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Sequencing-based assays (Page 144)
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Figure 3b: HLA-DR+ CD14hi monocytes
Figure 3d: HLA-DR expression mDC
GSE78151: The transcriptome of central nervous system myelin
Rapid nerve conduction in the CNS is facilitated by the insulation of axons with myelin, a specializ...
GSE76458: The transcriptome of central nervous system myelin
Rapid nerve conduction in the CNS is facilitated by the insulation of axons with myelin, a specializ...
GSE137611: TET1-mediated DNA hydroxy-methylation regulates adult remyelination
Adult myelination is essential for brain function and response to injury, but the molecular mechanis...
GSE127880: Lysosomal dysfunction in Down syndrome is APP-dependent and mediated by APP-CTF (C99)
Lysosomal failure underlies pathogenesis of numerous congenital neurodegenerative disorders and is a...
GSE121066: Trisomy of a Down syndrome critical region globally amplifies transcription via HMGN1 overexpression [proB RNA-Seq]
Down syndrome (DS, trisomy 21) is associated with developmental abnormalities and increased leukemia...
GSE126910: mTOR hyperactivation in Down Syndrome mediates deficits in autophagy induction, autophagosome formation, and mitophagy
Down syndrome (DS), a complex genetic disorder caused by chromosome 21 trisomy, is associated with m...
GSE64840: Questioned validity of GEDDs in DS
Recently, in studies examining fibroblasts obtained from the tissues of one set of monozygotic twins...
GSE52249: Modelling and rescuing neurodevelopmental defect of Down syndrome using induced pluripotent stem cells from monozygotic twins discordant for trisomy 21 [RNA-seq]
Down syndrome (trisomy 21) is the most common viable chromosomal disorder with intellectual impairme...
GSE128621: RNASeq of White Blood Cells and PaxRNA tubes from indiviuals with T21 [strand-specific]
RNA was sequenced from Disomic and Trisomic individuals for chromosome 21 to identify consistent cha...
GSE101942: Transcriptome analysis of genetically matched human induced pluripotent stem cells disomic or trisomic for chromosome 21
Trisomy of chromosome 21, the genetic cause of Down syndrome, has the potential to alter expression ...
GSE121070: Trisomy of a Down syndrome critical region globally amplifies transcription via HMGN1 overexpression [SLAM-Seq]
Down syndrome (DS, trisomy 21) is associated with developmental abnormalities and increased leukemia...
GSE121065: Trisomy of a Down syndrome critical region globally amplifies transcription via HMGN1 overexpression [NALM6 RNA-Seq]
Down syndrome (DS, trisomy 21) is associated with developmental abnormalities and increased leukemia...
GSE131249: RNA-seq of human aneuploid cell lines with Trisomy 21
Trisomy 21, a form of aneuploidy, is one of the few viable forms of trisomy. The goal of this study ...
GSE125837: Silencing Trisomy 21 with XIST in Neural Stem Cells Promotes Neuronal Differentiation (bulk)
Although Down Syndrome (DS) is the leading genetic cause of intellectual disability in children, the...
GSE55504: Domains of genomewide gene expression dysregulation in Down syndrome [RNA-seq]
Trisomy 21 (T21) is the most frequent genetic cause of cognitive impairment. To assess the perturbat...
GSE112250: Promoter or enhancer activation by CRISPRa rescues haploinsufficiency caused obesity
Our results show that CRISPRa can be developed as a gene regulation therapy (GRT) to treat altered g...
GSE112125: Leptin responsive neurons
A comprehensive map of active genomic regions in leptin-responsive neurons and present a blueprint f...
GSE114298: Targeting EZH2 reprograms intratumoral regulatory T cells to enhance cancer immunity
This study reveals a novel strategy to target Tregs in cancer that mitigates autoimmunity by reprogr...
Human lymph nodes maintain a unique subset of resident memory T cells with high functional potential important for protective immunity and immunotherapies (GSE106420)
These findings establish human LN as reservoirs for diverse memory T cells poised for high expansion...
Human tissue-resident memory T cells are defined by core transcriptional and functional signatures in lymphoid and mucosal sites (GSE94964)
Our results indicate that human Positive constitute a subset distinct from circulatory Negative, wit...
Altered infant T cell differentiation in infection or vaccination reduces lung tissue-resident memory generation (GSE101696)
Our findings reveal that infant T cells are intrinsically programmed for short-term responses and ta...
Tissue determinants of human NK cell development, function and residence (GSE133383)
Results indicate anatomic control of NK cell development and maintenance, while mature, terminally d...
Transcriptional control of influenza-specific CD4+ tissue-resident memory T cell generation (GSE137386)
Lung CD4+TRM displayed a unique transcriptional profile distinct from spleen memory, including up-re...
GSE71058: Gene expression profiling in dentate granule cells from patients with mesial temporal lobe epilepsy with or without hippocampal sclerosis
Hippocampal sclerosis (HS) is the most common neuropathological finding of medically intractable cas...
GSE74065: Rapid conversion of fibroblasts into functional forebrain GABAergic interneurons by direct genetic reprogramming
Transplantation of GABAergic interneurons (INs) can sustain long-standing benefits in animal models ...
GSE138100: Neuronal and glial DNA methylation and gene expression changes in early epileptogenesis
Mesial Temporal Lobe Epilepsy is characterized by progressive changes of both neurons and glia, also...
GSE99307: Dynamic changes in murine forebrain miR-211 expression associate with cholinergic imbalances and epileptiform activity
Epilepsy is a common neurological disease, manifested in unprovoked recurrent seizures. Epileptogene...
GSE134697: Hippocampal and neocortex transcriptome sequencing data from 17 mesial temporal lobe epilepsy patients and 2 neocortex samples from neurologically healthy controls
Comparative analysis of gene expression differences (DEGs) between the amygdalohippocampal complex ...
GSE140393: Glia-specific nuclei isolation and single cell transcriptomics inform astrocyte pathology in human temporal lobe epilepsy
The role of human glia in many neurological disorders is still poorly understood due to the lack of ...
GSE133929: CRISPRa-mediated Kcna1 upregulation decreases neuronal excitability and suppresses seizures in a rodent model of temporal lobe epilepsy [II]
Epilepsy is a major health burden, calling for new mechanistic and therapeutic insights. CRISPRmedia...
GSE138370: Changes in calcium homeostasis and gene expression implicated in epilepsy in hippocampi of mice overexpressing ORAI1
We showed that the overexpression of ORAI1 in the neurons of murine brain leads to spontaneous occur...
GSE70935: Reduced CYFIP1 in human neural progenitors as 15q11.2 deletion model: donor specific dysregulation of schizophrenia/epilepsy genes
Deletions at 15q11.2 have been established to increase risk for multiple neurodevelopmental disorder...
GSE99937: Regulatory networks specifying cortical interneurons from human embryonic stem cells reveal roles for CHD2 in interneuron development
Human embryonic stem cells (hESCs) were specified as ventral telencephalic neuroectoderm (day 4) and...
GSE90766: Comprehensive transcriptomes of mouse pancreatic beta cells that transdifferentiated from alpha cells
Rodent models are widely used to study diabetes. Yet, significant gaps remain in our understanding o...
GSE106709: RNA Sequencing for reprogrammed beta cells
Alpha-cell-derived INS+ cells (yellow cells) were isolated 1 month after AAV-PM (adeno-associated vi...
GSE44875: Transcriptome profiling of human pancreatic lineage specification using RNA-seq
Differentiation of functional pancreatic beta cells from human pluripotent stem cells provide a prom...
GSE90767: Comprehensive transcriptomes of mouse pancreatic beta cells that transdifferentiated from delta cells
Rodent models are widely used to study diabetes. Yet, significant gaps remain in our understanding o...
GSE54973: Comprehensive mouse alpha and beta cell transcriptomes
Rodent models are widely used to study diabetes. Yet, significant gaps remain in our understanding o...
GSE87530: Transcriptome comparison of PAX6 ablated mouse beta cells to WT beta cells, ChIP-seq analysis of PAX6 bound sites both in mouse and human beta cell lines (Min6 and EndoC), and ChIP-seq analysis of histone mark H3K9ac on mouse pancreatic beta cells.
Here, we report a key role for the transcription factor Pax6 in the maintenance of adult beta-cell i...
GSE126375: PAX5 belongs to a functional transcription factor network commonly targeted in B-lineage leukemia (murine)
One of the most frequently mutated proteins in human B-lineage leukemia, mutated in about one third ...
GSE79457: Converting adult pancreatic -cells into -cells by targeting Dnmt1 and Arx
After their destruction in adult mice, insulin-producing pancreatic beta-cells slowly regenerate fro...
GSE78966: Progenitor Cell Marker Aldehyde Dehydrogenase 1a3 Defines a Subset of Failing Pancreatic Beta Cells in Diabetic Mice
Insulin-producing beta cells become dedifferentiated during diabetes progression. An impaired abilit...
GSE131527: A composite immune signature parallels disease progression across T1D subjects (RNA-Seq Cohort 2 Cell Sorted)
Peripheral blood mononuculear cells were thawed and sorted into B cell, CD4+ T cells, CD8+ T cells, ...
GSE95376: RNA-Sequencing Reveals Genome-Wide LncRNAs Profiling Associated with Early Development of Diabetic Nephropathy
In early development of diabetic nephropathy (DN), pathogenesis remains largely unknown. We used RNA...
GSE131320: Human Islet Response to Selected Type 1 Diabetes Associated Bacteria
Type 1 diabetes (T1D) is a chronic autoimmune disease that results from destruction of pancreatic -c...
GSE123177: Gene expression profiles of glomerular endothelial cells support their role in the glomerulopathy of diabetic mice
Endothelial dysfunction promotes the pathogenesis of diabetic nephropathy (DN), which is considered ...
GSE106148: Cell Function and Gene Expression Are Compromised in Type 1 Diabetes
Many patients with type 1 diabetes (T1D) have residual beta cells producing small amounts of C-pepti...
GSE123658: Transimmunom whole blood RNA-seq data from type 1 diabetic patients and healthy volunteers
Patients affected by type 1 diabetes are recruited in the departments of Diabetology and Healthy Vol...
GSE85530: Partially exhausted CD8+ T cells are associated with clinically beneficial response to Teplizumab in new onset type I diabetes (bulk RNA-seq of sorted CD8+ T-cells)
Biologic agents active in other autoimmune settings have had variable effectiveness in newly diagnos...
GSE78922: Enhanced T cell responses to IL-6 in type 1 diabetes are associated with early clinical disease and increased IL-6 receptor expression
IL-6 is a proinflammatory cytokine implicated in multiple autoimmune diseases. Here we show that IL-...
GSE64655: A Cell-based Systems Biology Assessment of Human Blood to Monitor Immune Responses After Influenza Vaccination
Systems biology is an approach to comprehensively study complex interactions within a biological sys...
GSE83467: Mouse pooled LNEPs, pre- and post-influenza - Local lung hypoxia determines epithelial fate decisions during alveolar regeneration
Flow sorted mouse LNEP cells isolated from normal lungs and influenza-infected lungs (day 17 PR8) SO...
GSE117637: Life-threatening influenza pneumonitis in a child with inherited IRF9 deficiency
Life-threatening pulmonary influenza can be caused by inborn errors of type I and III IFN immunity. ...
GSE49366: EGR2 is Critical for Peripheral Nave T cell Differentiation and the T-Cell Mediated Response to Influenza
EGR1 and EGR2 are closely related members of an early growth response family of transcription factor...
GSE85316: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Bcl6-/- helper T cell Transcriptomes
Virus infection induces T follicular helper (TFH) and T helper 1 (TH1) cells. Although TFH cells are...
GSE120542: Monocyte-derived alveolar macrophages induced by influenza infection confer long-term antibacterial protection [RNA-seq]
To investigate transcriptomic differences using RNA-seq in macrophages from a BM origin (CD45.1) and...
GSE61517: Strand-specific Dual RNA-seq of Bronchial Epithelial cells Infected with Influenza A/H3N2 Viruses Reveals Splicing of Gene Segment 6 and Novel Host-Virus Interactions
We employed massively parallel RNA sequencing to explore host and virus transcriptome and potential ...
GSE119029: STAT2 Signaling Regulates Macrophage Phenotype during Influenza and Bacterial Super-infection
Influenza is the common respiratory problem that infects between 5-20% of the US population and resu...
GSE75699: Transcriptome profiling of influenza virus-infected human bronchial epithelial cells
We report the whole genome sequencing of human bronchial cells infected with influenza A (PR/8/34) f...
GSE49932: RNA-Seq global gene expression of four Dendritic cells subpopulations from lung (CD8+ and CD8- pDCs, CD103-CD11b+ and CD103+CD11b- cDCs) of influenza infected mice at four time points following infection
Hundreds of immune cell types work in coordination to maintain tissue homeostasis. Upon infection, d...
GSE96870: The effect of upper-respiratory infection on transcriptomic changes in the CNS
Purpose: The goal of this study was to determine the effect of an upper-respiratory infection on ch...
GSE118111: Transcriptome profiling of influenza-specific memory CD8 T cells in the lung airways, lung parenchyma, and spleen
To examine differences in the transcriptome of resident memory CD8 T cells in the lung, influenza nu...
GSE97949: A549 cell transcriptome responses to infection with H7N9 influenza virus
mRNA-Seq analysis was used to profile the cellular transcriptome of A549 cells at multiple time poin...
GSE116500: Spec-seq unveils transcriptional subpopulations of antibody-secreting cells following influenza vaccination
Vaccines are among the most effective public health tools for combating certain infectious diseases ...
GSE89008: Human tracheobronchial epithelial (HTBE) cell transcriptome response to infection with H1N1, H3N2, and H5N1 influenza virus.
Human tracheobronchial epithelial (HTBE) cells are considered to serve as a good correlate of influe...
GSE114588: Characterization of antibiotic resistance and host-microbiome interactions in the human upper respiratory tract during influenza infection [human host RNA-seq]
Antibiotic resistance genes expressed in the upper respiratory tract of patients infected with influ...
GSE109099: Next Generation Sequencing Facilitates Quantitative Analysis of the Effect of GM-CSF on the Transcriptomes of Alveolar and Exudative Lung Macrophages from Influenza-infected C57BL/6 Mice
The transcriptomes of FACS-sorted siglec-F+ alveolar macrophages and siglec-f- CD11b+ exudative macr...
GSE107488: Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis
The impact of viral infections, on host microbiota composition and dynamics is poorly understood. In...
GSE114232: Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomesof Wild Type , RIG-I-/-, MAVS -/- mice during influenza infection
Purpose: The goals of this study are to compare Next-generation sequencing (NGS)-derived transcrip...
GSE85597: Extracellular Matrix Proteolysis by MT1-MMP is Associated with Influenza-Related Mortality
The balance between protecting tissue integrity and efficient immune response is critical for host s...
GSE107947: Dissection of influenza infection in vivo by single-cell RNA-sequencing
The influenza virus is a major cause of morbidity and mortality worldwide, yet, the impact of intrac...
GSE117029: Circadian regulation of lung inflammation
Endogenous circadian rhythms regulate the hosts response to influenza infection, more through the ho...
GSE115952: Non-lytic clearance of influenza B virus from infected cells [RNA-seq]
Influenza B virus (IBV) is an acute respiratory pathogen that induces phenotypic alterations to the ...
GSE124578: RNA-seq on Fixed and Permeabilized Plasma cells
Here we developed a protocol to extract total RNA from fixed and permeabilized cells that were intra...
GSE38838: Cross-presenting CD103+ dendritic cells are protected from influenza virus infection
CD8+ cytotoxic T cells are critical for viral clearance from the lungs upon influenza virus infectio...
GSE93999: Transcriptome Profiling of Influenza A Virus-infected Lung Epithelial (A549) Cells with Lariciresinol-4--D-glucopyranoside Treatment
The influenza A virus is an acute contagious pathogen that affects the human respiratory system and ...
GSE103604: Influenza virus infection causes global RNAPII termination defects
Viral infection perturbs host cells and can be used to uncover host regulatory mechanisms controllin...
GSE104168: Integrative Gene Network Analysis Identifies Key Signatures, Intrinsic Networks and Host Factors for Influenza Virus A Infections
Influenza A virus, with the limited coding capacity of 10 to 14 proteins, requires the host cellular...
GSE115203: Viral infection enhances NK cell activation via Type I dependent pathways and can be utilized to enhance influenza-specific monoclonal antibody therapies
NK cells are an essential component for the control of influenza infection, acting to both clear vir...
GSE122031: Single-cell transcriptome of human epithelial cells reveals novel insights into early innate immune responses to influenza virus and viral antagonism
Despite intense study, the complexity of interactions between viral and host cell mechanisms have en...
Isolation of Foxg1Cre;Gli3TFlag/+ Foreguts (GSE154461)
E10.5 and E11.5 Foxg1Cre;Gli3TFlag/+ mouse mutant and control foreguts and trachea explain role of o...
Transcriptomic changes in the mouse foregut comparing Gli2,3 double mutant to heterozygous controls (GSE136687)
Dissected foreguts from Gli2-/-,Gli3-/-and Gli2+/-,Gli3+/- mouse embryos at embryonic day 9.5. Gli p...
GSE113627: Transcriptional effects of the BAF inhibitor BRD-K98645985 on mouse embryonic stem cells
We used RNA-seq to characterize the effects of the inhibitor on gene expression in mouse embryonic s...
The Poly(C) binding protein Pcbp2, and its retrotransposed derivative Pcbp1, are independently essential to mouse development (GSE72491)
Pcbp1 and Pcbp2 are essential for mouse embryonic development and post-natal growth, Pcpb2 role in h...
Loss of NAD homeostasis leads to progressive and reversible degeneration of skeletal muscle (GSE74570)
Lifelong overexpression of Nampt preserved muscle NAD levels and exercise capacity in aged mice supp...
GSE76199: Transcriptome profiling of Caki2 cells re-expressing Polybromo-1 (PBRM1)
PBRM1 is a component of the PBAF chromatin remodelling complex and has been observed to be deregulat...
MV-4-11 or THP-1 cells treated with LSD1 inhibitor INCB059872 (GSE145106)
INCB059872 is a selective irreversible inhibitor of Lysine-Specific Demethylase 1 (LSD1) that is in ...
GSE98650: The deacetylase activity of histone deacetylase 3 is required for productive VDJ recombination and B cell development [RNA-seq]
Histone deacetylase 3 (HDAC3) is the catalytic component of NCoR/SMRT corepressor complexes that med...
THZ1 Alters RNA Polymerase Dynamics at the 5' and 3' Ends of Genes (GSE102243)
The t(8;21) is one of the most frequent chromosomal translocations associated with acute myeloid leu...
Histone Deacetylase 3 is required for efficient T cell development (GSE72917)
Hdac3 is an important target of HDAC inhibitors used in the treatment of cutaneous T cell lymphoma. ...
GSE77113: HDAC3 modulates enhancer activity to regulate terminal B cell differentiation
B220+GL7+ (GC) and B220+GL7- (non-GC) B cells were sorted from SRBC-immunized mice deficient for Hda...
GSE153264: Definition of a Small Core Transcriptional Circuit Regulated by AML1-ETO [RNA-seq]
Transcription factors regulate gene networks controlling normal hematopoiesis and are frequently der...
Transcriptome regulated by lncRNA Mymsl in aortas (GSE133816)
To determine the transcriptome regulated by Mymsl in mouse smooth muscle cells. Contact: Xiaochun Lo...
Gene expression profile of TGFbeta treated human coronary smooth muscle cell (HCASM) (GSE85910)
TGFbeta induces VSMC gene expression in human coronary artery smooth muscle cell (HCASM) SOURCE: Xia...
Transcriptome regulated by arterial aging in mice (GSE145972)
The goal of this project is to determine the critical genes and pathways associated with physiologic...
GSE148729: Gene expression profiling of SARS-CoV-1/2 infected human cell lines at bulk and single-cell level
To identify human genes and cellular pathways influencing SARS-CoV-1 and SARS-CoV-2 infection, we pe...
GSE150728: A single-cell atlas of the peripheral immune response to severe COVID-19
There is an urgent need to better understand the pathophysiology of Coronavirus disease 2019 (COVID-...
GSE150847: Generation of a Broadly Useful Model for COVID-19 Pathogenesis, Vaccination, and Treatment
COVID-19, caused by SARS-CoV-2, is a virulent pneumonia, with >4,000,000 confirmed cases worldwide a...