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Sequencing-based assays page 100
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GSE139475: Clonal tracing reveals the contribution of both cancer-intrinsic and -extrinsic mechanisms to the heterogeneity of responses to immune checkpoint blockade [RNA-seq_ICB]
Although multiple studies have investigated the biomarkers of response to immune checkpoint blockade...
GSE149054: Knockout LYCAT modulates altered gene expression profile in H2122 cells
We present the set of gene expression in in H2122 cells with transfection of control shRNA vs H2122 ...
GSE141248: RNAseq Analysis for pBABE versus caMNK D4m.3a Melanoma cells
We want to investigate the transcriptional differences between pBABE D4m.3a melanoma cells (cancer c...
GSE138909: Transcriptional profiling of nave and in vitro activated B cells from WT and DOT1L KO mice
We studied the role of the histone methyltransferase DOT1L in B cell development and differentiation...
GSE140984: The role of the Calcium-Sensing receptor in colorectal cancer
The Calcium-Sensing receptor (CaSR) is a G proteins-coupled receptor involved in calcium homeostasis...
GSE143808: Knockout of the Caspase 8 Associated Protein 2 (CASP8AP2) gene in HEK293 cells leads to improvement in recombinant protein expression and cell cycle arrest at the G0/G1 phase
In this study, we focused on understanding the effect of the functional inactivation of the caspase ...
GSE131058: Overlapping roles and requirement of histone deacetylase 1 and 2 in lineage development and genome-wide DNA methylation during mouse preimplantation development
Epigenetic modifications, including DNA methylation and histone modifications, are reprogrammed cons...
GSE145271: Global Gene expression changes in cholangiocytes with TGF beta treatment
Growth factor, TGF beta can have profound effect on global gene expression changes. Since TGF beta s...
GSE128195: Stem cell-associated heterogeneity in Glioblastoma results from intrinsic tumor plasticity shaped by the microenvironment
Cancer stem cells (CSCs) have been proposed to underlie the hierarchical organization of Glioblastom...
GSE138931: RNA-seq analysis of WT and NCOR1f/f,Cd4Cre naive CD4+ T cells
The differentiation of nave CD4+ T cells into T helper (Th) subsets is key for a functional immune r...
GSE131078: Transcriptomic analysis of bone and fibrous tissue morphogenesis during digit tip regeneration in the adult mouse
Purpose: Investigate the transcriptomic landscape throughout the time course of murine digit regener...
GSE152177: RNA-Seq and ATAC-Seq of HEK239 cell line carrying different genotypes at rs4420550 by CRISPR/Cas9 editing
Genome-wide association studies (GWAS) have reported hundreds of genomic loci associated with schizo...
GSE133531: Single-cell atlas of the developing brain to investigate the cellular origins of pediatric brain tumors
Gene expression is finely regulated during development, and deregulation can lead to disease. In ped...
GSE139482: A specific prelimbic-nucleus accumbens pathway controls resilience versus vulnerability to develop food addiction.
The aim of this study was to analyse the whole transcriptome profile of medial prefrontal cortex of ...
GSE151392: Genome-wide estrogen receptor- binding and action in human endometrial stromal cells [RNA-Seq]
Endometrial estrogen receptor- (ESR1) is indispensable for epithelial and stromal proliferation and ...
GSE139221: Modeling of aniridia-related keratopathy by CRISPR/Cas9 genome editing of human limbal epithelial cells and rescue by recombinant PAX6 protein
Heterozygous PAX6 gene mutations leading to haploinsufficiency are the main cause of congenital anir...
GSE141431: bulk RNA-seq of wild-type, Gli2f/f;Gli3f/f;Wnt1-Cre, and Hand2f/f;Wnt1-Cre mouse e10.5 dissection mandibular prominences
bulk RNA-seq of wild-type, Gli2f/f;Gli3f/f;Wnt1-Cre, and Hand2f/f;Wnt1-Cre mouse e10.5 dissection ma...
GSE130995: Sclerostin Antibody Does Not Promote Atheroprogression, Plaque Mineralization, or Inflammation in Ovariectomized Apolipoprotein EDeficient Mice
ObjectiveOverexpression or administration of sclerostin has been reported to have atheroprotective a...
GSE131941: Myc is required for adaptive beta cell replication in young mice but is not sufficient in one year old mice fed with a high fat
Purpose: To test the role of Myc in adaptive expansion of beta cells; Methods: Islets were isolated ...
GSE138048: Genome-wide transcriptome profiling of primary human uterine leiomyoma cell populations
Uterine leiomyomas (LM) affect up to 80% of all reproductive-age women. LM growth requires progester...
GSE139192: Human iPSC-derived microglia assume a primary microglia-like state after transplantation into the neonatal mouse brain [Bulk RNAseq]
iPSC derived microglial precursors were transplanted into the brains of neonatal mice, FACS sorted o...
GSE138012: Nave human pluripotency stem cells respond to Wnt, Nodal and LIF signalling to produce expandable nave extra-embryonic endoderm
Embryonic stem cells (ESCs) can exist in at least two states that transcriptionally resemble differe...
GSE131533: RNA-seq of ATF7ip-deficient T cells
RNA-seq performed in ATF7ip-deficient T cells reveals a defect in Th17 gene induction secondary to i...
GSE146154: Transcriptomic analysis of DMSO treatment on mouse embryonic fibroblasts (MEFs) during cardiac transdifferentiation
Cardiac transdifferentiation represents an attractive way of reversing heart damage caused by myocar...
GSE143872: A conserved kinase-based body temperature sensor globally controls alternative splicing and gene expression
Homoeothermic organisms maintain their core body temperature in a narrow, tightly controlled range. ...
GSE152244: Gene expression changes in NRASG12D, NUP98-NSD1 and NUP98-NSD1+NRASG12D transformed mouse bone marrow cells (in vitro).
NUP98-NSD1 positive Acute myeloid leukemia (AML) frequently occurs within the pediatric karyotypic n...
GSE138010: Fosl1 regulates mesenchymal GBM plasticity
Despite recent advances in genomic profiling techniques, the precise mechanisms controlling GBM subt...
GSE139593: Cell Specific Transcriptional Responses to Heat Shock in the Mouse Utricle Epithelium
To determine the transcriptional responses to heat shock of inner ear sensory hair cells and support...
GSE139181: Transcriptomics analysis of trimester-specific full-term placentas from three Zika virus-infected women
Effects of Zika virus (ZIKV) infection on placental development during pregnancy are unclear. In thi...
GSE140164: USP22 functions as an oncogenic driver in prostate cancer by regulating cell proliferation and DNA repair
The deubiquitinase USP22 is a member of the SAGA transcriptional activation complex. This study used...
GSE139592: ABCA7 haplodeficiency disrupts microglial inflammatory responses and membrane trafficking
Carrying premature termination codons in one allele of the ABCA7 gene is associated with an increase...
GSE132814: Helicase-like transcription factor (Hltf) gene-deletion promotes oxidative phosphorylation (OXPHOS) in colorectal tumors of AOM/DSS-treated mice
The helicase-like transcription factor (HLTF) gene a tumor suppressor in human colorectal cancer (C...
GSE138952: Transcriptional analyses of RPMax-/- versus RPMaxWT preSCs
We analyze transcritpional changes upon Max deletion using CRISPR Cas9 SOURCE: Arnaud,A,Augert (aaug...
GSE128380: Transcriptome data of temporal and cingulate cortex in the Rett syndrome brain
Rett syndrome is an X-linked neurodevelopmental disorder caused by mutation in the methyl-CpG-bindin...
GSE144160: Remodeling of Zn2+ Homeostasis Upon Differentiation of Mammary Epithelial Cells
Using mouse mammary epithelial cells as a model system, we investigated the remodeling of zinc homeo...
GSE132140: TGF signaling in retinal tissue repair [Mus Musculus]
In mammals, retinal damage is followed by Mller glia cell activation and proliferation. While retina...
GSE139603: Human endothelial cells stimulated with dengue virus non-structural protein 1
we report the changes in the transcriptome of human umbilical vein endothelial cells (HUVECS) after ...
GSE139613: Post-translational regulation of the exon skipping machinery controls aberrant splicing in T cell leukemia [Patients I]
In this study, we show that pediatric T-cell acute lymphoblastic leukemia (T-ALL) has an alternative...
GSE138938: -catenin regulates FOXP2 transcriptional activity via multiple binding sites
We observed different gene expression by overexpressing the transcription factor FOXP2 in U2OS cells...
GSE144131: RNA-seq on DMSO and EPZ6438 treated CD34+ HSPCs
The overall goal is to understand how does the DNA methylation Canyon interactions in CD34+ HSPCs ca...
GSE140202: Identification and validation of potential key long noncoding RNAs in sorafenib-resistant hepatocellular carcinoma cells
We report the application of single-molecule-based sequencing technology for high-throughput profili...
GSE138946: LPI's role in the progression of Non-alcoholic Fatty Liver Disease (NAFLD) and Non-Alcoholic Steatohepatitis (NASH)
Recent studies have identified a genetic variant rs641738 near two genes encoding membrane bound O-a...
GSE131181: A Cellular Atlas of Pitx2-Dependent Cardiac Development
The Pitx2 gene encodes a homeobox transcription factor that is required for mammalian development. D...
GSE134660: The Dynamics of Cytoplasmic mRNA Metabolism
For all but a few mRNAs, the dynamics of metabolism are unknown. Here, we developed an experimental ...
GSE138981: Analysis of NSL knockout brains
In the current study, we analyse the function of MOF-NSL complex in neural cells. We find that the N...
GSE141218: RGS2-mediated translational control drives cellular dormancy and resistance to ER-stress-induced apoptosis by inducing proteasome-mediated ATF4 degradation
Slow-cycling/dormant cancer cells (SCCs) are thought to cause cancer relapse, but the underlying bio...
GSE96726: mitoCPR - a surveillance pathway that protects mitochondria in response to mitochondrial import stress [human]
Mitochondrial functions are essential for cell viability and rely on protein import into the organel...
GSE132796: Plasmodium yoelii Erythrocyte Binding-like Protein Modulates Host Cell Membrane Structure, Immunity, and Disease Severity
Erythrocyte binding-like (EBL) proteins are known to play an important role in malaria parasite inva...
GSE139231: IL-33 signaling alters regulatory T cell diversity in support of tumor development [2014]
Regulatory T cells (Tregs) can impair anti-tumor immune responses and are associated with poor progn...
GSE148458: Structural basis for substrate recognition and chemical inhibition of oncogenic MAGE ubiquitin ligases
Testis-restricted melanoma antigen (MAGE) proteins are frequently hijacked in cancer and play a crit...
GSE139583: RNA sequencing results of dipyridamole treatment in SLC29A2-expressing SK-hep1 cells
We observed an increasing trend of nuclear SLC29A2 expression associated with high histological de-d...
GSE140422: Gene expression profiling of Th17, Th1*, Treg cells in the spinal cord of EAE mice , and Th17, Treg cells in the SILP of SFB colonized mice
The goal of the RNAseq experiment is to compare gene expression of T cells in different microenviron...
GSE131186: IB deficiency imposes a fetal phenotype to intestinal stem cells [RNA-seq]
The intestinal epithelium is a paradigm of adult tissue in constant regeneration that is supported b...
GSE139605: Gene expression of optic nerve head astrocytes in aged and glaucomatous mouse
Microbeads (experimental glaucoma) or saline solution (controls) were injected into right anterior c...
GSE138933: RNA-seq analysis of WT and NCOR1f/f,Cd4Cre in vitro-generated Th17 cells
The differentiation of nave CD4+ T cells into T helper (Th) subsets is key for a functional immune r...
GSE148505: Single-cell profiling reveals Colonic CD8 Topography in IBD -hIL26 Mouse RNA-Seq
Aim: To assess the effect of IL-26 on mouse colonic tissue at steady state and in DSS-induced coliti...
GSE137079: Transcriptional profiling of neurons in the midbrain of a Stard8-TRAP (ES2342) mouse line
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE137538: RNA sequencing of different neutrophil subpopulations from bone marrow
The purpose of this study is to learn the dynamic transcriptomic and molecular changes during neutro...
GSE140468: scRNA sequencing of total CD4+ T cells in spinal cord of EAE mice and SILP of SFB-colonized mice
There are two aims in this study (1) To figure out the pathogenic sub-populations of CD4+ T cells i...
GSE144143: RNA-seq of murine breast cancer cell line AT3 infected with F. nucleatum
Fusobacterium nucleatum (F. nucleatum) is implicated to exacerbate colorectal cancer. However, there...
GSE142774: Systemic HIV/SIV latency reversal via non-canonical NF-B signaling in vivo
Molecules mimicking the active N-terminal tetrapeptide of the second mitochondrial-derived activator...
GSE140926: RNA-seq analysis on pericytes derived from normal skin and burn eschar compared to human skin-derived fibroblasts
The study was designed to determine the differential gene expression between burn eschar- and normal...
GSE144142: Knockout of CNOT1 and CNOT10 in primary CD4+ T-cells causes a type-1 interferon response
We report a type 1 interferon response accompanying polyclonal knockout of CNOT1 or CNOT10 in primar...
GSE132326: An epigenetic program established by gene environment interactions initiates pancreatic carcinogenesis [Set1]
Damaged tissues have increased risk of cancer development through poorly understood mechanisms. In t...
GSE143905: Androgen Receptor splice variant V7 (AR-V7) mediates AR signalling in castration resistant prostate cancer (CRPC) [RNA-seq]
CRPC remains AR dependent. There are multiple mechanisms for reactivation of AR including expression...
GSE138953: Transcriptional analyses of RPMax-/- versus RPMaxwt mouse lung tumors
We analyze transcritpional changes upon Max deletion in a mouse model of SCLC driven by Rb and p53 l...
GSE148467: Myeloid-derived suppressor cell subsets drive glioblastoma growth in a sex-specific manner
We report that monocytic (mMDSC) and granulocytic (gMDSC) MDSC susbsets have distinct expression pro...
GSE149119: Transcriptional affects of KLF2 deletion in bone marrow-derived macrophages
We report bulk RNA-sequencing of bone marrow-derived macrophages (BMDMs) harvested from myeloid-spec...
GSE143164: Pyridoxine induces glutathione synthesis via PKM2-mediated Nrf2 transactivation and confers neuroprotection
Oxidative stress is a major pathogenic mechanism in Parkinsons disease (PD). As an important cellula...
GSE143859: Comparison of CRISPR-Cas9 genome-edited JEG-3 YAP knockout and wild type choriocarcinoma cells.
The Hippo signalling-dependent co-activator YAP controls organ size by regulating cell proliferation...
GSE141009: Epithelial migration and non-adhesive periderm are required for digit separation during mammalian development
GRHL3 is required for epithelial morphogenesis and periderm function SOURCE: Ghaidaa Kashgari (gkas...
GSE148496: Coordination of Rel Expression by MAP3K4, CBP, and HDAC6 Controls TS cell Phenotype (RNA-seq)
Trophoblast stem cells lack MAP3K4 activity (TSKI4 cells) switch from epithelial phenotype to interm...
GSE139664: HDAC3 maintains oocyte meiosis arrest by repressing amphiregulin expression before the LH surge [mGC-HDACi]
It is known that granulosa cells (GCs) mediate gonadotropin-induced oocyte meiosis resumption by rel...
GSE131658: Cis- and trans-regulation of alternative splicing by Adenosine Deaminase Acting on the double-stranded RNA (ADAR) proteins
We constructed strand-specific cDNA libraries of 8 total RNA samples and sequenced the libraries usi...
GSE146111: -catenin inhibits adipogenic differentiation of hypertrophic chondrocytes and promote osteogenesis
It has been shown that hypertrophic chondrocyte (HC) can become osteoblast, contributing to the form...
GSE139001: Brain delivery and efficacy of a lysosomal enzyme using a blood-brain barrier transport vehicle [RNA-seq]
The enzyme transport vehicle (ETV:IDS) is a lysosomal enzyme fused to iduronate 2-sulfatase (ETV:IDS...
GSE143881: Endogenous itaconate is not required for particulate matter-induced NRF2 expression or inflammatory response
RNA-sequencing demonstrated Acod1 (Aconitate decarboxylase 1) as one of the top genes induced by air...
GSE140218: The biochemical basis of microRNA targeting efficacy [5]
MicroRNAs (miRNAs) act within Argonaute proteins to guide repression of mRNA targets. Although vario...
GSE141301: Expression profile of muscles from GNE M743T/M743T knock in mice and wild-type
Background. Mutations in GNE cause a recessive, adult onset myopathy characterized by slowly progres...
GSE138227: Imprinted Cdkn1c Genomic Locus Cell-Autonomously Promotes Cell Survival in Cerebral Cortex Development
The cyclin-dependent kinase inhibitor p57KIP2 is encoded by the imprinted Cdkn1c locus, exhibits mat...
GSE128224: Whole blood RNAseq following live attenuated influenza vaccine in Gambian children
The goal of this study was to identify differentially expressed genes between pre-vaccination and da...
GSE141421: Transcriptomic analysis of in-vitro plasma cell generation from follicular B cells lacking Raptor [Raptor_PC_stim]
Early UPR-affiliated gene expression occurs before Blimp1 upregulation and independent of canonical ...
GSE143925: Targeted deletion of mouse Slc25a28 (Mitoferrin2) reveals Mitoferrin1 and Mitoferrin2 are necessary for liver regeneration and cell proliferation
Hepatocyte-specific loss of Slc25a37 (Mitoferrin1) in Mitoferrin2-/- mice did not affect animal viab...
GSE146176: Next generation sequencing facilitates quantitative analysis of retinal transcriptomes under normal light and high-intensity light condition
Photoreceptor cell degeneration is a major cause of blindness and a considerable health burden durin...
GSE141525: The role of histone H3K27 acetylation for enhancer activity in embryonic stem cells
By substituting lysine 27 in histone variant H3.3 to arginine in mouse embryonic stem cells, we meas...
GSE126780: RNA sequencing of isogenic BRCA2 haploinsufficient vs. wild-type T-ALL cells
We found a high frequency of heterozygous Fanconi-BRCA pathway mutations in pediatric T-ALL. BRCA2 ...
GSE130869: Total RNA-seq of shRNA-mediated TARBP2 knockdown
To identify changes in splicing patterns following TARBP2 knockdown, RNA-sequencing was performed on...
GSE140207: RNAseq of MLL-AF9+ lin- ckitlo sca1- (LKlo) cells was performed after sorting these cells from the BM of Nes-creERT2;iDTA (N=8) or control (N=6) mice.
Gene expression changes in leukemic LKlow cells after depleting nestin+ cells in vivo SOURCE: Manuel...
GSE141008: The effects of tRNA editing deficiency on hematopoietic stem cells
To test how translational control of proteome quality affects stem cell function, we examined Aarsst...
GSE132354: Dual RNA-seq analysis of Mycobacterium tuberculosis-infected lung macrophages reveals cell-lineage specific host-pathogen dynamics
Background: Dissecting the in-vivo host-pathogen interplay is crucial in understanding the molecular...
GSE139236: Gene expression analysis of tumors of TN and R clonal pairs in vivo
We previously had generated clonal mouse melanoma cell lines, where each clone was isolated in a RAF...
GSE141031: Smooth muscle cell reprogramming in aortic aneurysms [scRNA-Seq]
Smooth muscle cell TGF signaling is one of the primary drivers of smooth muscle cell maturation. Inh...
GSE143909: Differential gene expression profile of S100A4 null mouse lens
Whole lens transcriptome profiling by RNA-seq analysis was performed to investigate the role of S100...
GSE141266: HMGA2 links promoter-specific H2A.X deposition and active DNA demethylation [RNA-Seq]
During transcriptional activation, chromatin undergoes structural changes with the help of various p...
GSE140976: Mcph1 inactivation affected cell cycle progression and survival of neocortical progenitors at the molecular level
to gain insight into how Mcph1 inactivation affected cell cycle progression and survival of neocorti...
GSE132143 (mouse): Single cell RNA-seq analysis reveals the crucial role of Collagen triple helix repeat containing 1 (Cthrc1) cardiac fibroblasts for ventricular remodeling after myocardial infarction [RNA-seq]
Cardiac fibroblasts have a central role during the ventricular remodeling process associated to diff...
GSE138963: Comprehensive transcriptome analysis in Babao Dan treated pancreatic cancer cell line derived xenograft mouse models
Babao Dan has efficient therapeutic effects on patients with pancreatic cancer.However, little is kn...
GSE149087: Benchmarking dataset for measurement and removal of index hopping artifacts in multiplexed droplet-based single-cell RNA-seq data
Sample index hopping refers to the incorrect sample assignment of a demultiplexed sequencing read in...
GSE138361: Identification of ALDH1A3 as a viable therapeutic target in breast cancer metastasis-initiating cells
The development of efficacious therapies targeting metastatic spread of breast cancer to the brain r...
GSE132132: Transcriptome analysis of mouse hearts infected with Trypanosoma cruzi: Differential modulation of gene expression by two strains
Purpose: One important challenge in the field of Chagas disease research is to determine the main f...