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Sequencing-based assays (Page 83)
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GSE125197: Molecular Profiling defines evolutionarily conserved transcription factor signatures of major vestibulospinal neuron groups
Vestibulospinal neurons are organized into discrete groups projecting from brainstem to spinal cord,...
GSE124410: LPS time-course in WT and Stk40 KO BMDMs
Bone marrow was harvested from Rosa26CreER; Stk40+/+ (WT; n = 3) and Rosa26CreER; Stk40loxp/loxp (St...
GSE142387: The genomic landscape of metastasis in treatment-nave breast cancer models
Exome and whole genome sequencing of matched primary tumor and lung metastases was used to identify ...
GSE135389: Xist Repeats A and B account for two distinct phases of X-inactivation establishment
X-chromosome inactivation (XCI) is a global silencing mechanism by which XX and XY mammals equalize ...
GSE120555: Gain of function DNMT3A mutations cause microcephalic dwarfism and hypermethylation of Polycomb-regulated regions (mouse NPC RNAseq)
DNA methylation and Polycomb are key factors in the establishment of vertebrate cellular identity an...
GSE129442: Effect of inhibition of PI3-Kinase p110alpha on saturated fatty acid-induced gene expression alterations in murine 3T3-L1 adipocytes
Gene expression pattern in murine 3T3-L1 adipocytes treated with saturated fatty acid (palmitate) in...
GSE115109: Macrophage Syk-PI3K-HIF axis controls tumor immune suppression
Macrophages (Ms) play a critical role in tumor growth, immunosuppression and inhibition of adaptive ...
GSE116329: Methylation of structured RNA by the m6A writer METTL16 is essential for mouse embryonic development
Internal modification of RNAs with N6-methyladenosine (m6A) is a highly conserved and widely used me...
GSE133895: An Lkb1-Sik axis suppresses tumor growth and controls differentiation [RNA-Seq]
Background: LKB1 is among the most frequently altered tumor suppressors in lung adenocarcinoma. Desp...
GSE118019: Regulation of myeloid function by LC3-associated phagocytosis promotes tumor immune tolerance
Targeting autophagy in cancer cells and in the tumor microenvironment are current goals of cancer th...
GSE135968: Transcription factor Zfp281 sustains CD4+ T lymphocyte activation by directly repressing Ctla-4 transcription
Expression of co-inhibitory receptors, such as CTLA-4, on effector T cells is a key mechanism for th...
GSE115271: An alternative sensing strategy of microglia for pathogen infection: Odorant receptor-pathogen-derived metabolite axis
The goals of this study are to identify ectopic expression of microglial odorant receptors and to de...
GSE128969: Screening key lncRNAs for human rectal adenocarcinoma based on lncRNA-mRNA functional synergistic network
The purpose of this project was to find key long non-coding RNAs and mRNAs in rectal adenocarcinoma...
GSE123154: SF2523: Dual PI3K/BRD4 inhibitor blocks tumor immunosuppression and promotes adaptive immune responses in cancer
Macrophages (MQs) are key immune infiltrates in solid tumors and serve as major drivers behind tumor...
GSE117517: RNA-seq results in adipose tissues of fat-specific Mecp2 knockout mice
Fat-specific knockout of Mecp2 results in downregulation of adipogenesis genes and upregulation of t...
GSE126518: Early Notch signals induce a pathogenic molecular signature during priming of alloantigen-specific conventional CD4+ T cells in graft-versus-host disease
Graft-versus-host disease (GVHD) is the most serious complication of allogeneic hematopoietic cell t...
GSE124261: ZGLP1 is a determinant for the oogenic fate in mice (RNA-seq)
Mammalian sexual reproduction relies on the dichotomy of male and female germ cell development. Howe...
GSE117532: Host susceptibility to recurrent cystitis is shaped by bladder TNF-alpha signaling dynamics
Urinary tract infections (UTI) are common and recurrent. Both host genetics and UTI history impact s...
GSE125495: Maternal Vitamin C regulates DNA demethylation and devlopment of the mouse embryonic germline [soma RNA-seq]
Maternal Vitamin C is required in vivo for proper DNA demethylation and development of fetal germ ce...
GSE125539: Gene expression profiles in double transgenic (DT, Pum2;rtTA3) and control (CTR, Pum2 and wild-type) spleens [RNA-seq]
Although numerous long noncoding RNAs (lncRNAs) have been identified, our understanding of their rol...
GSE116117: The FAK-Inhibitor BI 853520 exerts anti-tumor effects in breast cancer
In order to delineate the molecular mechanisms leading to the therapeutic effect of BI 853520 on pri...
GSE118089: Complement C5a/C5a receptor 1 induces renal injury in diabetic kidney disease via mitochondrial metabolic reprogramming
In mice, complement C5a and its receptor C5aR1 elicit systemic and local inflammation and drive tiss...
GSE117504: Host transcriptional responses during chronic Toxoplasma gondii infection reveals sex specific differences that lead to altered protection against secondary infection
We sequenced the cerebral cortex transcriptome of both male and female mice either infected with T. ...
GSE138522: Cell type-specific RNA-seq to profile transcriptional changes in sorted BLA projection neurons during conditioned taste aversion learning
In order to identify specific transcripts that might be necessary for CTA learning within the BLA, w...
GSE142269: Sequential regulation of glutamatergic and subtype-specific projection neuron identities in the developing cerebral cortex
Purpose:To asses changes in gene expression profiles of cortices from the P0 wild type littermate co...
GSE125441: REM sleeps unique associations with corticosterone regulation, apoptotic pathways and behavior in chronic stress in mice
One of sleeps putative functions is mediation of adaptation to waking experiences. Chronic stress is...
GSE120655: A critical regulator of Bcl2 revealed by systematic transcript discovery of lncRNAs associated with T-cell differentiation
Normal T-cell differentiation requires a complex regulatory network which supports a series of matur...
GSE118028: RNA-sequencing of mouse double-negative developing thymocytes [CD4-, CD8-, CD3-, B220-, CD25high, CD44low, and CD117low]
We performed a transcriptome comparison of double-negative developing thymocytes from the DN3 popula...
GSE128423: A cellular taxonomy of the bone marrow stroma in homeostasis and leukemia demonstrates cancer-crosstalk with stroma to impair normal tissue function
Here, we use single-cell RNA-seq to define a cellular taxonomy of the mouse bone marrow stroma and i...
GSE128276: scRNA-sequencing of dorsal root ganglia neurons from vitamin E deficient mice
We report the effects of vitamin E deficiency using the Ttpa-null mouse model on transcriptome profi...
GSE117157: Thyroid hormone regulated genes in the neonatal testis
An excess in thyroid hormone during rodent neonatal life causes abnormal prolifration and maturation...
GSE116169: Paf1C regulates RNA polymerase II progression by modulating elongation rate
Elongation factor Paf1C regulates several stages of the RNA polymerase II (Pol II) transcription cyc...
GSE125394: Gene expression profiling in RagC T89N germinal center B cells and RagC S74C murine B220+ lymphoma cells
Gene expression by RNAseq in murine germinal centers induced by SRBC in RagC T89N mice (YRT codes) ...
GSE120998: RNA-seq analysis about Zscan4 knocked down samples and overpressed samples
Transcription factor Zscan4 was newly discovered to be a marker of the intermediate state of 2-cell ...
GSE128241: Distinct modes of cell competition shape mammalian tissue morphogenesis
Cell competition (CC)the sensing and elimination of less fit loser cells by neighbouring winner cell...
GSE131664: Identifying new signaling mediators responsible for Mesothelin (MSLN) intraperitoneal (IP) tumor growth phenotype
Identification of new targets involved in MSLN signaling by comparing mRNA expression patterns in MS...
GSE121412: Epigenetic intersection of BDNF Val66Met genotype with premenstrual dysphoric disorder transcriptome in a cross-species model of estradiol add-back
Ovariectomized BDNF Val66Met mice, a model that is genetically susceptible to stress, exhibited anxi...
GSE128999: RNA-seq profiling of fibroblasts isolated from two distinct lung metastases stages and from normal lungs
We found that fibroblasts derived from lung metastases display specific gene signatures related to d...
GSE130164: Hepatocyte nuclear factor-1 regulates Wnt signaling through genome-wide competition with -catenin/lymphoid enhancer binding factor
Hepatocyte nuclear factor-1 (HNF-1) is a tissue-specific transcription factor that is essential for ...
GSE122746: BCL6 reinforces brown adipocyte cellular identity to preserve thermogenic fitness
Brown adipose tissue (BAT) generates heat via uncoupled respiration, providing mammals with an evolu...
GSE124691: Single-Cell Profiling Defines Transcriptomic Signatures Specific to Tumor-Reactive versus Virus-Responsive CD4+ T Cells
We used single-cell mRNA sequencing to analyze the response of tumor-specific CD4+ TILs and draining...
GSE127488: Smarcad1 coordinates innate immunity-linked gene expression in the intestinal epithelium [sorted cells RNA-seq]
Smarcad1 is one of the most conserved chromatin remodelling factors, from yeast to human, with sugge...
GSE120197: A 5' fragment of Xist can sequester the RNA of adjacent genes on chromatin
Xist requires Repeat-A, a protein binding module in its first two kilobases (2kb), to repress transc...
GSE130681: Distinct mesenchymal cell populations generate the essential intestinal BMP signaling gradient
The intestinal epithelium requires trophic factors and signaling gradients to maintain proper positi...
GSE138695: Gene expression analysis of astrocytes differentiated from iPS cells generated from the fibroblasts of PSEN1deltaE9 mutant AD and their isogenic control iPS lines
Mutations in presenilin 1 (PSEN1) cause a familiar form of Alzheimer's disease (AD). We have obtaine...
GSE118054: The RNA exosome contributes to gene expression regulation during stem cell differentiation [RNA-Seq 2]
Gene expression programs change during cellular transitions. It is well established that a network o...
GSE116284 (mouse): NF-B p65 dimerization and DNA-binding is important for inflammatory gene expression
Increasing evidence shows that many transcription factors execute important biologic functions indep...
GSE130883: Sex-Dependent Sensory Phenotypes and Related Transcriptomic Expression Profiles Are Differentially Affected by Angelman Syndrome
Angelman syndrome (AS) is a genetic disorder which entails autism, intellectual disability, lack of ...
GSE118110: Lung airways reprogram circulating memory CD8 T cells
To examine how the transcriptome of circulating memory CD8 T cells isolated from the spleen are repr...
GSE120723: TL1A is a central regulator of group 3 innate lymphoid cell function in colitis
Inflammatory bowel disease (IBD) results from a dysregulated interaction between the microbiota and ...
GSE138704: RNA-binding protein IGF2BP1 maintains leukemia stem cell properties by regulating HOXB4, MYB, and ALDH1A1.
IGF2BP1 promotes leukemia stem cell phenotype by regulating HOXB4, MYB and ALDH1A1. Inhibition of I...
GSE116260: Pre-marked chromatin and transcription factor co-binding shape the pioneering activity of Foxa2 [RNA-seq low input]
Pioneer transcription factors (PTF) can recognize their binding sites on nucleosomal DNA and trigger...
GSE138544: Reduced Expression of ARID3a in Human Hematopoietic Stem Cells Contributes to Age-Related Reduction in B Lineage Development
Aging results in altered gene expression patters in HSCs expressing ARID3A transcirpts, with a numbe...
GSE126826: Inducible histone K-to-M mutations are dynamic tools to probe the physiological role of site-specific histone methylation in vitro and in vivo [RNA]
Here, we developed mouse models expressing inducible lysine to methionine mutants of histone H3, whi...
GSE118660: PERK-dependent gene expression programs of the acute and chronic cellular response to ER stress
The UPR (Unfolded Protein Response) is a well-orchestrated response to ER protein folding and proces...
GSE118124: Co-chaperone Mzb1 is a key effector of Blimp1 in plasma cell differentiation and b1 integrin function
Plasma cell differentiation involves coordinated changes in gene expression and functional propertie...
GSE137757: Induction of an alternative 5' leader enhances translation of Inpp5e and resistance to oncolytic virus infection
Residual cell-intrinsic innate immunity in cancer cells hampers infection with oncolytic viruses. Co...
GSE116348: The effect of cellular context on miR-155 mediated gene regulation in four major immune cell types (RNA-Seq)
Numerous microRNAs and their target mRNAs are co-expressed across diverse cell types. However, it is...
GSE119340: Landscape of intercellular crosstalk in fatty liver disease revealed by single-cell secretome analysis
Cell-cell communications via ligand-receptor signaling are a fundamental feature of complex organs. ...
GSE119365: Iron and Heme Coordinate Erythropoiesis through HRI-Mediated Regulation of Protein Translation and Gene Expression
Iron and heme play central roles in red blood cell production. However, the mechanisms by which iron...
GSE128574: Chromatin state maintains human myeloid leukemia by regulating m6A demethylase ALKBH5 expression [RNA-Seq]
ALKBH5 is the RNA N(6)-methyladenosine (m6A) demethylase. To under sthand the function and mechnism ...
GSE117305 (mouse): N-Myc-mediated epigenetic reprogramming drives lineage plasticity in advanced prostate cancer [RNA-seq]
Despite recent advances in highly effective androgen receptor (AR)-directed therapies for the treatm...
GSE133683: RNA-seq performed on either wild-type, p53 null, or p21 null MMTV-Wnt1 mouse mammary tumors treated with or without doxorubicin.
The effects of doxorubicin on mammary tumors SOURCE: James,G,Jackson (jjacks8@tulane.edu) - James Ja...
GSE128770: Age Attenuates the Transcriptional Changes that Occur with Sleep in the Medial Prefrontal Cortex
Sleep abnormalities are common with aging. Studies show that sleep plays important roles in brain fu...
GSE128453: The female-biased factor VGLL3 drives cutaneous and systemic autoimmunity: RNA-seq analysis of the K5-Vgll3 transgenic mouse model of cutaneous and systemic lupus
RNA-seq analysis of nonlesional skin, whole blood, and cultured primary keratinocytes of wild-type a...
GSE128922: Digital gene expression of directed differenciation protocols
Lung and hindgut directed differentiations with multiple protocols and time points SOURCE: Carlos Vi...
GSE120761: Cyp2b-null male mice are susceptible to high-fat diet-induced obesity due to changes in responses to hepatic lipids as measured by RNAseq
To investigate the role of CYP2B in lipid metabolism, a Cyp2b triple knockout mouse lacking Cyp2b9, ...
GSE119505: Myocardial Differentiation is Dependent upon Endocardial Signalling During Early Cardiogenesis in vitro
The endocardium interacts with the myocardium to promote proliferation and morphogenesis during the ...
GSE128496: Expression profile of kidney from GNE M743T/M743T knock in mice and wild-type
Background. Mutations in GNE cause a recessive, adult onset myopathy characterized by slowly progres...
GSE117473: Tracing the transitions from pluripotency to germ cell fate with CRISPR screening
Early mammalian development entails a series of cell fate transitions that includes transit through ...
GSE128573: Differential gene expression in postnatal day 10 Scn1b+/+ vs. Scn1b -/- cortical layer VI
Scn1b null mice are a model of a severe developmental and epileptic encephalopathy called Dravet Syn...
GSE132197: LSD1 regulates the marginal zone B cell transcriptome
To understand the role of LSD1 in splenic B cell development, spleens from mice with B cell conditio...
GSE118194: MOF directs erythroid fate during hematopoiesis via RUNX1-GFI1b feedforward control (scRNA-Seq)
The balance between self-renewal and differentiation of hematopoietic stem cells (HSCs) is orchestra...
GSE130679: Tumor endothelial up-regulation of IDO1 limits the response to CD40-stimulating immunotherapy
CD40-stimulating immunotherapy elicits potent anti-tumor responses, which are mainly T-cell dependen...
GSE127722: Amelioration of Brain Histone Methylopathies by Balancing a Writer-Eraser Duo KMT2A-KDM5C [RNA-seq]
We describe a methyl histone writer-eraser double-mutant animal that corrects phenotypes of single-m...
GSE130515: Context-Specific Transcription Factor Functions Regulate Epigenomic and Transcriptional Dynamics During Cardiac Reprogramming [RNA-Seq]
To determine the molecular mechanisms by which expression of Gata4, Mef2c, and Tbx5 (GMT) induces di...
GSE132214: The majority of A-to-I RNA editing is not required for mammalian homeostasis
RNAseq of Adult Brain in ADAR1 E861A, ADAR2 knock out, ADAR1 E861A x ADAR2 knock out het, and ADAR1...
GSE118942: Separation of breast cancer and organ microenvironment transcriptomes in metastases
The seed-and-soil hypothesis was described over a century ago to describe why cancer cells (seeds) g...
GSE133745: Differential Nucleosome Spacing in Neurons and Glia [RNA-seq]
Eukaryotic chromosomes are composed of chromatin, in which regularly spaced nucleosomes containing ~...
GSE126801: TDP-43 aggregation induced by oxidative stress causes global mitochondrial imbalance in ALS
When mutant superoxide dismutase 1 (SOD1) was first linked to amyotrophic lateral sclerosis (ALS), i...
GSE130713: Distinct modes of mitochondrial metabolism uncouple T cell differentiation and function
RNA-sequencing results for cells expressing sgRNA targetting Slc25a1, Slc25a11, or an empty vector c...
GSE122026: Dermal Condensate Niche Fate Specification Occurs Prior to Formation and Is Placode Progenitor Dependent
Cell fate transitions are essential for specification of stem cells and their niches, but the precis...
GSE122840: Gene expression analysis of mouse BNST and blood cells after chronic social defeat stress (CSDS)
Chronic psychosocial stress is a risk factor for psychiatric disorders, and genetic factors interact...
GSE131171: Caspase-8 promotes c-Rel-dependent inflammatory cytokine expression and resistance against Toxoplasma gondii
Caspase-8 is a critical regulator of apoptosis, programmed necrosis, and inflammatory gene expressio...
GSE128523: Azithromycin induces epidermal differentiation and multivesicular bodies in airway epithelia
Azm affects the integrity of the bronchial epithelial barrier. To better understand these unexpected...
GSE121640: The KRAB zinc finger protein SNERV represses proviral endogenous retroviruses and underlies the Sgp3 and Gv1 loci
Transcriptional silencing of endogenous retroviruses (ERV) defends against active retrotransposition...
GSE119132: Expression changes in early postnatal mouse sciatic nerve after Schwann cell-specific deletion of the Ep400 chromatin remodeler
To address the role of INO80/SWR-type remodeling complexes, we deleted Ep400 in developing Schwann c...
GSE127735: Adaptive plasticity of IL10 + and IL35 + regulatory T cells
Regulatory T cells (T regs) maintain host self-tolerance but are a major barrier to effective cancer...
GSE118851: In vivo imaging and deep learning tools expose two distinct E2F cell cycle transcriptional relays (in preparation)
Purpose: We used next-generation sequencing (NGS) to identify genes which oscillate during cell cycl...
GSE130246: RNA-seq control (sgNT) and TLE3KO (sgTLE3) cells treated with 10 uM enzalutamide or vehicle
To investigate the transcriptional consequences of TLE3 loss in the presence/absence of AR inhibitor...
GSE120278: The Transcriptional Regulator SnoN Promotes the Proliferation of Cerebellar Granule Neuron Precursors in the Postnatal Mouse Brain
Control of neuronal precursor cell proliferation is essential for normal brain development, and dere...
GSE128506: RB constrains lineage fidelity and multiple stages of tumour progression and metastasis
RNA-Sequencing analysis of murine lung adenocarcinoma cell lines in the presence and absence of Rb. ...
GSE127180: Ectonucleotidase CD39 is highly expressed on ATLL cells and is responsible for their immunosuppressive function.
Adult T-cell leukemia/lymphoma (ATLL) patients are in severely poor prognosis partially because of t...
GSE127719: Gene expression changes in GADD45 deficient 2-cell mouse embryos
To study the role of GADD45 proteins in early mouse development, RNA-seq expression profiling was pe...
GSE124324: Epithelial Vegfa specifies a distinct endothelial population in the mouse lung [bulk RNA-seq]
The lung microvasculature is essential for gas exchange and commonly considered homogeneous. We sho...
GSE125568: 3Pool-seq: an optimized cost-efficient and scalable method of whole-transcriptome gene expression profiling (Run0050)
The advent of Next Generation Sequencing has allowed transcriptomes to be profiled with unprecedente...
GSE122785: Unveil the transcriptional landscape at the Cryptococcus-host axis in mice and nonhuman primates
Pathogens and hosts require rapid modulation of virulence and defense mechanisms at the infection ax...
GSE130876: Transcriptome analysis of HEK 293 cells after treatment with Quinolinol B23
This work describes the alteration in the expression of genes in response to quinolinol treatment, w...
GSE120514: Caveolin-1 modulates mechanotransduction responses to substrate stiffness through actin-dependent control of YAP
The transcriptional regulator YAP orchestrates important cell functions, determining tissue homeosta...
GSE121654: Complex cell-state changes revealed by single cell RNA sequencing of 76,149 microglia throughout the mouse lifespan and in the injured brain
Single cell RNA sequencing of FACS purified mouse microglia from embryogenesis to old age, and follo...