Format
Items per page
Sort by

Send to:

Choose Destination

Search results

Items: 1 to 20 of 2471

1.

A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination

(Submitter supplied) Nucleosomes composed of histones are the fundamental units around which DNA is wrapped to form chromatin. Transcriptionally active euchromatin or repressive heterochromatin is regulated in part by the addition or removal of histone post-translational modifications (PTMs) by ‘writer’ and ‘eraser’ enzymes, respectively. Nucleosomal PTMs are recognised by a variety of ‘reader’ proteins which alter gene expression accordingly. more...
Organism:
Trypanosoma brucei brucei
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL24992 GPL28514 GPL28517
288 Samples
Download data: BW
Series
Accession:
GSE150253
ID:
200150253
2.

Genome-wide mapping of 5-hydroxymethyluracil in Trypanosoma brucei

(Submitter supplied) 5-Hydroxymethyluracil (5hmU) is a thymine modification existing in the genomes of a number of living organisms. The post-replicative formation of 5hmU occurs via hydroxylation of thymine, which can be mediated by the ten-eleven translocation (TET) dioxygenases in mammalian and J-binding proteins (JBPs) in protozoan genomes, respectively. In addition, 5hmU also can be generated through oxidation of thymine by reactive oxygen species or from deamination of 5hmC by activation-induced cytidine deaminase (AID) or APOBEC family enzymes. more...
Organism:
Trypanosoma brucei brucei
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17088
4 Samples
Download data: BED, BIGWIG
Series
Accession:
GSE179809
ID:
200179809
3.

Vector-borne Trypanosoma brucei parasites develop and persist in artificial human skin as skin tissue forms

(Submitter supplied) Transmission of Trypanosoma brucei by tsetse flies involves the deposition of the infective quiescent metacyclic stage into the mammalian skin at the site of the fly’s bite. In the skin, the metacyclic parasites reactivate and differentiate into proliferative trypanosomes before colonizing the host's blood and tissues. We have generated an advanced human skin equivalent and used tsetse flies to naturally infect the artificial skin with trypanosomes. more...
Organism:
Trypanosoma brucei; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24676 GPL20572
154 Samples
Download data: H5, MTX, TSV, TXT
Series
Accession:
GSE174198
ID:
200174198
4.

Gene expression profiling of Trypanosoma cruzi in the presence of heme points to glycosomal metabolic adaptation of epimastigotes inside the vector

(Submitter supplied) Using the Deep Seq transcriptome sequencing we characterized the heme induced transcriptome of epimastigotes and determined that most of the upregulated genes were related to glucose metabolism inside the glycosomes.
Organism:
Trypanosoma cruzi
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27740
5 Samples
Download data: TXT
Series
Accession:
GSE172452
ID:
200172452
5.

Differential transcriptome of human dendritic cells at first contact with Trypanosoma cruzi reveals response to virus as a central unexplored pathway

(Submitter supplied) Chagas disease is a notorious public health problem worldwide. However, the pathology is still poorly understood in humans and dendritic cells (DCs) have a determinant role during infection that could help to understand what happens with immune response during the first contact. Here we performed a transcriptomic analysis of the interaction between DCs from three human donors and the infective forms of T. more...
Organism:
Homo sapiens; Trypanosoma cruzi
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL16791 GPL29219
12 Samples
Download data: XLS
Series
Accession:
GSE158986
ID:
200158986
6.

Transcriptional differentiation of Trypanosoma brucei during in vitro acquisition of resistance to acoziborole

(Submitter supplied) Purpose: Acoziborole is a recently developed benzoxaborole class compound, currently in clinical trials, for stage 1 and stage 2 treatment of Human African Trypanosomiasis. Recent studies have made significant progress in determining the molecular mode of action of acoziborole. However, less is known about the potential mechanisms leading to acoziborole resistance in trypanosomes. By characterising in vitro drug-resistance, this study aimed to gain a better understanding of the mechanisms involved in acoziborole resistance in the clinicaly relevant Trypanosoma brucei Methods: Drug resistance was generated in vitro through incremental dosage of acoziborole. more...
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL22141
6 Samples
Download data: TXT
Series
Accession:
GSE168394
ID:
200168394
7.

Identification of transcripts bound to and regulated by the PuREBP1/2 complex in Trypanosoma brucei

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL22141
12 Samples
Download data
Series
Accession:
GSE145515
ID:
200145515
8.

Effect of the depletion of PuREBP1 (Tb927.4.4550) on the transcriptome of Trypanosoma brucei [RNAi]

(Submitter supplied) We have previously characterized a short RNA stem-loop cis-element within the 3'-UTR of the NT8 nucleobase transporter mRNA (PuRE, Purine Responsive Element) that is necessary and sufficient to confer a strong repression of gene expression in response to purines in the human parasite Trypanosoma brucei (PMID: 24813448). In this study, we have identified a protein complex composed of two RNA-binding proteins (Tb927.4.4550 and Tb927.3.3060, named here as PuREBP1 and PuREBP2 respectively) that binds to the PuRE in vitro and to NT8 mRNA in vivo. more...
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL22141
4 Samples
Download data: TXT
Series
Accession:
GSE145468
ID:
200145468
9.

Identification of the mRNAs associated with the protein complex PuREBP1/PuREBP2 (Tb927.4.4550/Tb927.3.3060) in Trypanosoma brucei [RIP-seq]

(Submitter supplied) We have previously characterized a short RNA stem-loop cis-element within the 3'-UTR of the NT8 nucleobase transporter mRNA (PuRE, Purine Responsive Element) that is necessary and sufficient to confer a strong repression of gene expression in response to purines in the human parasite Trypanosoma brucei (PMID: 24813448). In this study, we have identified a protein complex composed of two RNA-binding proteins (Tb927.4.4550 and Tb927.3.3060, named here as PuREBP1 and PuREBP2 respectively) that binds to the PuRE in vitro and to NT8 mRNA in vivo. more...
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL22141
8 Samples
Download data: TXT
Series
Accession:
GSE145466
ID:
200145466
10.

Identification of the elusive core promoters driving polycistronic transcription by RNA polymerase II in trypanosomes

(Submitter supplied) Protein coding genes in the trypanosome genome are organized in polycistronic transcription units (PTUs). How RNA Polymerase II (Pol II) initiates PTU transcription has not been resolved and the current model favors initiation driven by chromatin epigenetic marks, rather than core-promoters. Here, we identify sequence-specific core promoters by functional characterization of ChIP-Seq Pol II accumulation-peaks. more...
Organism:
Trypanosoma brucei brucei
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL22141
6 Samples
Download data: BIGWIG
Series
Accession:
GSE130798
ID:
200130798
11.

Comparative RNAseq analysis of Trypanosoma brucei and T. congolense

(Submitter supplied) Purpose: The is a major paucity of knowledge regarding the biology of Trypanosoma congolense, a protozoan parasite primarily responsible for Animal African Trypanosomiasis. In contrast, the closely related species T. brucei, is far better understood. To characterise core metabolism in T. congolense, comparative RNAseq analysis was undertaken to assess similarities and differences in transcript levels of genes associated with metabolism Methods: Samples from both in vitro culture and ex vivo (isolated from murine infections) bloodstream-form T. more...
Organism:
Trypanosoma congolense; Trypanosoma brucei
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL29359 GPL29635
16 Samples
Download data: CSV, TXT, XLSX
Series
Accession:
GSE165290
ID:
200165290
12.

Trypanosoma brucei histones are heavily modified with combinatorial post-translational modifications and mark Pol II transcription start regions with hyperacetylated H2A.

(Submitter supplied) Trypanosomes diverged from the main eukaryotic lineage about 600 million years ago, and display some unusual genomic and epigenetic properties that provide valuable insight into the early processes employed by eukaryotic ancestors to regulate chromatin-mediated functions. We sequenced Trypanosoma brucei core histones by high mass accuracy middle-down mass spectrometry to map core histone post-translational modifications (PTMs) and elucidate cis‑histone combinatorial PTMs (cPTMs). more...
Organism:
Trypanosoma brucei
Type:
Other
Platform:
GPL24610
16 Samples
Download data: BIGWIG
Series
Accession:
GSE165034
ID:
200165034
13.

Next generation sequencing of transcripts associated to five selected RNA-binding proteins in Leishmania infantum

(Submitter supplied) We report the sequencing of mRNAs associated with three Leishmania infantum Poly (A) binding proteins (PABP1, PABP2 and PABP3) and two of their partner RNA binding proteins (RBP23 and DRBD2). PABP1 and RBP23 preferentially associate with mRNAs that encode ribosomal proteins, absent from DRBD2-associated transcripts, and differently from PABP2 and PABP3 that bind to an overlapping set of mRNAs.
Organism:
Leishmania infantum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29386
21 Samples
Download data: TXT
Series
Accession:
GSE161150
ID:
200161150
14.

TbSAP is a novel chromatin protein repressing metacyclic Variant Surface Glycoprotein expression sites in bloodstream form Trypanosoma brucei

(Submitter supplied) The African trypanosome Trypanosoma brucei is a unicellular eukaryote, which relies on a protective Variant Surface Glycoprotein (VSG) coat for survival in the mammalian host. A single trypanosome has >2000 VSG genes and pseudogenes of which only one is expressed from one of ~15 telomeric bloodstream form expression sites (BESs). Infectious metacyclic trypanosomes present within the tsetse fly vector also express VSG from a separate set of telomeric metacyclic ESs (MESs). more...
Organism:
Trypanosoma brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29359
15 Samples
Download data: TXT
Series
Accession:
GSE160713
ID:
200160713
15.

Trypanosoma brucei brucei Doxycycline induced DRBD18 knockdown whole cell RNA and cytoplasmic RNA

(Submitter supplied) DRBD18 (Tb927.11.14090) was knocked down by 19 hour doxycycline treatment. Whole cell RNA and cytoplasmic RNA was isolated and sequenced.
Organism:
Trypanosoma brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20572
12 Samples
Download data: TXT
Series
Accession:
GSE158584
ID:
200158584
16.

TbRAP1's dsDNA binding activity plays an important role in subtelomeric gene expression regulation

(Submitter supplied) We examine the function of the TbRAP1 DB domain in gene expression regulation in Trypanosoma brucei that causes human African trypanosomiasis. TbRAP1 is required for normal VSG monoallelic expression, a key aspect of antigenic variation that is used by T. brucei to evade the host immune response.
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27986
12 Samples
Download data: TXT, XLS, XLSX
Series
Accession:
GSE147734
ID:
200147734
17.

Global changes in nitration levels and DNA binding profile of Trypanosoma cruzi histones induced by incubation with host extracellular matrix

(Submitter supplied) Adhesion of T. cruzi trypomastigotes to components of the extracellular matrix (ECM) is an important step in mammalian host cell invasion. We have recently described a significant increase in the tyrosine nitration levels of histones H2A and H4 when trypomastigotes are incubated with components of the ECM. In this work, we used chromatin immunoprecipitation (ChIP) with an anti-nitro-tyrosine antibody followed by mass spectrometry to identify nitrated DNA binding proteins in T. more...
Organism:
Trypanosoma cruzi
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL27740
4 Samples
Download data: BEDGRAPH
Series
Accession:
GSE140245
ID:
200140245
18.

Transcriptomics profiling of the developmental progression of Trypanosoma brucei

(Submitter supplied) Mitochondrial metabolic remodeling is a hallmark of the Trypanosoma brucei digenetic life cycle since the insect stage utilizes the cost-effective oxidative phosphorylation to generate ATP, while bloodstream cells switch to less energetically efficient aerobic glycolysis. Due to difficulties in acquiring enough parasites from the tsetse fly vector for biochemical analysis, the dynamics of the parasite´s mitochondrial metabolic rewiring in the vector have remained obscure. more...
Organism:
Trypanosoma brucei
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20572
24 Samples
Download data: TSV
Series
Accession:
GSE140796
ID:
200140796
19.

Effect of very low concentrations (< 10 μM) of glucose on T. brucei gene expression

(Submitter supplied) The ability to adapt to varying nutrient availability in changing environments is critical for successful parasitism. The lifecycle stages of the African trypanosome, Trypanosoma brucei, that infect the host mammalian bloodstream utilize glucose exclusively for ATP production. The finding that trypanosomes also inhabit other tissues that frequently contain lower glucose concentrations suggests blood stage parasites may have to respond to a dynamic environment with changing nutrient availability in order to survive. more...
Organism:
Trypanosoma brucei brucei
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24992 GPL21682
17 Samples
Download data: CSV
Series
Accession:
GSE114395
ID:
200114395
20.

Chromatin landscape of Leishmania major

(Submitter supplied) We sought to identify nuclease-hypersensitive sites and to quantify nucleosome positions in an effort to identify cis-regulatory elements in the protozoan parasite Leishmania major. Using micrococcal nuclease digestion of chromatin (MNAse-seq), we report that few nuclease hypersensitive sites are present within the presumed regions of RNA polymerase II-mediated transcription initiation, and that similar numbers of nuclease hypersensitive sites were found in control datasets. more...
Organism:
Leishmania major
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18354
9 Samples
Download data: WIG
Series
Accession:
GSE60846
ID:
200060846
Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

db=gds|term=txid5653[Organism]|query=1|qty=111|blobid=MCID_616e563145cdce0789cbb8f7|ismultiple=true|min_list=5|max_list=20|def_tree=20|def_list=|def_view=|url=/Taxonomy/backend/subset.cgi?|trace_url=/stat?
   Taxonomic Groups  [List]
Tree placeholder
    Top Organisms  [Tree]

Find related data

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Support Center