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Sequencing-based assays page 78
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GSE133828: Hematopoietic stem cell-restricted Cdx2 expression induces transformation to myelodysplasia and acute leukemia [RNASeq_Cdx2_secondaryAML]
The caudal-related homeobox transcription factor CDX2 is ectopically expressed in the majority of pa...
GSE121688: Gene expression profiles in Norad+/+ and Norad-/- brains and spleens [RNA-seq]
Although numerous long noncoding RNAs (lncRNAs) have been identified, our understanding of their rol...
GSE123115: Gene expression profile in Liver of young and old mice with MANF overexpression
MANF overexpression in old mice had a beneficial effect in the liver and restored expression levels ...
GSE122593: Dynamic expression of Id3 defines the stepwise differentiation of tissue-resident regulatory T cells
Foxp3+ regulatory T (TR) cells are phenotypically and functionally diverse, and broadly distributed ...
GSE111778: Comparing the effects of low protein, high carbohydrate diets and caloric restriction on brain aging in mice.
Calorie restriction (CR) increases lifespan and improves brain health in mice. Ad libitum low protei...
GSE123427: Temporal gene expression patterns (Next Generation Sequencing) in liver tumourigenesis of hepatocyte-specific deletion of shp2 and/or pten
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE127936: Early commitment genes drive fast, irreversible commitment to human embryonic stem cell differentiation (RNA-seq data set 2)
The goal of this study was to characterise the earliest transcriptional changes that occur in human ...
GSE122132: SOS1-mutant cells share a similar transcriptional profile as KRAS G12V cells
RNA sequencing in NIH-3T3 cells SOURCE: Diana Cai (dianacai@fas.harvard.edu) - Harvard University
GSE115091: Transcriptomic profiling of E9.5 mouse embryos lacking the lipoprotein receptor SR-B1
The high-density lipoprotein receptor SR-B1 mediates cellular uptake of several lipid species, inclu...
GSE129770: PS2APP sorted cell types
Mice of indicated genotypes were perfused and their brains dissected and dissociated. Cells were fix...
GSE111501: A homeostatic Arid1a-dependent permissive chromatin state licenses hepatocyte responsiveness to liver injury-associated YAP signaling (RNA-seq)
Following injury, differentiated epithelial cells can serve as a stem cell-independent source for ti...
GSE121827: RNA_seq analysis on Tfh and Treg before and after abatacept treatment
Analysis of transcriptome data identified 96, 64 and 3 genes that were differentially expressed (DE...
GSE122106: RNA Sequencing Data in control and Acvr1:Nfatc1Cre mouse aortic valve tissues (4 months old)
Aortic valves were microdissected from control and Acvr1:Nfatc1Cre mutants (n=3) and subjected to RN...
GSE111806: Anti-PD-L1 antibody direct activation of macrophages contributes to an abscopal response in murine brain tumors
Immunotherapy approaches for glioblastoma multiforme have been thus far largely unsuccessful, sugges...
GSE124548: Transcriptomic Responses to Lumacaftor/Ivacaftor Therapy in Cystic Fibrosis
Cystic fibrosis (CF) remains a life-shortening disease without a definitive cure. Novel therapeutics...
GSE121446: RNA-seq profiling of plasmacytoid and conventional dendritic cells from wildtype and PU.1 knockout mice
Dendritic cells (DCs) are can be broadly divided into conventional (cDC) and plasmacytoid (pDC) subs...
GSE125043: Next Generation Sequencing Quantitative Analysis of Wild Type and AML1-ETO Related Fusion Circular RNA (F-CircAE) Knockdown Kasumi-1 Cells Transcriptomes
The goal of this study is to determine the difference in transcriptome expression profils between wi...
GSE122131: Genome transfer for the prevention of female infertility caused by maternal gene mutation
Maternal gene plays crucial role in the regulation of oocyte maturation and preimplantation embryoni...
GSE122304: PolyA-sequencing in IMR-32 neuroblastoma cells with shRNA mediated depletion of CDK12, CDK13 or GFP.
We performed RNA-seq analysis of polA transcripts in IMR-32 cells with shRNA-mediated depletion of C...
GSE124693: Coordination of hunger and sleep through circadian regulation of transcription in energy-sensing neurons
Alignment of fasting and feeding with the sleep/wake cycle is coordinated by hypothalamic neurons, t...
GSE121469: Pluripotent stem cell-derived myogenic progenitors remodel their molecular signature upon in vivo engraftment [RNA-seq]
Optimal cell-based therapies for the treatment of muscle degenerative disorders should not only rege...
GSE155667: ELL facilitates RNA Polymerase II mediated transcription of human epidermal proliferation genes
ELL plays an essential role in human epidermal proliferation by binding to proliferation genes and f...
GSE122168: Identification of ADAR1 adenosine deaminase dependency in a subset of cancer cells
Using RNA-seq to identify gene expression changes after genetic deletion of ADAR SOURCE: Tao Zou (ta...
GSE121251: Foxp1 is critical for the maintenance of Treg cell quiescence and suppressive function
Regulatory T (Treg) cells, in which Foxp3 is the master regulator, play central roles in maintaining...
GSE111473: RASA3 regulates the balance of pTh17-Th2 reciprocal programs.
Total RNAof pTh17 cells from wild type (WT) and RASA3 KO (RASA3KO) mouse (C57BL/6) was extracted and...
GSE112223: Organ-specific translation elongation rates measured by in vivo ribosome profiling
Protein synthesis and degradation are intricate biological processes involving more than a hundred p...
GSE112461: Azacitidine Modulates the Mesenchymal Stromal Cell Compartment in Myelodysplastic Syndromes
Mesenchymal stromal cells (MSC) are crucial components of the bone marrow (BM) microenvironment esse...
GSE121922: Transcriptomic and gene ontology profiling of the human corneal cell types
Purpose: To identify distinct gene expression and functional profiles for the three main cell types ...
GSE121366: Gene expression profiling of Foxr2-induced brain tumors
The goal of this study is profile gene expression patterns of Foxr2-induced brain tumor cells. Foxr2...
GSE126050: Phospho-small RNA-seq reveals circulating, extracellular mRNA/lncRNAs as potential biomarkers in human plasma: Hematopoietic Stem Cell Transplant [HSCT]
Extracellular RNAs (exRNAs) in blood and other biofluids have attracted great interest as potential ...
GSE122167: Impact of UCP1 and FGF21 for the development of diet-induced obesity at standard housing temperatures
Global RNA sequencing analysis of brown fat (BAT), inguinal white fat (iWAT), liver and muscle (quad...
GSE133734: FXR isoform selective transcriptional activation in mouse liver organoids
The farnesoid X receptor (FXR) is a nuclear receptor activated by bile acids that regulates metaboli...
GSE121007: Deciphering clonal evolution and dissemination of Multiple Myeloma cells in vivo
Clonal evolution drives tumor progression, dissemination and relapse in cancer, and dissemination or...
GSE121482: RNA-seq of Treg and Tconv subsets from murine spleen
While unique subsets of Treg cells have been described in some non-lymphoid tissues, their relations...
GSE112002: Expansion of Islet-Resident Macrophages Leads to Inflammation Affecting Beta Cell Proliferation and Function in Obesity
Inflammation is a key component of the pathogenesis of obesity-associated type 2 diabetes (T2D). How...
GSE121896: Evidence for HOXC6 as a potential molecular marker for non-small cell lung cancer
HOXC6 is a transcription factor that regulates cell differentiation during embryonic development whi...
GSE130031: Estrogen receptor-depended gene signatures in the mouse mammary gland after acute estradiol treatment (RNA-Seq)
Estrogen receptor (ER) is the major driving transcription factor in normal mammary gland developmen...
GSE122071: Cap-specific terminal N6-methylation of RNA by an RNA polymerase II-associated methyltransferase.
N6-methyladenosine (m6A), a major modification of messenger RNAs (mRNAs), plays critical roles in RN...
GSE118780: Transcriptomic Signatures of Postnatal and Adult Intrinsically Photosensitive Ganglion Cells
Purpose: The goal of this study was to determine a molecular parts list for intrinsically photosensi...
GSE124951: Transcriptome analysis of U1 snRNA overexpression in human neurons
U1 snRNA is the small nuclear RNA that services as the backbone of U1 snRNP. Removing intron from pr...
GSE123405: Single cell RNA-sequencing Identification of Novel Cell-specific Expression of Lung Disease-related Genes in the Human Small Airway Epithelium
The human small airway epithelium (SAE) plays a central role in the early events in the pathogenesis...
GSE121951: polyA RNA Sequencing Analysis of HTR-8/SVneo cells after lnc-SLC4A1-1 overexpression
To further evaluate the functional role of lnc- SLC4A1-1, we overexpressed lnc-SLC4A1-1 in HTR-8/SVn...
GSE111847: KDM5B decommissions the H3K4 methylation landscape of self-renewal genes during trophoblast stem cell differentiation [RNA-seq]
Trophoblast stem (TS) cells derived from the trophectoderm (TE) of mammalian embryos have the abilit...
GSE123434: Dual RNA-seq of Neisseria gonorrhoeae and human neutrophils
Deep sequencing of cDNA from Neisseria gonorrhoeae bacteria and human neutrophils, alone and after c...
GSE121534: Differentiation enhances Zika virus infection in neuronal brain cells
Zika virus (ZIKV) is an emerging, mosquito-borne pathogen associated with a widespread 20152016 epid...
GSE124185: Co-repressors Mtg8 and Mtg16 regulate niche exit and early fate decision of crypt stem cells (RNA-seq)
In this experiment, the differential gene expression was examined in intestinal epithelial cells of ...
GSE112764: DDX6 decouples translational repression from RNA degradation of miRNA targets [ESC EpiLC 4sU]
Translation and mRNA degradation are intimately connected, yet the mechanisms that regulate them are...
GSE126066: Nanoparticle-coupled topical methotrexate effectively inhibits inflammation and induces re-modeling in pre-clinical psoriasis
This project explores the efficacy of a novel skin-permeable MTX formulation, on murine and human xe...
GSE122080: Transcriptomics analysis of the livers of old mice treated with Ouabain
Methods: Liver mRNA profiles of 7 weeks old wild-type (WT) and 24 months old mice treated with Vehic...
GSE121796: C5aR1 regulates T-follicular-helper differentiation and chronic graft-versus-host disease bronchiolitis obliterans
The goal of the study was to determine the effect of T cell expressed C5ar1 on transcriptional profi...
GSE121893: Dissecting cell composition and cell-cell interaction network of human disease heart tissue by single-cell sequencing
We studied the cell compositon of two types of human heart disease (coronary atherosclerotic heart d...
GSE123262: miRNA expression profiles and molecular networks in resting and LPS-activated BV-2 microglia - Effect of cannabinoids
Cannabinoids are known to exert immunosuppressive activities. However, the mechanisms which contribu...
GSE123414: Physical and molecular landscapes of mouse glioma extracellular vesicles define heterogeneity
Extracellular vesicles (EVs) comprise a novel mechanism for cellular communication by transferring p...
GSE123757: Microglia in developing retina transition through a disease-like functional state that does not require CSF1R signaling for survival
Microglia have important remodeling functions in development and disease. There is evidence for mole...
GSE125154: Chromatin assembly factor HIRA is essential for the maintenance of hematopoiesis
HIRA is a histone chaperone that deposits the histone variant H3.3 in transcriptionally active genes...
GSE126357: Inguinal LN cDC1 SubQ KPC
Bulk RNA sequencing of sorted inguinal LN cDC1s from healthy mice and mice subcutaneously implanted ...
GSE120877: Bacterial sepsis triggers an antiviral response that causes translation shutdown
In response to viral pathogens, the host upregulates antiviral genes that suppress translation of vi...
GSE121703: The X chromosome gene Kdm6a modulates multiple immune response genes in CD4+ T cells and is disease promoting in autoimmune disease
Multiple sclerosis (MS) is a T-cell mediated autoimmune disease that has a sexually dimorphic patter...
GSE123420: Taggera Swiss army knife for multiomics to dissect cell type-specific mechanisms of gene expression in mice [Ribo-Tag-RNA-seq]
We developed a knock-in mouse line that combines four enrichment tools to study gene regulatory netw...
GSE124621: PGRMC2 is an Intracellular Heme Chaperone Critical for Adipocyte Function
We describe a role for the poorly annotated protein PGRMC2 in retrograde transport of heme from mito...
GSE112939: Myeloid Skewing in Aging Bone Marrow Depends on Long-lived Plasma Cell Accumulation
Aging results in a reduction in B lymphopoiesis and an increase in myelopoiesis in mice and humans. ...
GSE123805 (mouse): Transcriptome of activated human and mouse MAIT cells
We sought to describe in detail the consequences of MAIT cell activation using a transcriptomic appr...
GSE111734: Astrocytic trans-differentiation completes a multicellular paracrine feedback loop required for medulloblastoma tumor growth
We used RNA-sequencing technology for high-throughput profiling of tumor-derived astrocytes. Laser c...
GSE124590: Safety profiling of genetically engineered Pim-1 kinase overexpression for oncogenicity risk in human c-kit+ cardiac interstitial cells
Bulk RNA-seq to profile of c-kit+ cardiac interstitial cells, comparing the transcriptomes of Pim-1 ...
GSE134576: Clonally expanded CD8 T cells patrol Alzheimer's cerebrospinal fluid [TEMRA]
Alzheimers disease (AD) is an age-related neurodegenerative disorder in which neuroinflammation play...
GSE124726: ASO-mediated RNA Suppression through Targeted Epigenetic Reprogramming of the Hdac2 Gene
We elicited ASO-mediated knockdown of mRNAs in the nervous system by targeting the memory-repressor ...
GSE126720: Genome-wide studies identify genes directly regulated by PML/RAR fusion protein
Acute promyelocytic leukemia (APL) is characterized by a specific t(15;17) chromosome translocation ...
GSE128069: A comparison of the transcriptional profiles of invariant NKT cells derived from Wild type and Eomes conditional knockout mice
Functional subsets of iNKT cells, NKT1, NKT2 and NKT17, have been reported to arise during the thymu...
GSE128333: Deconvolution of Transcriptional Networks Identifies TCF4 as a Master Regulator in Schizophrenia
We report the data generated upon knockdown of TCF4 in hiPSC-derived neural progenitor cells and glu...
GSE129820: Bone Morphology is Regulated Modularly by Global and Regional Genetic Programs
Comparative transcriptomic analysis of different Sox9+/Scx+ progenitor populations identified genes ...
GSE123149: RNA-sequencing of murine WT and MAZR-cKO FOXP3+ regulatory T cells (Treg cells)
The analysis of WT and MAZR-cKO mice indicates that the transcription factor MAZR plays an important...
GSE124728: Single cell multi-omics analysis reveals novel roles for DNA methylation in sensory neuron injury responses
We used single cell multi-omics method to simultaneously profiled both DNA methylome and mRNA trans...
GSE126925 (human): The transcription factor IRF4 plays a critical role in plasma cell identity and function
IRF4 regulates the plasma cell signature but also regulates plasma cell metabolism SOURCE: Wei Shi (...
GSE116993: F-actin dynamics regulates mammalian organ growth and cell fate maintenance
Cell function depends on the mechanical properties of the microenvironment. Cells probe these featur...
GSE122099: Molecular pathway analysis towards understanding tissue vulnerability in spinocerebellar ataxia type 1
Purpose: The goals of this study were to identify the molecular alterations in the SCA1 inferior oli...
GSE123392: MARS-seq2.0 an experimental and analytical pipeline for indexed sorting combined with Single-cell RNA sequencing
Human tissues are composed of trillions of cells that populate a complex space of molecular phenotyp...
GSE123807: Combined MEKi (GDC-0973) and WNT (G007-LK) treatment in APC and KRAS mutant HCT-15 cell line
We report RNAseq data from HCT-15 cells were treated wih control(DMSO), GDC-0973, G007-LK and combin...
GSE125621: SPT6-driven error-free DNA repair safeguards genomic stability of glioblastoma cancer stem-like cells
Knockdown of SUPT6H (aka Spt6) using siRNA against Spt6 compared to treatement with scrambled CTRL s...
GSE123632: Next generation sequencing facilitates lineage identity of RA-induced and RA/CHIR-induced ESCs
To uncover the mechanism that Wnt signaling modulates RA-induced ESC differentiation, we conducted t...
GSE114212: Genetic compensation is triggered by mutant mRNA degradation
Genetic compensation by transcriptional modulation of related gene(s) (also known as transcriptional...
GSE121480: RNA-seq of bulk Treg and Tconv cells from murine liver and lymphoid tissues
With the aim of understanding how Treg cells in highly vascularized tissues are related to Treg cell...
GSE121907: RNA-sequencing on sorted Nrn1-/- and Nrn1+/- effector Treg cells
Nrn1-/- and Nrn1+/- CD4+CD25+Cd62LlowCD44highFoxp3gfp+ were sorted from Nrn1-/- and Nrn1+/- mice on ...
GSE126075: The influence of WWOX gene on cellular pathways in neuronal differentiation of human neural stem cells
The aim of presented study was to investigate in detail how depletion of WWOX gene disturbs signalin...
GSE125626: Nppb Neurons Are Sensors Of Mast Cell-Induced Itch
Itch is an unpleasant skin sensation which can be triggered by exposure to many chemicals including ...
GSE122133: Transcriptome differences between brown adipose tissues of wildtype and UCP1-KO mice
We analyzed coding transcript abundance in murine, interscapular brown adipose tissue from wildtype ...
GSE121488: Caloric Restriction Triggers Anti-tumor Immunity via a Mechanism Involving NK Cells and Transcription Factor Eomesdermin
Our work argues that CR treatment enhances tumor-extrinsic anticancer effect by metabolic and transc...
GSE122308: Material properties of biomolecular condensates regulates RNA splicing and tumorigenesis
It remains largely unclear how material properties of biomolecular condensates impact physiological ...
GSE122294: RNA sequencing of mammary tumors induced in MTB-IGFIR transgenic mice fed 20% ISP, 1% ISP, or 20% Casein
Epidemiologic studies demonstrate that women from cultures that consume high levels of dietary soy h...
GSE125194: Mouse skin samples after Zika virus-infected mosquito bites
Mouse skin bitten by Zika virus-infected mosquitoes were isolated and performed RNA-seq SOURCE: Ryut...
GSE125664: Serotonin-induced hyperactivity in SSRI-resistant major depressive disorder patient-derived neurons
The goals of this study are to generate and study neurons from MDD patients and examine specific asp...
GSE111839: Transcriptional and Epigenomic Landscapes of CNS and non-CNS Vascular Endothelial Cells
Vascular endothelial cell (EC) function depends on appropriate organ-specific molecular and cellular...
GSE121836: Sex-specific adipose tissue imprinting of regulatory T cells (RNA-seq)
Visceral adipose tissue (VAT) is a metabolically active endocrine organ that plays a critical role r...
GSE121957: Single-cell RNA sequencing reveals transcriptional dynamics of estrogen-induced dysplasia in the ovarian surface epithelium
We use single-cell RNA sequencing (scRNA-seq) to explore the transcriptional changes associated with...
GSE121845: Small-molecule targeting of brachyury transcription factor addiction in chordoma [rnaseq_sgrna]
Chordoma is a primary bone cancer with no approved therapy. The identification of therapeutic target...
GSE112227: Mouse polycomb group gene Cbx2 promotes osteoblastic but suppresses adipogenic differentiation in postnatal long bones
A set of key developmental genes is essential for skeletal growth from multipotent progenitor cells ...
GSE124622: Next Generation Sequencing of control (Untreated), PAN injured and Adriamycin injured human podocytes
Purpose: Next-generation sequencing (NGS) was used to identify cellular pathways and genes through s...
GSE121936: COX2 Induction in the Ovarian Epithelium Promotes Cell Survival During Ovulatory Wound Repair
We leverage RNA sequencing to identify the transcriptional changes assocaited with a TGFB1-induced e...
GSE123379: NOTCH signaling is activated in and contributes to resistance in enzalutamide-resistant prostate cancer cells
Prostate cancer is the second leading cause of cancer death among men in the United States. The Andr...
GSE128334: Niche-Specific Re-Programming of Epigenetic Landscapes Drives Myeloid Cell Diversity in NASH [scRNA-seq]
Tissue resident macrophages and recruited monocyte-derived macrophages contribute to host defense bu...
GSE126069: Usp22 controls multiple signaling pathways that are essential for vasculature formation in the mouse placenta
Usp22, a component of the SAGA complex, is over expressed in highly aggressive cancers, but the norm...