Explore curated data sets and assays
Pluto has a large database of published data, available to explore, conduct your own analysis, and view QC reports.
Talk to our team for access
Sequencing-based assays (Page 122)
Store large, raw sequencing data files and transform them into biologically-meaningful results in your browser. Gain critical QC information, quantify targets within and across data sets, and run best-in-class computational biology analyses specific to each assay type.
GSE49339: m6A-dependent regulation of messenger RNA stability
N6-methyladenosine (m6A) is the most prevalent internal modification present in the mRNA of all high...
GSE69529: Elucidating the etiology and molecular pathogenicity of infectious diarrhea by high throughput RNA sequencing
Diarrhea remains a major cause of death in children. Current diagnostic methods largely rely on stoo...
GSE61141: Phenotypic responses of differentiated asthmatic human airway epithelial cultures to rhinovirus
We report the application of RNA sequencing technology for high-throughput profiling of gene express...
GSE56152: Paired RNA-seq and small RNA-seq from WT and ADAR1 knockdown H9 lines and their differentiation to specific types of neurons
Adenosine deaminases acting on RNA (ADARs) are involved in adenosine (A) to inosine (I) RNA editing ...
GSE46044: A compendium of hematopoietic regulators, chromatin modifiers and basal transcription factors occupy CBF-MYH11/RUNX1 target genes
Different mechanisms for CBF-MYH11 function in acute myeloid Leukemia (AML) with inv(16) have been p...
GSE43770: Vitamin d receptor-mediated stromal reprogramming suppresses pancreatitis and enhances pancreatic cancer therapy
The poor clinical outcome in pancreatic ductal adenocarcinoma (PDA) has been attributed to intrinsic...
GSE44183 (human): Genetic Programs in Human and Mouse Early Embryos Revealed by Single-Cell RNA-Sequencing
Mammalian preimplantation development is a complex process involving dramatic changes in the transcr...
GSE45982 (human): EZH2 is required for germinal center formation and somatic EZH2 mutations promote lymphoid transformation
The EZH2 histone methyltransferase is highly expressed in germinal center (GC) B-cells and targeted ...
GSE65099: Loss of endometrial plasticity in recurrent pregnancy loss (RNA-Seq)
In order to try and identify characteristics of gene expression in the endometrium of women sufferin...
GSE44379: Remodeling of Ago2-mRNA interactions upon cellular stress reflects miRNA complementarity and correlates with altered translation rates (part 4)
When adapting to environmental stress, cells attenuate and reprogram their translational output. In...
GSE44267: Cohesin and CTCF Differentially Affect the Chromatin Architecture and Gene Expression in Human Cells
Recent studies of genome-wide chromatin interactions have revealed that the human genome is partitio...
GSE49712: Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
A large number of computational methods have been recently developed for analyzing differential gene...
GSE54416: Global gene expression differences between blood- and lymphatic-specific endothelial colony forming cells
The identification of circulating endothelial progenitor cells has led to speculation regarding thei...
GSE73268: Next Generation Sequencing Facilitates Quantitative Analysis of HCC cells transfected with NCsiRNA or ODC1siRNA
We investigated if targeting of ODC1 with siRNA could inhibit HCC progression. To accomplish this, H...
GSE46579: A blood based 12-miRNA signature of Alzheimer patients
We applied Next-Generation Sequencing (NGS) to miRNAs from blood samples of 48 AD (Alzheimer's Dise...
GSE47488: Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition [RNA-Seq]
Although the function of DNA methylation in gene promoter regions is well established in transcripti...
GSE47718: Smoking Dysregulates the Human Airway Basal Cell Transcriptome at COPD-linked Risk Locus 19q13.2
Rationale: Genome-wide association studies (GWAS) and candidate gene studies have identified a numbe...
GSE47626: Differential LINE-1 retrotransposition in induced pluripotent stem cells between humans and great apes
Understanding cellular and molecular differences between human and non-human primates (NHPs) is esse...
GSE94570: Identification of MELK-regulated genes in prostate cancer cells using next-generation sequencing
A cross-species analysis identified MELK as a potential therapeutic target in prostate cancer. To fu...
GSE53665: High ERG expression in human HSPCs promotes progenitor but not stem cell proliferation and molecular signatures that are enriched in high ERG leukemia.
ERG is an Ets-transcription factor required for normal blood stem cell development. High ERG expres...
GSE51025: Cooperative Transcription Factor Induction Mediates Hemogenic Reprogramming
During development, hematopoietic stem/progenitor cells (HSPCs) arise from; specialized endo...
GSE51684: Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for amyotrophic lateral sclerosis and frontotemporal dementia (Multiplex Analysis of PolyA-linked Sequences)
Purpose: The purpose of this experiment is to identify a C9-ALS/FTD specific genomic profile in fibr...
GSE43520 (human): The evolution of lncRNA repertoires and expression patterns in tetrapods
Only a minuscule fraction of long non-coding RNAs (lncRNAs) are well characterized. The evolutionary...
GSE49159: mRNA differential expression analysis in a human ex vivo model of chronic wounds
To study the fibroblast to myofibroblast differentiation in a normal or pathological situation, NHDF...
GSE48678: Genome-Wide Transcriptional Effects of the Anti-Cancer Agent Camptothecin
The anti-cancer drug camptothecin inhibits replication and transcription by trapping DNA topoisomera...
GSE47976: Translation-dependent displacement of UPF1 from coding sequences causes its enrichment in 3 UTRs
The RNA helicase UPF1 is best known for its key function in mRNA nonsense-mediated mRNA decay (NMD),...
GSE60996: Generation of a Panel of Induced Pluripotent Stem Cells From Chimpanzees: a Resource for Comparative Functional Genomics (RNA-Seq)
Comparative studies in primates are extremely restricted because we only have access to a few types ...
GSE50792: Tissue-specific RNA-seq in human evoked inflammation identifies novel blood and adipose lincRNA signatures of cardio-metabolic diseases
Inappropriate or sustained activation of innate immunity is a pathologic feature of several common c...
GSE51518: RNA-seq from primary skin fibroblasts, derived of matched pairs of middle and late donor age
Aging signatures developed from a longitudinal study design are dominated by reduced transcription o...
GSE85088: CTCF modulates Estrogen Receptor function through specific chromatin and nuclear matrix interactions [RNA-seq]
In our work we used high-throughput sequencing methods to get insight in the role of CTCF in ER-medi...
GSE51124: Gene expression, single nucleotide variant and fusion transcript discovery in archival material from breast tumors
Advantages of RNA-Seq over array based platforms are quantitative gene expression and discovery of e...
GSE52036: RNA-seq analysis reveals endogenous aryl hydrocarbon receptor regulation is highly associated with eicosanoid synthesis and tumor necrosis factor activity in MCF-7 cancer cells
Background: The Aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor that is a...
GSE125701: Comparative transcriptome profiling myometrial and vascular smooth muscle cells
The goal of this study was to select the optimal myometrial cells for our high-throughput drug disco...
GSE50386: Epigenomic plasticity enables human pancreatic alpha to beta cell reprogramming
Insulin-secreting cells and glucagon-secreting cells maintain physiological blood glucose levels, ...
GSE52166: Molecular Hallmarks of Naturally Acquired Immunity to Malaria
Immunity to malaria can be acquired through natural exposure to Plasmodium falciparum (Pf), but only...
GSE60585: Integrator complex regulates NELF-mediated RNA Polymerase II pause/release and processivity at coding genes [RNA-seq]
RNAPII pausing/termination shortly after initiation is a hallmark of gene regulation. However, the m...
GSE55030: Activation of the P-TEFb Complex by Lethal Prostate Cancer-Associated Enhancer RNAs [RNA-Seq]
Castration resistant prostate cancer (CRPC) is a lethal disease1-4. Aberrant activation of the andr...
GSE52148: High resolution ChIP sequencing reveals novel bindings targets and prognostic role for SOX11 in Mantle cell lymphoma (RNA-Seq)
SOX11 (Sex determining region Y-box 11) expression is specific for MCL as compared to other Non-Hodg...
GSE54322: RNA-seq analysis in Cornea epithelial cells (CECs), skin epithelial cells (SECs), LSCs after knocking down PAX6 (3-D shPAX6 LSCs) and SESCs transduced with PAX6(3-D PAX6+ SESCs) upon 3-D differentiation
Purpose: We find that Wnt7a-PAX6 axis determine corneal epithelial cell fate. To obtain global evide...
GSE52202: iPSC derived motor neuron cultures from C9ORF72 carriers
Amyotrophic lateral sclerosis (ALS) is a severe neurodegenerative condition characterized by loss of...
GSE58708: Transcriptomic profiling of sequential tumours from breast cancer patients provides a global view of metastatic expression changes following endocrine therapy
We profiled primary breast cancer, nodal and liver metastatic tumours from three patients. At the ti...
GSE62212: Identifying genes regulated by Kruppel-like factor-9 by RNA-seq in human glioblastoma stem cells.
Kruppel-like factor-9 (KLF9), a member of the large KLF transcription factor family, has emerged as ...
GSE53327: Genome-wide discovery of human splicing branchpoints [RNAse]
Gene splicing requires three basal genetic elements; the 3 and 5 splice sites and the branchpoint to...
GSE53094: Epigenetic and transcriptional aberrations in human pluripotent stem cells reflect differences in reprogramming mechanisms [RNA-Seq]
Human pluripotent stem cells hold great potential for regenerative medicine, but available cell type...
GSE54505: TWIST1-induced microRNA-424 drives an intermediate epithelial-to-mesenchymal transition that opposes metastasis
Epithelial-to-mesenchymal transition (EMT) is a dynamic process that relies on cellular plasticity; ...
GSE112734: A genome-wide screen identifies E2F6 as critical factor for TMZ chemoresistance in EGFRvIII expressing GBM (CRISPR library RNA-seq)
We conducted a genome-wide screen by clustered regularly interspaced short palindromic repeats (CRIS...
GSE51878: Identification and Initial Functional Characterization of SENCR, a Long Non-Coding RNA Enriched in Human Vascular Cells
RNA sequencing (RNA-seq) analysis revealed 31 novel lncRNAs in HCASMC, including a vascular cell-enr...
GSE53239: RNA-sequencing of the brain transcriptome implicates dysregulation of neuroplasticity, circadian rhythms, and GTPase binding in bipolar disorder
See "Akula et al., Molecular Psychiatry in Press". RNA-sequencing (RNA-seq) is a powerful technique ...
GSE54478: Identification of a dynamic core transcriptional network in t(8;21) AML regulating differentiation block and self-renewal [RNA-Seq]
The leukemogenic fusion protein RUNX1/ETO impairs myeloid differentiation and drives malignant self-...
GSE103567: UTX/KDM6A Loss Enhances the Malignant Phenotype of Multiple Myeloma and Sensitizes Cells to EZH2 inhibition
In this project we analyze the transcriptome of the human multiple myeloma isogenic cell lines ARP-1...
GSE48850: Novel kinase fusion oncogenes in post-Chernobyl radiation-induced pediatric thyroid cancers
Exposure to ionizing radiation during childhood markedly increases the risk of developing papillary ...
GSE56512: InFusion: advancing discovery of fusion genes and chimeric transcripts from RNA-seq data
Gene fusions and chimeric transcripts occur frequently in cancers and in some cases drive the develo...
GSE24565: Small RNA-seq from ENCODE/Cold Spring Harbor Lab
This data was generated by ENCODE. If you have questions about the data, contact the submitting labo...
GSE54878: Global gene expression profiling from LeuCAG3'tsRNA depleted- HeLa and HCT-116 cell lines through 50 base pair paired-end RNA-seq
We sequenced mRNA expression from 3 HeLa and 3 HCT-116 cell lines transfected with LNA (Locked nucle...
GSE53983 (human): Global Transcriptome Analyses of Mammalian Terminal Erythroid Differentiation
Purpose:The purpose of this study is to create unbiased, stage-specific transcriptomes by RNA-seq an...
GSE56010: Widespread N6-methyladenosine-dependent RNA Structural Switches Regulate RNA-Protein Interactions
We show that N6-methyladenosine (m6A), the most abundant internal modification in mRNA/lncRNA with s...
GSE55534: Rate of elongation by RNA polymerase II is influenced by specific gene features and histone modifications
The rate of transcription elongation plays important roles in the timing of expression of full-lengt...
GSE89975: Proliferation pause as an early blockade of human cellular reprogramming toward pluripotency [RNA-seq analysis]
Human induced Pluripotent Stem cells (iPSCs) can be generated by enforced-expression of OCT3/4, SOX2...
GSE54846: RNA-seq from control and macroH2A1-depleted IMR90 primary human lung fibroblasts
The histone variant macroH2A1 and the poly(ADP-ribose) polymerase PARP-1 both regulate gene transcri...
GSE56930: Human intestinal tissue with adult stem cell properties derived from pluripotent stem cells
Genetically engineered human pluripotent stem cells (hPSCs) have been proposed as a source for trans...
GSE50676: Landscape and variation of RNA secondary structure across the human transcriptome
In parallel to the genetic code for protein synthesis, a second layer of information is embedded in ...
GSE68102: Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [RNA-seq]
Technical advances have enabled the collection of genome and transcriptome data sets with single-cel...
GSE72141: GATA3-mediated chromatin reprogramming in breast cancer cells
Pioneer transcription factors bind to silent chromatin, and initiate cell fate conversion. One poten...
GSE62241: Enhancer Sequence Variants and Transcription Factor Deregulation Synergize to Construct Pathogenic Regulatory Circuits in B Cell Lymphoma (RNA-Seq)
Most B cell lymphomas arise in the germinal center (GC), where humoral immune responses evolve from ...
GSE50582: Transcriptomics analysis of gene expression in normal and METTL3 or WTAP deficient Human 293T cells
RNA was isolated from and METTL3WTAP deficient Human 293T cells using the TRIzol (Invitrogen) reagen...
GSE52431: Human iPSC-based Modeling of Late-Onset Disease using Progerin-induced Aging
Reprogramming somatic cells to induced pluripotent stem cells (iPSCs) sets their identity back to an...
GSE57027: Controlling for gene expression changes in transcription factor protein networks.
The development of affinity purification technologies together with mass spectrometric analyses of t...
GSE55458: Gene expression analysis of airway epithelial cells exposed to flagellin via RNA-seq
Airway epithelial cells (AEC) are critical components of the inflammatory and immune response during...
GSE63782 (human): Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition
Following the discovery of BRD4 as a non-oncogene addiction target in acute myeloid leukemia (AML), ...
GSE69415: Fra-1 is a key driver of colon cancer metastasis and a Fra-1 classifier predicts disease-free survival
Background and Aim: Fra-1 (Fos-related antigen-1) is a member of the AP1 (activator protein-1) famil...
GSE55727 (human): Integrative Genomic Analysis Reveals Widespread Enhancer Regulation by p53 in Response to DNA Damage
The tumor suppressor p53 has been studied extensively as a direct transcriptional activator of prote...
GSE103706: A map of gene expression in neutrophil-like cell lines
We report gene expression data for the human cell lines HL-60 and PLB-985, which serve as models for...
GSE78081: Immunological Imbalance in Fibrodysplasia Ossificans Progressiva Revealed by PBMC Transcriptome Analysis
In order to study the inflammation mechanism of FOP patients peripheral blood system, we profiled th...
GSE55939: Human germ cell formation in xenotransplants of induced pluripotent stem cells carrying X chromosome aneuploidies
Induced pluripotent stem cells (iPSCs) offer opportunity for insight into the genetic requirements o...
GSE56689: Characterizing the contrasting roles of JMJD3 and UTX histone demethylases in T cell acute lymphoblastic leukemia [short_hairpins_RNA-seq]
T-cell acute lymphoblastic leukemia (T-ALL) is an immature hematopoietic malignancy driven mainly by...
GSE55946: Next generation sequencing identifies discrete classes of box C/D snoRNAs featuring different ends and RNA binding protein dependency
The paired-end next-generation sequencing of all small RNAs of less than 200 nucleotides in length f...
GSE56742: Abraxane, the Nanoparticle Formulation of Paclitaxel can Induce Drug Resistance by Up-regulation of P-gp
Abraxane, a nanoparticle (NP) formulation of paclitaxel (PTX), has been demonstrated to be more effe...
GSE58326: Global analysis of ZNF217 chromatin occupancy in the breast cancer cell genome reveals an association with Eralpha
Background: The ZNF217 gene, encoding a C2H2 zinc finger protein, is located at 20q13 and found ampl...
GSE57161: MMS induced expression changes and the effect of sorafenib
Despite the high toxicity, alkylating agents are still at the forefront of several clinical protocol...
GSE76404: Human adipose transcriptome reveals primate-specific long intergenic noncoding RNAs that modulate adipocyte metabolic function
Through deep RNA-seq in human subcutaneous adipose bioposies and established long noncoding RNAs (li...
GSE56144: Site-Specific Association with Host and Viral Chromatin by KSHV LANA and its Reversal during Lytic Reactivation
Latency-associated nuclear antigen (LANA), a multifunctional protein expressed by the Kaposi sarcoma...
GSE62247: Cell fate determination by ubiquitin-dependent regulation of translation
Metazoan development depends on accurate execution of differentiation programs that allow pluripoten...
GSE57353: Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi-Goutires syndrome
Aicardi-Goutires syndrome (AGS) is a severe childhood inflammatory disorder that shows clinical and ...
GSE58838: Microprocessor mediates transcription termination in long noncoding microRNA genes
MicroRNA (miRNA) play a major role in the post-transcriptional regulation of gene expression. In mam...
GSE57530: c-Jun promotes cell migration and drives expression of the motility factor ENPP2 in soft tissue sarcomas [RNA-Seq]
We assayed the effect of c-Jun overexpression on gene expression in the three DDLPS cell lines using...
GSE58123: Modeling Familial Cancer with iPSC Approaches
In vitro modeling of human disease has recently become feasible with the adoption of induced pluripo...
GSE57243: Cell-type restricted activity of hnRNPM promotes breast cancer metastasis via regulating alternative splicing
Tumor metastasis remains the major cause of cancer-related death, but its molecular basis is still n...
GSE84359: RNA-seq of primary patient AML samples
The goals of this study are to compare transcriptome profiling (RNA-seq) of patients BM with or with...
GSE58933: Hyper-excitability of Neurons generated from Patients with Bipolar Disorder
Bipolar Disorder (BD) is a complex neuropsychiatric disorder that is characterized by intermittent e...
GSE65107: Diarrhea in lymphocytic colitis: ERK1/2-dependent ENaC dysregulation and claudin-4-, -5- and -8-related barrier defects
Background: Lymphocytic colitis (LC) causes watery diarrhea. This study aimed to identify the inhere...
GSE57401: Transcriptome analysis of human reninomas as an approach to understanding juxtaglomerular cell biology
Renin, a key component in the regulation of blood pressure in mammals, is produced by the rare and h...
GSE57395: Direct Induction of Hematoendothelial Program in Human Pluripotent Stem Cells by Transcriptional Regulators
Advancing pluripotent stem cell technologies for modeling hematopoietic stem cell development and th...
GSE57961: Bioreactor-engineered cancer tissues mimic phenotypes, gene expression profiles and drug resistance mechanisms detectable in xenografts and clinical specimens.
Cancer tissue-like structures were developed by using established human tumor cell lines in perfusio...
GSE59317: Gene expression changes as a result of E-cadherin loss in an isogenic non-malignant MCF10A and MCF10A CDH1-/- breast cells
Background: E-cadherin is an adherens junction protein that forms homophilic intercellular contacts ...
GSE60138: SOX17 Is a Critical Specifier of Human Primordial Germ Cell Fate
Specification of primordial germ cells (PGCs) marks the beginning of the totipotent state. However, ...
GSE81485: An extensive program of periodic alternative splicing linked to cell cycle progression
Progression through the mitotic cell cycle requires periodic regulation of gene function at the leve...
GSE58335: Transcriptomic profiling of peripheral blood mononuclear cells from healthy individuals
Substantial effort is currently devoted to identifying cancer-associated alterations using genomics....
GSE60939: Potent antitumor activity of Cabozantinib, a c-MET and VEGFR2 Inhibitor, in a Colorectal Cancer Patient-derived Tumor Explant Model
Anti-angiogenic therapy is commonly used for the treatment of CRC. Although patients derive some cli...
GSE58418: SAMHD1 is a phospho-regulated Rnase that is essential for restricting HIV-1 infection through direct cleavage of HIV-1 genomic RNA
SAMHD1 restricts HIV-1 replication in dendritic and other myeloid cells. SAMHD1 has been sh...
GSE59822: Transcription factor p63 bookmarks genomic loci in epithelial cells and regulates a subset of target genes during epidermal differentiation through dynamic enhancers (RNA-Seq)
Tightly controlled gene expression orchestrated by the transcription factor p63 during epithelial di...