GEO DataSets

(Submitter supplied) We describe an effort (“Codebook”) to determine the sequence specificity of 332 putative and largely uncharacterized human transcription factors (TFs), as well as 61 control TFs. Nearly 5,000 independent experiments, including in vitro and in vivo assays, produced motifs for most of the uncharacterized TFs analyzed (180, or 53%), the vast majority of which are unique to a single TF. The data highlight the extensive contribution of transposable elements to TF evolution, both in cis and trans, and identify tens of thousands of conserved, base-level binding sites in the human genome. more...

Organism:

synthetic construct; Homo sapiens

Type:

Other

Platform:

GPL11260

462 Samples

Download data: TXT

(Submitter supplied) Background: MET inhibitors have demonstrated efficacy in treating patients with non-small cell lung cancer (NSCLC) harboring METex14 skipping alterations. Advancements in spatial profiling technologies have unveiled the complex dynamics of the tumor microenvironment, a crucial factor in cancer progression and therapeutic response. Using spatial profiling, this study investigates the effects of the MET inhibitor tepotinib on the TME in a case of locally advanced NSCLC with a METex14 skipping alteration. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL34024

94 Samples

Download data: XLSX

(Submitter supplied) Human mesenchymal stem cells (hMSCs) have therapeutic applications and potential for use in regenerative medicine. However, the use of hMSCs in research and clinical medicine is limited by a lack of information pertaining to their donor-specific functional attributes. In this study, we compared the characteristics of same-donor derived placenta (PL) and Wharton’s jelly (WJ)-derived hMSCs, we also compared their mechanism of action in a skeletal muscle disease in vitro model. more...

Organism:

Homo sapiens; Mus musculus

Type:

Protein profiling by protein array

Platform:

GPL34899

13 Samples

Download data: GPR

(Submitter supplied) We performed a retrospective study on CSF from 20 DMT-naïve MS patients to investigate the correlation between intrathecal immune proteins and clinical MS phenotype.

Organism:

Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL30526

20 Samples

Download data: XLSX

(Submitter supplied) The goal of this study was to determine whether male and female mice with primary Sjogren's disease (pSD) displayed differences in autoreactive IgM and IgG in sera. We also sought to determine whether this reactivity was dependent on the expression of Tlr7.

Organism:

Mus; Mus musculus; synthetic construct

Type:

Protein profiling by protein array

Platform:

GPL34168

64 Samples

Download data: GPR, TXT

(Submitter supplied) Development of a vaccine against gonorrhoea is a global priority, driven by the rise in antibiotic resistance and the need to protect against infection and reproductive health consequences. Although Neisseria gonorrhoeae (Ng) infection does not induce substantial protective immunity, there is evidence that highly exposed individuals may develop immunity against re-infection with the same strain. In contrast, retrospective epidemiological studies have shown that immunisation with vaccines containing Neisseria meningitidis (Nm) outer membrane vesicles (OMVs) provides a degree of cross-protection against Ng infection. more...

Organism:

Neisseria gonorrhoeae; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL34580

610 Samples

Download data

(Submitter supplied) DSP protein profiling using the nanostring immuno-oncology kit was performed on head and neck tumor tissue samples De proteins were identified in tumour and stromal compartments

Organism:

Homo sapiens

Type:

Other

Platform:

GPL34246

375 Samples

Download data: CSV

(Submitter supplied) Sequence-specific DNA-binding proteins (DBPs) play critical roles in biology and biotechnology, and there has been considerable interest in the engineering of DBPs with new or altered specificities for genome editing and other applications. While there has been some success in reprogramming naturally occurring DBPs using selection methods, the computational design of new DBPs that recognize arbitrary target sites remains an outstanding challenge. more...

Organism:

Homo sapiens; synthetic construct

Type:

Other

Platform:

GPL23935

12 Samples

Download data: TXT

(Submitter supplied) Identifying the DNA-binding specificities of transcription factors (TF) is central to understanding gene networks that regulate growth and development. Such knowledge is lacking in oomycetes, a group of microbes that includes many important plant and animal pathogens. Here we describe the use of protein-binding oligonucleotide microarrays (PBMs) to define the DNA-binding preferences of 14 families of TFs from the oomycete Phytophthora infestans, which causes late blight of potato and tomato. more...

Organism:

synthetic construct; Phytophthora infestans

Type:

Other

Platform:

GPL11260

146 Samples

Download data: TXT

(Submitter supplied) In this experiment, we studied how anti-PD-1 effects microglial kinase signaling

Organism:

Mus musculus

Type:

Protein profiling by protein array

Platform:

GPL32056

8 Samples

Download data: TXT

(Submitter supplied) The immunomodulatory mycobacterial surface antigen lipoarabinomannan (LAM) with its immunogenic glycan component arabinomannan (AM) facilitates Mycobacterium tuberculosis’ (Mtb) escape from the host’s immune response. Some but not all antibodies against AM can protect against TB. To better understand which of AM’s structures to target, we must first identify the spectrum of its epitopes. Through isolating and characterizing a panel of novel human mAbs with binding to distinct AM OS motifs, we further defined the glycan epitope structures, identified a new epitope, and determined their differences among mycobacterial strains.

Organism:

synthetic construct; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL34369

11 Samples

Download data: GPR, XLSX

(Submitter supplied) The immunomodulatory mycobacterial surface antigen lipoarabinomannan (LAM) with its immunogenic glycan component arabinomannan (AM) facilitates Mycobacterium tuberculosis’ (Mtb) escape from the host’s immune response. Some but not all antibodies against AM can protect against TB. To better understand which of AM’s structures to target, we must first identify the spectrum of its epitopes. We here used synthetic AM oligosaccharide motifs to deplete sera from subjects along the spectrum of Mtb infection. more...

Organism:

synthetic construct; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL34369

107 Samples

Download data: GPR, XLSX

(Submitter supplied) Purpose: There is a need for point-of-care diagnostics for future mass casualty events involving radiation exposure. The development of radiation exposure and dose prediction algorithms for biodosimetry is needed for screening of large populations during these scenarios, and exploration of the potential effects which sex, age, genetic heterogeneity, and physiological comorbidities may have on the utility of biodosimetry diagnostics is needed. more...

Organism:

Homo sapiens; Mus musculus

Type:

Protein profiling by protein array

Platform:

GPL34462

148 Samples

Download data: TXT

(Submitter supplied) High myopia is a leading cause of blindness worldwide, among which pathologic myopia, characterized by typical myopic macular degeneration, is the most detrimental. However, its pathogenesis remains largely unknown. By using a protein microarray assaying more than 20,000 human proteins, we determined in this study the autoantibody profiles of highly myopic patiens and emmetropic controls.

Organism:

Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL33051

72 Samples

Download data: GPR

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

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Protein profiling by protein array; Expression profiling by array

Platforms:

GPL32054 GPL32055 GPL18573

300 Samples

Download data: BW, RCC, SF

(Submitter supplied) A 122-epigenetic gene signature distinguished low- versus high-risk early stage melanomas. We sought to validate the signature, examined clinical correlates in a cohort of primary melanomas of the skin, and studied the underlying transcriptomic aberrations and changes in chromatin in cell lines representing these two groups.

Organism:

Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL32054

15 Samples

Download data

(Submitter supplied) A total of 116 patients, 96 with treatment-naïve unresectable hepatocellular carcinoma (uHCC) and 20 chronic liver disease without any cancer, were analysed for 17 cytokines and chemokines from serum and analysed for oncological features.

Organism:

Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL34302

116 Samples

Download data: TXT

(Submitter supplied) DDX39A and DDX56 recombinant proteins were assayed using commercial protein microarrays in order to detect potential interaction partners.

Organism:

Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL27459

3 Samples

Download data: GPR

(Submitter supplied) We measued IgG autoantibodies associated with Connective Tissue Diseases (CTDs) and Anti-Cytokine Antibodies (ACA) in SLE and healthy controls who received the BNT162b2 vaccine.

Organism:

Triticum aestivum; Capra hircus; Escherichia coli; Spodoptera frugiperda; Bos taurus; Homo sapiens; Sus scrofa

Type:

Protein profiling by protein array

Platform:

GPL34257

102 Samples

Download data: TXT, XLSX

(Submitter supplied) We measued IgG autoantibodies associated with Connective Tissue Diseases (CTDs) and Anti-Cytokine Antibodies (ACA) in SLE and healthy controls who received the BNT162b2 vaccine.

Organism:

Escherichia coli; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL34255

113 Samples

Download data: TXT, XLSX