GEO DataSets

(Submitter supplied) Total DNA was extracted from the stool of the patients, amplified to collect amplicons of variable V3–V4 regions (primers 341F and 805R) of the bacterial 16s rRNA gene and sequenced with MiSeq (2x300bp) Illumina platform.

Organism:

Homo sapiens; unidentified

Type:

Other

Platforms:

GPL15520 GPL32781

22 Samples

Download data: FASTA, TSV

(Submitter supplied) In vitro, ACE2 translocates to the nucleus to induce SARS-CoV-2 replication. Here, using digital spatial profiling of lung tissues from SARS-CoV-2-infected golden Syrian hamsters, we show that a specific and selective peptide inhibitor of nuclear ACE2 (NACE2i) inhibits viral replication two days after SARS-CoV-2 infection. NACE2i also prevents inflammation and macrophage infiltration, and increases NK cell infiltration in bronchioles. more...

Organism:

Mesocricetus auratus; unidentified

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28997 GPL32371

49 Samples

Download data: CSV, DCC, TXT

(Submitter supplied) Gene signatures have been shown to predict the response/resistance to immunotherapies but with only modest accuracy. Reduction in this precision might be due to the lack of spatial information which prevents the ability from distinguish tumor from tumor-microenvironment (TME) genes. Here we collected gene expression data spatially from three compartments (CD68+macrophages, CD45+leukocytes and S100+tumor cells) of 59-immunotherapy-treated melanoma specimens using Digital Spatial Profiling-Whole Transcriptome Atlas. more...

Organism:

unidentified; Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL24676 GPL32371

449 Samples

Download data: DCC, XLSX

(Submitter supplied) In this study, we have designed custom DNA microarray slides containing 10,976 distinct iM-forming sequences found in human promoters, centromeres, and telomeres, with varied lengths of cytosine repeats from two to ten bases and loops ranging from one to ten bases. We screen this array against a relevant small molecule, an antibody, and four endogenous transcription factors to elucidate differences in iM binding and recognition in the genome.

Organism:

Homo sapiens; unidentified

Type:

Other

Platform:

GPL33264

25 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

unidentified; Homo sapiens

Type:

Methylation profiling by genome tiling array; Expression profiling by array; Expression profiling by high throughput sequencing; Other

4 related Platforms

159 Samples

Download data: CSV, H5, IDAT, TXT

(Submitter supplied) Th17 cells have been investigated in mice primarily for their contributions to autoimmune diseases. However, the pathways of differentiation of Th17 and related Th cells (type 17 cells) and the structure of the type 17 memory population in humans are not well understood; such understanding is critical for manipulating these cells in vivo. By exploiting differences in levels of surface CCR6, we found that human type 17 memory cells, including individual T cell clonotypes, form an elongated continuum of type 17 character along which cells can be driven by increasing RORt. more...

Organism:

unidentified; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6884

81 Samples

Download data: TXT

(Submitter supplied) Spatial transcriptomics technologies that can quantify gene expression in space are transforming contemporary biology research. Some of such methods use spatially barcoded bead arrays that are optically sequenced by a microscopy setup to detect bead barcodes in space which can be consecutively matched to cell barcodes from the respective single cell sequencing experiment. To have good quality barcodes and a high number of barcode matches in space, robust and efficient computational pipelines are needed to process raw microscopy images and call the bases of bead barcodes accurately. more...

Organism:

unidentified; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL22779 GPL19057

4 Samples

Download data: TXT

(Submitter supplied) Sustained exposure to a young systemic environment rejuvenates aged tissues and promotes stem cell function. However, due to the intrinsic complexity of tissues it remains challenging to pinpoint direct effects of circulating factors on specific cell populations. Here we describe a method for the encapsulation of human stem cells in highly diffusible polyethersulfone hollow fiber capsules that can be used to profile systemic aging independent of physical cellular interactions in-vivo.

Organism:

Homo sapiens; Mus musculus; unidentified

Type:

Expression profiling by array

Platform:

GPL10558

30 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus; unidentified

Type:

Expression profiling by array; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL13112 GPL17400

566 Samples

Download data: CEL

(Submitter supplied) Genetic variation, in addition to environmental influences like diet, can govern the expression levels of microRNAs (miRNAs). MiRNAs are commonly found to operate cooperatively in groups to regulate gene expression. To investigate this, we combined small RNA sequencing, clinical phenotypes, and microarray data measuring gene expression from an outbred mouse model, the Diversity Outbred population. In the DO population, each individual has a distinct genome that is a mosaic of 8 inbred founder strains. more...

Organism:

Mus musculus; unidentified

Type:

Expression profiling by array

Platform:

GPL17400

284 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Rhodotorula; Bos taurus; Ovis aries; Ceratonia siliqua; Frangula alnus; Senegalia senegal; Dermestes lardarius; Gallus gallus; Oryctolagus cuniculus; Mus musculus; Human immunodeficiency virus 1; unidentified; Megathura crenulata; Quercus alba; Trypanosoma cruzi; Bothrops moojeni; Pachymenia carnosa; Gossypium hirsutum; Pandalus borealis; Oncorhynchus nerka; Homo sapiens; Sus scrofa domesticus

Type:

Protein profiling by protein array

Platforms:

GPL23565 GPL23566

55 Samples

Download data: GPR

(Submitter supplied) Purpose: This study uses a high-throughput glycan microarray to evaluate the immunological evolution of antibodies to the glyco-antigen GD2. The goal is to determine germline and affinity mature antibody specificity and affinities/ Results: Affinity mature anti-GD2 antibodies 3F8 and ch14.18 had high affinity and were highly specific for the target GD2. Germline antibodies were also hihgly specific and had surprisingly high affinity. more...

Organism:

Rhodotorula; Bos taurus; Mus musculus; Human immunodeficiency virus 1; Ceratonia siliqua; Bothrops moojeni; Senegalia senegal; Pachymenia carnosa; Dermestes lardarius; Gallus gallus; Ovis aries; Oryctolagus cuniculus; unidentified; Megathura crenulata; Frangula alnus; Trypanosoma cruzi; Quercus alba; Gossypium hirsutum; Pandalus borealis; Oncorhynchus nerka; Homo sapiens; Sus scrofa domesticus

Type:

Protein profiling by protein array

Platform:

GPL23565

6 Samples

Download data: GPR, TXT

(Submitter supplied) The use of gene expression signatures to classify compounds, identify efficacy or toxicity, and differentiate close analogs relies on the sensitivity of the method to identify modulated genes. We used a novel ligation-based targeted whole transcriptome expression profiling assay, TempO-Seq®, to determine whether previously unreported compound-responsive genes could be identified and incorporated into a broad but specific compound signature. more...

Organism:

Homo sapiens; synthetic construct; unidentified

Type:

Expression profiling by high throughput sequencing

4 related Platforms

290 Samples

Download data: XLSX

(Submitter supplied) Six commercially available MSC lines were expanded from passage 3 to 7 and their miRNA expression was evaluated using microarray technology. Statistical analyses of our data revealed that 71 miRNAs out of 939 examined were expressed by this set of MSC lines at all passages and the expression of 11 miRNAs were significantly different between passage 3 and 7.

Organism:

unidentified; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL14767

65 Samples

Download data: TXT, XLS

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; unidentified

Type:

Expression profiling by array

Platforms:

GPL21292 GPL21293

104 Samples

Download data: RCC

(Submitter supplied) Neuronal or glial cell fates related gene expression from single cells with variety of sAPPa or total Aβ secretion profiles were presented here.

Organism:

unidentified; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL21292

32 Samples

Download data: RCC

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

unidentified; Homo sapiens

Type:

Protein profiling by protein array

Platforms:

GPL17321 GPL14689

744 Samples

Download data: GPR

(Submitter supplied) In a two-stage study we investigated levels of Immunoglobulin G (IgG) reactivity in plasma from Myelodysplastic Syndrome (MDS) and Acute Myeloid Leukemia (AML) post MDS patients (59 and 16 cases respectively) as compared to healthy cohort (34). In Stage I we utilized high-throughput protein arrays (23 232 total signals, in duplicate) to identify proteins of high-interest. In Stage II we designed new protein arrays (352 total signals, in duplicate) to further focus on 25 of the proteins from Stage I and expanded to a larger cohort, including both male and female samples (161 MDS and 43 AML patients; 112 healthy controls). more...

Organism:

Homo sapiens; unidentified

Type:

Protein profiling by protein array

Platform:

GPL17321

633 Samples

Download data: GPR

(Submitter supplied) In a two-stage study we investigated levels of Immunoglobulin G (IgG) reactivity in plasma from Myelodysplastic Syndrome (MDS) and Acute Myeloid Leukemia (AML) post MDS patients (59 and 16 cases respectively) as compared to healthy cohort (34). In Stage I we utilized high-throughput protein arrays (23 232 total signals, in duplicate) to identify proteins of high-interest. In Stage II we designed new protein arrays (352 total signals, in duplicate) to further focus on 25 of the proteins from Stage I and expanded to a larger cohort, including both male and female samples (161 MDS and 43 AML patients; 112 healthy controls). more...

Organism:

unidentified; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL14689

111 Samples

Download data: GPR

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Human betaherpesvirus 5; unidentified

Type:

Expression profiling by array

Platforms:

GPL15366 GPL6244

5 Samples

Download data: CEL, GPR