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Sequencing-based assays (Page 52)
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GSE87266: Conservation and innovation in the DUX4-family gene network (RNA-seq)
Facioscapulohumeral dystrophy (FSHD; OMIM #158900, #158901) is caused by mis-expression of the DUX4 ...
GSE85874: Quantitative Analysis of hippocampal transcriptomes form wild-type, control and Kdm5c mutant mice (KO and ifKO) through Next Generation Sequencing (RNA-Seq)
RNA preparation for sequencing was performed as described in (Fiorenza et al., 2016). Hippocampi der...
GSE95720: Individual retrotransposon integrants are differentially controlled by KZFP/KAP1-dependent histone methylation, DNA methylation and TET-mediated hydroxymethylation in nave embryonic stem cells
The KZFP/KAP1 (KRAB zinc finger proteins/KRAB-associated protein 1) system plays a central role in t...
GSE100542: Transcriptomic changes in EpCAM+ liver ductal cells cultured in organoid conditions
RNA profile of EpCAM+ sorted cells freshly isolated from healthy liver of adult mice was performed ...
GSE132759: The contribution of FGFR1 to the development of SCLC is dictated by the cell-of-origin
Enhanced RAF/MEK/ERK signaling plays an obligatory role in many different types of cancer. Although ...
GSE104759: RNA-sequencing of human mammary epithelial cells (HMLEs) transduced in vitro with a shRNA against SOX4 or a scrambled shRNA in untreated and TGF--treated (16 hours) conditions
In order to identify SOX4- and TGF-beta dependent genes, human mammary epithelial cells (HMLEs) were...
GSE86144: LKB1 loss links the serine metabolic network to DNA methylation and tumourigenesis [RNA-seq]
Intermediary metabolism generates substrates for covalent modification of chromatin, enabling potent...
GSE97829: RNA-Seq analysis of human lung fibroblasts exposed to TGF-
To assess the transcriptomic response of human lung fibroblast to TGF-, human MRC5 pulmonary fibrobl...
GSE96644: Every-other-day feeding extends lifespan but fails to prevent many symptoms of aging in mice
Dietary restriction is a well-known model to induce longevity across a variety of model organisms ra...
GSE95441: mRNA recovered upon RNF219 IP. [RNA-IP]
Purpose : to decipher the role a newly identified protein, RNF219, we performed a pull down of this ...
GSE90533: An HDAC3-PROX1 Corepressor Module Acts on HNF4 to Control Hepatic Triglycerides
The histone deacetylase HDAC3 is a critical mediator of hepatic lipid metabolism, and liver-specific...
GSE114997: Single-cell RNA-seq of spiral ganglion neurons from wildtype and Vglut3-/- mice
Molecular heterogeneity among spiral ganglion neurons (SGNs) in the mouse cochlea was investigated i...
GSE97875: Age-dependent comparison of transcriptional signature of lamina propria anti-inflammatory macrophages of Il10rb-/- (KO) and Il10rb+/- (het) mice
We report that colonic lamina propria anti-inflammatory macrophages from Il10rb-/- (KO) mice at 12 w...
GSE97901: Next Generation Sequencing Facilitates Differential Expression Analysis of miRNA Expression In the Whole Blood Samples Obtained From Prostate Cancer Patients vs. Controls
Research conducted using the novel approach of Next Generation Sequencing to determine the different...
GSE117405: RNA-seq and flow-cytometry of conventional, scalp, and palmoplantar psoriasis reveal shared and distinct molecular pathways
It has long been recognized that anatomic location is an important feature for defining distinct sub...
GSE98666: RNA-Seq Reveals Age- and Species Differences of CAR-targeted Drug-Processing Genes in Liver
Purpose: Next-generation sequencing (NGS) has been utilized for systems-based analysis of all liver ...
GSE83963: Telomere Length Protects Mice from Human Disease Phenotype Caused By Notch1 Haploinsufficiency
Diseases caused by gene haploinsufficiency in humans commonly lack a phenotype in mice heterozygous ...
GSE98664: Single-cell full-length total RNA sequencing uncovers dynamics of recursive splicing and enhancer RNAs
We report a novel single-cell total RNA-seq method, RamDA-seq, by combining a novel reverse transcri...
GSE110564: Mycobacterium tuberculosis cording in lymphatic endothelial cells (hLEC)
Mycobacterium tuberculosis (Mtb) displayed cording phenotypes during intracellular infection. RNA-Se...
GSE106507: Differential Wnt-mediated Programming and Arrhythmogenesis in Right versus Left Ventricles [wntlof]
Several inherited arrhythmias primarily affect the right ventricle, including Brugada syndrome and a...
GSE147989: Single cell sequencing data of CD34+ AML stem/progenitor cells derived from AML patients before and after cusatuzumab treatment
Purpose: The goal of this study was compare the transcriptional profile of CD34+ AML stem/progenitor...
GSE90787: Differential expression of Hdc-GFP+/hi HSC VS Hdc-GFP-/lo hematopoetic stem cells (HSCs) from bone marrow.
Bone marrow Hdc-GFPhi and Hdc-GFPlo HSPC (SLAM-LSK, Lin-c-kit+Sca-1+CD150+CD48-) HSCs were isolated...
GSE110248: Gene expression profiling of cutaneous T cell lymphoma cell lines and primary tumor samples treated with mechlorethamine and romidepsin.
In this study, we demonstrated the synergistic effect of the mechlorethamine-romidepsin combination ...
GSE87119: The evolutionary capacitor HSP90 buffers the regulatory effects of mammalian endogenous retroviruses.
The molecular chaperone heat shock protein 90 (HSP90) is thought to buffer genetic variation uncoupl...
GSE136884: The impact of stanniocalcin 1 on the transcriptome of human cord blood stem/progenitors
Purpose: Stanniocalcin 1 (STC1) is a secreted glycoprotein expressed in mesenchymal stroma cells (MS...
GSE92605: Allelic genome-wide maps of open chromatin state in zygotes and early embryo
Mammalian sperm and oocytes have different epigenetic landscapes and are organized in different fash...
GSE120378: STX4 Over-Expression in Human islets
We have used RNA-seq to identify transcripts expressed in human islets harboring beta cells transduc...
GSE98124: Direct Induction of the Three Pre-Implantation Blastocyst Cell Types from Fibroblasts
ATAC-seq, RNA-seq and ChIP-seq in induced TSC and PSC 72 hours past Doxycyclin induction SOURCE: Tom...
GSE113924: RNA-Seq Analysis of Spinal Cord Tissues from hPFN1G118V Transgenic Mouse Model of ALS at Presymptomatic and End Stages of Disease
Amyotrophic Lateral Sclerosis (ALS) is a fatal neurodegenerative disease that leads to the loss of m...
GSE97460: PLATE-Seq for Genome-Wide Regulatory Network Analysis of High-Throughput Screens
Pharmacological and functional genomic screens play an essential role in the discovery and character...
GSE97358: Integrated target discovery screens identify IL11 as novel therapeutic target for fibrosis [168 human cardiac fibroblasts]
Cardiac fibrosis is the final common pathology in heart disease. Here we establish an integrated ima...
GSE81810: Next Generation Sequencing Facilitates Quantitative Analysis of HIV-1 Latency in Central Memory T Cells
Purpose: Next-generation sequencing (NGS) has become a powerful microscope to study cell models of H...
GSE109991: Slfn2 Regulates Type I Interferon Responses by Modulating the NFB Pathway
We demonstrate that Slfn2 interacts with protein phosphatase 6 regulatory subunit 1 (PPP6R1), leadin...
GSE95602: HSF1-dependent and -independent regulation of the mammalian in vivo heat shock response and its impairment in Huntingtons disease
The heat shock response (HSR) is a mechanism to cope with proteotoxic stress by inducing the express...
GSE94974: Differential gene expression in IDH1-R132H Tumor Neurospheres generated from a mouse model of Low Grade Glioma
IDH1-R132H is expressed in Low Grade Glioma (LGG) in combination with mutation in ATRX and TP53 gene...
GSE97367 (human): BioProject PRJNA381064: Convergent origination of a Drosophila-like dosage compensation mechanism in a reptile lineage
In order to study the green anole dosage compensation mechanism we generated strand-specific RNA-seq...
GSE88927: Modeling signaling-dependent pluripotent cell states with boolean logic can predict cell fate transitions [II]
Pluripotent stem cells (PSCs) exist in multiple stable states, each with specific cellular propertie...
GSE99530: Promoter bivalency favors an open architecture of the stem cell genome
In embryonic stem cells (ESCs), bivalency characterizes the chromatin state of developmental gene pr...
GSE89806: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and L2hgdh-/- mice brain Transcriptomes
We report the transcriptional difference of L2hgdh gene knock out mice brain with wild type control ...
GSE98894: Expression profile of Gastro-Entero-Pancreatic Neuroendocrine Tumors (GEP-NET)
Expression profile of human GEP-NET tumors, including 113 fresh frozen biopsies of primary and metas...
GSE89560: Inhibition of MEK and ATR induces synergistic killing of a Mll-Af4 B-ALL model harboring activated Ras mutation
Infant B-acute lymphoblastic leukemias (B-ALL) that harbor MLL-AF4 rearrangements are associated wit...
GSE97239: High-throughput RNA sequencing on circular RNA profiles of human bladder cancer tissues and normal bladder tissues
In order to find out circular RNAs profiles in human bladder cancer tissues and normal bladder tissu...
GSE86573: Macrophage ontogeny underlies differences in tumor-specific education in brain malignancies
Recent efforts have uncovered immense transcriptional and ontogenetic diversity among tissue-residen...
GSE105042: The influence of CCL5 to the exprssion profile of tumor associated macrophages (TAMs)
The aim of the dataset was to demonstrate that the gene expression profile of CD11bhiF4/80low TAMs a...
GSE96741: Gene expression analysis of IL-17 producing T cells from human spleen
IL-17 is a key cytokine important for defense against infection and plays a critical role in inflamm...
GSE98797: Chronophin regulates metabolic and transcriptomic features of glioblastoma stem-like cells
High throughput sequencing of poly-A RNA SOURCE: Markus Schulze (markus.schulze@ukr.de) - Markus Rie...
GSE95411: Genomic characterization of murine monocytes reveals C/EBPb dependence of Ly6C-cells [RNA sequence]
We show that monocyte development is accompanied by stepwise RNA expression changes and that Ly6C+ m...
GSE97321: Ultraconserved Enhancers Are Required for Normal Development [RNA-seq]
Analysis of the transcriptional changes in the forebrain resulting from the loss of ultraconserved e...
GSE97538: RNAseq data from FACS-sorted microglia from mouse brain from control mice (uninjected) or LPS-injected mice in the context of A20 knockout
Using RNAseq, we compared the mRNA profiles of microglia in wild type or microglia-specific A20 knoc...
GSE94661: Smooth muscle cell-specific deletion of Col15a1 unexpectedly leads to impaired development of advanced atherosclerotic lesions
Atherosclerotic plaque rupture with subsequent embolic events is a major cause of sudden death from ...
GSE97126: Constitutive Activation of HH-GLI Signaling in the Metanephric Mesenchyme causes Ureteropelvic Junction Obstruction during Mammalian Embryogenesis
This study explores the underlying pathogenic mechanisms of congenital intrinsic obstruction of the ...
GSE88841: Aid is a key regulator of myeloid/erythroid differentiation and DNA methylation in murine hematopoietic stem/progenitor cells (RNA-Seq)
Recent studies have uncovered that activation-induced cytidine deaminase (AID) and ten-eleven-transl...
GSE97672: Human monocyte-derived macrophage (MDM) cell transcriptome response to infection with H1N1, H3N2, and H5N1 influenza virus.
Human monocyte-derived macrophages (MDM) serve as a model for resident alveolar macrophages (AM) in ...
GSE98672: Chemerin inhibits cancer progression by impairing the maturation of neovessels
Chemerin is a leukocyte chemoattractant and an adipokine. Overexpression of chemerin by tumor cells ...
GSE94662: The RNA-binding protein ROD1/PTBP3 cotranscriptionally defines AID-loading sites to mediate antibody class switch in mammalian genomes
Activation-induced cytidine deaminase (AID) mediates class switching by binding to a small fraction ...
GSE102332: Aldosterone-Sensing Neurons in the NTS Exhibit State-Dependent Pacemaker Activity and Drive Sodium Appetite via Synergy with Angiotensin II Signaling.
Single cell sequencing of Hsd11b2-expressing neurons in the NTS from mice fed standard chow or low s...
GSE99233: Differential requirements of androgen receptor in luminal progenitors during prostate regeneration and tumor initiation (APCA and ADCA lines RNASeq)
Analysis of transcriptome from AR-deleted CARN-derived lines (ADCA) and controls, AR-positive CARN-d...
GSE97618: Opposing roles of Toll-like receptor and cytosolic DNA-STING signaling pathways for Staphylococcus aureus cutaneous host defense
Successful host defense against pathogens requires innate immune recognition of the correct pathogen...
GSE112855: Next generation sequencing profiling experimental circulating tumor cells-derived metastatic variants [RNA-seq]
Hematogenous metastasis is initiated by a subset of circulating tumor cells (CTCs) shed from primary...
GSE95105: Transcriptional profile of brain TRM in Toxoplasma gondii infection
During chronic infection memory T cells acquire a unique phenotype and become dependent on different...
GSE102352: Sequential expression profile of cortical neuron differentiation from human induced pluripotent stem cells (iPSCs) by RNA-Seq
We aim to profile the dynamic changes of gene expression dynamics during cortical neuron differentia...
GSE98960: Epigenetic restriction of embryonic and extraembryonic lineages mirrors the somatic transition to cancer (Perturbation-RNAseq)
Concerted efforts over past decades have established a thorough understanding of the canonical somat...
GSE87293: Molecular architecture underlying fluid absorption by the developing inner ear
Single-cell RNA-seq analysis of pre- and postnatal mouse endolymphatic sac demonstrates two types of...
GSE131565: RNA-Seq analysis of primary human keratinocytes exposed to Cannabidiol
RNA-Seq analysis of primary human keratinocytes exposed to Cannabidiol SOURCE: Eduardo Muñoz (fi1mub...
GSE96049: Modeling the mutational and phenotypic landscapes of Pelizaeus-Merzbacher Disease using human iPSC-derived oligodendrocytes
Pelizaeus-Merzbacher disease (PMD) is a pediatric disease of myelin in the central nervous system an...
GSE97696: Chemical Inhibition of Ezh2 Enhances Ex Vivo B cell Differentiation
To understand the role of Ezh2 in B cell differentiation B cells were stimulated ex vivo with LPS, I...
GSE83498: Profiling the transcriptome of murine radial glial and astrocyte precursor cells
The goal of this study is to evaluate transcriptome profiles that accompany mouse radial glial cells...
GSE97616: Human normal oral keratinocytes (NOK) siRNA and Human epidermal keratinocytes (HEK) overexpression RNA-Seq
Transcriptome of si-RNA transfected NOK cells and adenovirus-transduced HEK cells SOURCE: Maria,Ire...
GSE109997: LXR Suppresses Inflammatory Gene Expression and Neutrophil Migration through cis-Repression and Cholesterol Efflux
The activation of Liver X Receptor (LXR) promotes cholesterol efflux and repression of inflammatory ...
GSE98901: Analysis of age-associated transcriptome changes in uterus and decidua
We use RNA-sequencing to measure global transcription in uteri of young and aged (~1yr old) C57BL/6 ...
GSE102467: High-Throughput Drug Screening identifies Pazopanib and Clofilium tosylate as effective treatments for malignant rhabdoid tumors
mRNA expression in two different cell lines (DEV and G401) and two conditions (CLOFILIUM and DMSO) w...
GSE84665: Female mice lacking Xist RNA show partial dosage compensation and survive to term
X chromosome inactivation (XCI) compensates for differences in X-chromosome number between male and ...
GSE101794: Age-of-Onset Dependent Immune maturation in Pediatric Crohn Disease
Purpose: To clarify the biological processes underlying variation in disease location and antimicro...
GSE85205: Expansion of an FCRL5+ B cell subset resembling atypical memory B cells in an animal model of malaria
Background: In human malaria, parasites of the genus Plasmodium elicit expansion of atypical memory ...
GSE97619: Differentiation of Inflammation-responsive Astrocytes from Glial Progenitors Generated from Human Induced Pluripotent Stem Cells
The goals of this study are to generate inflammation-sensitive astrocytes from human induced pluripo...
GSE96800: Transcription and chromatin profiling in differentiating THP-1 monocytes and THP-1 derived macrophages
Here we profile nascent transcription, RNA polymerase III occupancy, chromatin accessibility, and H3...
GSE102334: RNA-Sequencing of EC and PVC from aged APOE mice
RNA-Sequencing of entorhinal cortex and primary visual cortex from 14-15 month old APOE3/4 vs. APOE3...
GSE85646: Neonatal cardiac dysfunction and transcriptome changes caused by the absence of Celf1
The RNA binding protein Celf1 regulates alternative splicing in the nucleus and mRNA stability and t...
GSE97727: HIV-1 perturbs homeostatic ILCs, unmasks ILC1 plasticity, and boosts TCF7+ memory NK cells
Bulk RNA-seq, and single cell RNA-Seq using inDrops methodology, were used to compare two population...
GSE98029: Ribosomal protein S6 phospho-deficient mice display altered novelty-induced locomotion, synaptic plasticity, and specific mRNA translation
By high-throughput RNA-seq of heavy polysomal fractions, we report that rpS6 knockin mice, in which ...
GSE88700: High activity of a broad panel of housekeeping and tissue-specific cis-regulatory elements depends on a subset of ETS proteins
The genomic repertoire of enhancers and promoters that control the transcriptional output of termina...
GSE97153: Transcriptome of Trophoblast Stem Cells
Three kinds of TSCs with different genotype of mouse Tet2 including Tet2+/-, Tet2-/-and wild-type TS...
GSE93948: Chaperone dependent coordination of nutrient sensing and energy metabolism by mTORC2
mTORC2 senses nutrients and coordinates substrate metabolism and macromolecule synthesis program wit...
GSE102788: Adult parotid gland RNA-seq libraries, and embryonic submandibular gland RNA-seq libraries
Adult parotid gland RNA-seq libraries and embryonic submandibular gland RNA-seq libraries were creat...
GSE95640: Transcriptome profiling from adipose tissue during low-caloric diet reveals predictors of long-term weight and glycemic outcomes in obese, non-diabetic subjects
Background: Low-caloric diet (LCD) reduces fat mass excess, improves insulin sensitivity, and alters...
GSE98356: Role of DNA methylation in the dietary restriction mediated cellular memory
Dietary restriction (DR) appears to create a cellular memory, which persists even after DR is discon...
GSE96075: Zoledronic acid inhibits NFAT and IL-2 signaling pathways in regulatory T cells and diminishes their suppressive function in patients with metastatic cancer
In order to identify the processes altered in T regulatory cells (Treg) by Zoledronic acid (ZA), we ...
GSE97904: Functional astrocytes differentiated from hiPSCs
Growing evidence implicates the importance of glia, particularly astrocytes, in neurological and psy...
GSE101788: Global transcriptional changes associated with AI-10-49 in inv(16) leukemic cells [RNA-seq]
We recently reported the discovery of a small molecule inhibitor, AI-10-49 which can specially inhib...
GSE98431: mRNA Sequencing of Human PromoCells Using 3'-directed Digital Gene Expression (3'-DGE) Technique
The differential gene expression of human cardiomyocytes induced by kinase inhibitors sorafenib and ...
GSE137456: A non-pharmacological approach in the gut triggers distal metabolic rewiring capable of ameliorating diet-induced metabolic dysfunction
Here we show that Libramed has remarkable, beneficial effects on daily metabolism of an animal model...
GSE85642: Sox17 drives functional engraftment of endothelium converted from nonvascular cells
Transplanting vascular endothelial cells (ECs) to support metabolism and express regenerative paracr...
GSE125856: UCP1-expression associated gene signatures of human epicardial adipose tissue.
The primary objective of the study was to investigate the uncoupling protein-1 (UCP1) associated fea...
GSE99065: Simultaneous detection and relative quantification of coding and non-coding RNA using a single sequencing reaction
The ability to compare the abundance of one RNA molecule to another is a crucial step for understand...
GSE87367: Comparison of DEG between neonatal male and female mice age of P25 by CHD8 Asn2373LysfsX2 heterozygote mutation.
CHD8, encoding a chromatin remodeling protein, is one of the most frequently mutated genes in autism...
GSE108140: Identification of Differentially Expressed Splice Variants by the Proteogenomic Pipeline Splicify
Proteogenomics, i.e. comprehensive integration of genomics and proteomics data, is a powerful approa...
GSE135257: ChIP-seq of p63 and RNA-seq of knockdown and overexpression of p63
We performed ChIP-seq of p63 in ME-180 cell line and RNA-seq of knockdown and overexpression of p63 ...
GSE87872: Gene resistance to transcriptional reprogramming following nuclear transfer is directly mediated by multiple chromatin repressive pathways
Understanding the mechanism of resistance of certain genes to reactivation will help improving the s...
GSE87795: Single-cell transcriptome analysis of mouse fetal livers from different developmental stages
We employed marker-free single-cell RNA-Seq to characterize comprehensive transcriptional profiles o...
GSE99144: Systems-guided forward genetic screen reveals critical role of the replication stress response protein ETAA1 in T cell clonal expansion
We have examined the role of the replication stress protein Etaa1 in mouse effector T cell expansio...