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Dataset Title Keywords Date Released Description
E. histolytica and E. invadens RNA-seq of non coding RNA 08-19-2015 This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
Tbx3 controls Dppa3 levels to regulate exit from pluripotency towards mesodermal lineage RNA-seq of coding RNA
ChIP-seq
08-19-2015 Tbx3, a member of the T-box family, plays important roles in development, stem cells, nuclear reprog...
Conversion of MyoD to a neurogenic factor: binding site specificity determines lineage [RNA-seq] RNA-seq of coding RNA 08-19-2015 MyoD and NeuroD2 are master regulators of myogenesis and neurogenesis and bind to a "shared&quo...
Small RNAs during E. histolytica stress response RNA-seq of non coding RNA 08-19-2015 We analyzed ~27nt small RNAs from Entamoeba histolytica trophozoites in basal conditions and after h...
Integrative ‘omic analysis of experimental bacteremia identifies a metabolic signature that distinguishes human sepsis from SIRS RNA-seq of coding RNA 08-19-2015 Rationale: Sepsis is a leading cause of morbidity and mortality; early diagnosis and prediction of p...
Lung adenocarcinoma metastasis is suppressed by the alveolar lineage transcription factors GATA6 and HOPX. RNA-seq of coding RNA 08-18-2015 Molecular programs that mediate normal cell differentiation are required for oncogenesis and tumor c...
Transcription profiling by 3'-end sequencing of whole blood from pancreatic ductal adenocarcinoma (PDAC) patients and healthy controls for PDAC diagnosis RNA-seq of coding RNA 08-14-2015 We sequenced the transcriptomes using massive analysis of cDNA ends (MACE) of whole blood samples fr...
LEF-1 and TCF-1 orchestrate T follicular helper (Tfh) cell differentiation by regulating Tfh differentiation circuits upstream of Bcl6 RNA-seq of coding RNA 08-19-2015 This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
Fgf and Esrrb integrate epigenetic and transcriptional networks that regulate self-renewal of Trophoblast Stem Cells RNA-seq of coding RNA
ChIP-seq
08-18-2015 Derivation and maintenance of TS cells depends on the presence of Fgf signalling. Numerous gene knoc...
High-throughput sequencing of mouse liver transcriptome in Clock mutant animals RNA-seq of coding RNA 08-19-2015 Circadian profile of polyA RNA by RNA-Seq, collected from ClockΔ19 mouse liver at CT22, CT28, CT34,...
RNA-Seq profiling of single bovine oocyte transcript abundance and its modulation by cytoplasmic polyadenylation RNA-seq of coding RNA 08-19-2015 Polyadenylated RNA from individual germinal vesicle and metaphase II ooyctes was amplified and proce...
Molecular anatomy of palate development RNA-seq of coding RNA 08-19-2015 Background: The FACEBASE consortium was established in part to create a central resource for craniof...
Transciptional response to acute thermal stress in Chinook salmon RNA-seq of coding RNA 08-19-2015 Thermal stress is a serious and growing challenge facing Chinook salmon (Oncorhynchus tshawytscha) l...
Interactions of melanoma cells with distal keratinocytes trigger metastasis via Notch signaling inhibition of MITF RNA-seq of non coding RNA 08-19-2015 The most critical stage in initiation of melanoma metastasis is the radial to vertical growth transi...
Innate lymphoid cell development requires TOX-dependent generation of a common ILC progenitor RNA-seq of coding RNA 08-05-2015 Subtypes of innate lymphoid cells (ILC), defined by effector function and transcription factor expr...
Varicella-Zoster Virus (VZV) quiescent and productive infection of neurons derived from human embryonic stem cells RNA-seq of coding RNA 06-22-2015 quiescent and productive infection of varicella zoster virus in human embryonic stem stem cell-deriv...
The transcription factors SOX9 and SOX5/SOX6 cooperate genome-wide through super-enhancers to drive chondrogenesis (RNA-Seq) RNA-seq of coding RNA 06-27-2015 SOX9 is a transcriptional activator required for chondrogenesis, and SOX5 and SOX6 are closely relat...
Transcriptomic gene profiling of porcine muscle tissue depending on histological properties RNA-seq of coding RNA 12-12-2015 Purpose: Next-generation sequencing (NGS) was used to select genes potentially associated with fiber...
TET-catalyzed 5-hydroxymethylcytosine regulates gene expression in differentiating colonocytes and colon cancer RNA-seq of coding RNA
methylation profiling by high throughput sequencing
12-12-2015 5-hydroxymethylcytosine (5-mC) and gene expression profiling of T84 cell differentiation; 5-hmC prof...
Next generation sequencing identifies differentially localized transcripts in Xenopus laevis and Xenopus tropicalis oocytes RNA-seq of coding RNA 12-12-2015 RNA-seq technology was used to identify differentially localized transcripts from Xenopus laevis and...
Global transcript analysis of quantitative trait loci (QTL) associated with meat tenderness in pigs RNA-seq of coding RNA 12-12-2015 We sequenced mRNA from 32 muscles (n=16 semimembranosus,n=16 longisimus dorsi) of two pig breeds (Pu...
Differential RNA-seq of Plant Beneficial Rhizobacterium Bacillus amyloliquefaciens FZB42 Reveals sRNA Bas01 involved in Sporulation and Biofilm Formation RNA-seq of coding RNA 12-08-2015 Bacillus amyloliquefaciens FZB42 is a representative organism for Gram positive soil bacteria associ...
Identifying Glioblastoma Gene Networks Based on Hypergeometric Test Analysis RNA-seq of coding RNA 12-08-2015 Patient specific therapy is emerging as an important possibility for many cancer patients. However,...
RNA-seq analysis of Bacteroides xylanisolvens XB1AT grown on pectin or xylan RNA-seq of coding RNA 12-08-2015 Dietary fiber degradation is a key function of the human gut microbiota. The aim of this study was ...
Broiler responses to virulent and avirulent Clostridium perfringens RNA-seq of coding RNA 12-08-2015 Purpose: Analyze gene expression during C. perfringens colonization in the chicken Transcriptomic pr...
Next Generation Sequencing identifies Cdh11 and Mrc1 as novel translational biomarkers of kidney fibrosis RNA-seq of coding RNA 12-08-2015 Chronic kidney disease (CKD) is the gradual, asymptomatic loss of kidney function and current tests ...
Transcription factor trapping by RNA in gene regulatory elements other
RNA-seq of coding RNA
12-08-2015 This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
Drug-based modulation of endogenous stem cells promotes functional remyelination in vivo RNA-seq of coding RNA 08-19-2015 Multiple sclerosis involves an aberrant autoimmune response and progressive failure of remyelination...
Genome-wide mapping of promoter-enhancer interactions with HiCap other
RNA-seq of coding RNA
08-19-2015 This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
Transcript profiles of juvenile female brown trout exposed to glyphosate and Roundup herbicides. RNA-seq of coding RNA 08-19-2015 This study aimed to investigate the hepatic transcriptional response of brown trout to glyphosate, a...
Global identification of genes specific for rice meiosis RNA-seq of coding RNA 08-19-2015 The leptotene-zygotene transition is a major step in meiotic progression during which pairing betwee...
Genome-wide mapping of promoter-enhancer interactions with HiCap [RNA-seq] RNA-seq of coding RNA 08-19-2015 Although the locations of promoters and enhancers have been identified in several cell types, we hav...
EZH2 inhibitor efficacy in non-Hodgkin lymphoma does not require suppression of H3K27 mono-methylation [RNA-Seq] RNA-seq of coding RNA 08-19-2015 Here we report the discovery of highly potent and selective EZH2 small molecule inhibitors, their va...
Leucegene: AML sequencing (part 4) RNA-seq of coding RNA 08-19-2015 RNA sequencing of human leukemia The goals of this project are to obtain a comprehensive study of mu...
A novel analytical brain block tool to enable functional annotation of discriminatory transcript biomarkers among discrete regions of the fronto-limbic circuit in primate brain RNA-seq of coding RNA 08-19-2015 We describe a novel method for obtaining discrete regions from the fronto-limbic circuits of a 4 yea...
High-throughput sequencing of mouse liver transcriptome. RNA-seq of coding RNA 08-19-2015 Circadian profile of polyA RNA by RNA-Seq, collected from mouse liver at CT23, CT29, CT35, CT41, CT4...
The carbonic anhydrase inhibitor ethoxzolamide inhibits the Mycobacterium tuberculosis PhoPR regulon and Esx-1 secretion and attenuates virulence RNA-seq of coding RNA 08-19-2015 The purpose of this study was to examine how ethoxzolamide modulates gene M. tuberculosis gene expre...
Purification and transcriptomic analysis of mouse fetal Leydig cells reveals candidate genes for disorders of sex development RNA-seq of coding RNA 08-19-2015 To examine the transcriptome of early testicular somatic cells during gonadogenesis at 12.5dpc RNA s...
Small RNA mediated immune responses: insights from analyses of nine soybean R-gene near-isogenic lines and their susceptible parent RNA-seq of non coding RNA 08-19-2015 Small RNAs, including microRNAs (miRNAs) and small interfering RNAs (siRNAs) are negative regulators...
dsRNA-seq of Physcomitrella patens rdr mutants RNA-seq of coding RNA 08-19-2015 To investigate the effects of rdr2 and rdr6 mutations upon the strucutred component of the Physcomit...
IFN-g Regulates mTORC1, Cellular Metabolism and mRNA Translation to Potentiate Inflammatory Macrophage Activation [miRNA-Seq] RNA-seq of non coding RNA 08-19-2015 IFN-g primes macrophages for enhanced inflammatory activation by TLRs and microbial killing, but lit...
Identification of MEDIATOR16 as the Arabidopsis COBRA suppressor, MONGOOSE1   RNA-seq of coding RNA 01-03-2016 RNAseq data for Col-0. cob-6, sfr6-3 and cob-6sfr6-3 7 days old seedlings grown in 24h light with 0
Vascular niche induction of hematopoietic progenitors from pluripotent stem cells RNA-seq of coding RNA 01-01-2016 Pluripotent stem cells (PSC) represent an alternative source of hematopoietic stem cells (HSCs). Cli...
Global Analysis of the Transcriptional Response of Chinese cabbage (Brassica rapa ssp. pekinensis) to Methyl Jasmonate Reveals JA Signaling on Enhancement of Secondary Metabolism Pathways RNA-seq of coding RNA 01-03-2016 We conducted a RNA-Seq analysis of MeJA-treated Chinese cabbage leaf transcriptome. Total 14,619,469...
Genome-wide mapping of TEL-AML1 targets in acute leukemia RNA-seq of coding RNA 01-03-2016 Around 20-25% of childhood acute lymphoblastic leukemias carry the TEL-AML1 (TA) fusion gene. It is ...
Transcription profiling by high throughput sequencing of Arabidopsis estradiol-inducible tor-es mutant RNA-seq of coding RNA 01-04-2016 To validate that the transcriptional program rapidly activated by PP242, WYE354, KU63794 and Torin2 ...
Assessment of ability of hTSLP to maintain primary CRLF2 B-ALL cells in a xenograft model in a state more similar to the parent leukemia RNA-seq of coding RNA 01-02-2016 Xenograft models represent an excellent method for expanding primary leukemias, but their ability to...
Small RNAs in stress-related rice cultivars RNA-seq of non coding RNA 01-01-2016 In this study, we sequenced small RNA content from three different rice cultivars employing Illumina...
Next generation sequencing of miRNAs in folic acid-induced kidney damage RNA-seq of non coding RNA 12-26-2015 We have used small RNA sequencing to measure the expression of all miRNAs present in the kidneys dur...
Cryptochromes interact directly with PIFs to control plant growth in limiting blue light RNA-seq of coding RNA 01-02-2016 Sun-loving plants have the ability to detect and avoid shading through sensing of both blue and red ...