Cre or Zp3-Cre mediated Mtor Oocyte-Conditional Knockout (referred to as MG and MZ, respectively) Mouse GV-stage fully-grown oocytes (FGO) by RNA-Seq Analysis
The goal of this study is to identify the differentially expressed genes in Gdf9-Cre and Zp3-Cre med...
GSE112828: Effects of Hnf4a deletion in the nephron lineage during kidney development
The goal of our study is to determine if Hnf4a is required for the formation of proximal tubules dur...
GSE135975: Gene expression in normal and cancer associated oral fibrolasts
To identify genes differentially expressed between normal oral fibroblasts and CAFs derived from gen...
GSE117759: A gene regulatory network driven by LIM homeobox 1 (LHX1) for embryonic head development (RNA-seq)
Development of the embryonic head is driven by the activity of gene regulatory networks of transcrip...
GSE114064: Widespread Alterations in Translation Elongation in the Brain of Fmr1 Knock-Out Mice
FMRP is a polysome-associated RNA-binding protein encoded byFmr1and lost in Fragile X syndrome. Incr...
GSE119668: Molecular mechanism impacted by circadian disruption underscores the importance of timed anti-cancer treatment
Circadian disruption has multiple pathological consequences, but the underlying mechanisms are large...
GSE112948: Transcription factor IRF8 orchestrates the adaptive natural killer cell response
Natural killer (NK) cells are innate lymphocytes that have been recently appreciated to display feat...
GSE107535: RNA-sequencing of cTECs, mTECs, and thymocyte maturation subsets SM, M1 and M2 from the CD4 and CD8 lineages from WT and Psmb11-deficient mice [DSP216]
Purpose: Cortical thymic epithelial cells (cTECs) contain a unique type of proteasomes, thymoproteas...
GSE113385: Gene expression profiling in mouse fibroblast tumors with overexpression of the homeoprotein SIX1
Six1 is a developmental transcriptional regulator frequently overexpressed in human tumors. Recent r...
GSE112999: RNA sequencing of white adipose tissue of lean and obese mice
We report differential expressed genes in white adipose tissue of mice fed with a low-fat diet or a ...
GSE104765: Immunosubtyping of breast cancer reveals distinct myeloid cell biology and immunotherapy resistance mechanisms
Cancer-induced immune responses affect tumor progression and therapeutic response. In multiple muri...
GSE125865: mRNA destabilization by BTG1 and BTG2 maintains T cell quiescence [RNA-seq]
Quiescence is a cellular state in which cells undergo reversible cell cycle arrest in response to en...
GSE115264: WT and aP2-Cre Adipocyte Bmal1 KO 24hr Time Course, Liver Tissue RNA-seq
Liver metabolism in mice lacking Bmal1 in adipocytes. Comparison between WT and KO revealed no diffe...
GSE113267: The transcription factor Rfx7 limits metabolism of NK cells promoting their maintenance and immunity
Regulatory factor X 7 (Rfx7) is an uncharacterized member of a family of transcription factors playi...
GSE117879: Unique Trophoblast Chromatin Environment Mediated by the PcG Protein SFMBT2 [RNA-seq]
Sfmbt2 is a paternally imprinted gene critical for the establishment and maintenance of trophoblast ...
GSE113070: Role of Epstein-Barr Virus (EBV) latency protein EBNA3C in EBV-induced lymphomagenesis in a cord blood-humanized mouse model
This study compares cellular and viral gene expression in a cord blood-humanized (CBH) mouse model i...
GSE113417: Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility (Mouse single cell RNA-seq)
We report a new technology for the parallel bimodal analysis of RNA-seq and ATAC-seq within a singl...
GSE107357: Forniceal deep brain stimulation induces gene expression and splicing changes that promote neurogenesis and synaptic plasticity
Clinical trials are currently underway to assess the efficacy of forniceal deep brain stimulation (D...
GSE114760: Remodeling Group 3 medulloblastoma: MYC overexpression alone transforms progenitors of astrocytes and granule neurons in the postnatal cerebellum
Group 3 medulloblastoma is often associated with MYC amplification or overexpression, while whether ...
GSE119331: Molecular Pathology of adverse local tissue reaction caused by metal-on-metal implants
RNA-sequencing analysis of periacetabular synovial tissue collected from patients undergoing a revis...