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ProteomicsPeptideForest: Semi-supervised machine learning integrating multiple search engines for peptide identification
We introduce PeptideForest, a semi-supervised machine learning approach that integrates the assignment of peptides to mass spectra from multiple algorithms to train a random forest classifier, thereby combining the results from different search engines. PeptideForest increases the number of peptide-...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2025-06-02 | PXD056915 | Pride
Human Machine learning E. coli Statistical post-processing Peptide identification 
GenomicsIncreased DNA Methylation of Dnmt3b-Targets Impairs Leukemogenesis (RRBS)
The de novo DNA methyltransferases Dnmt3a and Dnmt3b are of crucial importance in hematopoietic stem cells, and Dnmt3b has recently been shown to play a role in genic methylation. Forced Dnmt3b expression induced widespread DNA hypermethylation in myc-bcl2 induced leukemias, especially at promoters ...
ORGANISM(S): Mus musculus 
2016-01-11 | E-GEOD-71039 | biostudies-arrayexpress
TranscriptomicsExpression data from MS individuals homozygous for IL7R haplotypes
Genome-wide association studies in multiple sclerosis (MS) identified a polymorphism (rs6897932) located in the coding region of the alpha chain of the cytokine receptor interleukin 7 receptor (IL7R) as a component that increases susceptibility to develop the disease. This single nucleotide polymorp...
ORGANISM(S): Homo sapiens 
2015-04-14 | E-GEOD-37584 | biostudies-arrayexpress
TranscriptomicsIncreased DNA Methylation of Dnmt3b-Targets Impairs Leukemogenesis (expression)
Here, we analyzed global gene expression changes that were associated with over expression of Dnmt3b in MLL-AF9 induced leukemias using the Affymetrix microarray platform. Changes in global gene expression were determined with Affymetrix microarrays in MLL-AF9 induced leukemias over expressing Dnmt3...
ORGANISM(S): Mus musculus 
2016-01-11 | E-GEOD-71040 | biostudies-arrayexpress
ProteomicsRole of ITCH in the endolysosomal damage response
Ubiquitin remnant (diGly) profiling of parental and ITCH knockout (KO) cells under endolysosomal damage conditions (LLOMe).
ORGANISM(S): Homo sapiens (Human) 
2024-10-18 | PXD039088 | Pride
Digly Itch Lysosome Llome Ubiquitin 
UnknownGC/MS-based 13C metabolic flux analysis resolves the parallel and cyclic photomixotrophic metabolism of Synechocystis sp. PCC 6803 and selected deletion mutants including the Entner-Doudoroff and phosphoketolase pathways.
Not available
S-EPMC9034593 | biostudies-literature
GenomicsDNA methylation changes are a late event in Acute Promyelocytic Leukemia and coincide with loss of transcription factor binding (sequencing)
The origin of aberrant DNA methylation in cancer remains largely unknown. In this study, we elucidated the DNA methylome in primary Acute Promyelocytic Leukemia (APL) and the role of PML-RARa in establishing these patterns. APL patients showed increased genome-wide DNA methylation with higher variab...
ORGANISM(S): Homo sapiens 
2012-11-08 | E-GEOD-42044 | biostudies-arrayexpress
TranscriptomicsGene expression and epigenetic profiling of CD34+ hematopoietic progenitor cells in multiple sclerosis patients
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2012-09-05 | E-GEOD-27694 | biostudies-arrayexpress
UnknownMicronutrient and Inflammation Status Following One Year of Complementary Food Supplementation in 18-Month-Old Rural Bangladeshi Children: A Randomized Controlled Trial.
Not available
S-EPMC7284655 | biostudies-literature
UnknownInflammation throughout pregnancy and fetal growth restriction in rural Nepal.
Not available
S-EPMC6805761 | biostudies-literature
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