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ProteomicsnextPP for chromosome-based proteomic research using neXtProt and GENCODE databases
In this study, we introduce a streamlined pipeline using customized and concatenated GENCODE and neXtProt databases with controlled false discovery rate (FDR) for finding GENCODE ASVs and missing proteins while mapping onto single amino acid variants (SAAVs) from Hippocampal dataset.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-07-25 | MSV000081385 | MassIVE
TranscriptomicsChip-chip from mouse diffuse large B cell lymphoma cell lines with IRF8
IRF8, a transcriptional factor, has the heightened expression in germinal center(GC) B cell and GC-origin B cell lymphoma. To identify IRF8 direct targets in GC B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. IRF8-negative cell lines, MPC1...
ORGANISM(S): Mus musculus 
2011-10-14 | E-GEOD-30519 | biostudies-arrayexpress
TranscriptomicsChip-chip from human diffuse large B cell lymphoma cell lines with IRF8
IRF8, a transcriptional factor, has the heightened expression in germinal center(GC) B cell and GC-origin B cell lymphoma. To identify IRF8 direct targets in GC B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. IRF8-negative cell lines, MMS1...
ORGANISM(S): Homo sapiens 
2011-10-14 | E-GEOD-30357 | biostudies-arrayexpress
UnknownReconstruction of monocyte transcriptional regulatory network accompanies monocytic functions in human fibroblasts.
Not available
S-EPMC3302774 | biostudies-literature
TranscriptomicsChip-chip from mouse diffuse large B cell lymphoma cell lines with PU.1
PU.1, a transcriptional factor, is expressed in wide range of B cells from early to mature stage. To identify PU.1 direct targets in germinal center B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. PU.1 ChIP in two different cell lines (NFS...
ORGANISM(S): Mus musculus 
2011-10-14 | E-GEOD-30520 | biostudies-arrayexpress
TranscriptomicsMouse B cell lymphoma cell lines:IRF8 knockdown cells vs. Control
Expression profiling of NFS202 mouse B cell lymphoma cell lines comparing cells stably expressing siIRF8 vector with cells expressing control vector only six technical replicates of siIRF8 expressing cells. Six technical replicates of controls; one replicate per array
ORGANISM(S): Mus musculus 
2011-10-14 | E-GEOD-30358 | biostudies-arrayexpress
UnknownA Randomized, Multi-Center, Open Label Study to Compare the Safety and Efficacy between Afatinib Monotherapy and Combination Therapy with HAD-B1 for the Locally Advanced or Metastatic NSCLC Patients with EGFR Mutations.
Not available
S-EPMC11301725 | biostudies-literature
UnknownDeep sequencing of short capped RNAs reveals novel families of noncoding RNAs.
Not available
S-EPMC9528987 | biostudies-literature
ProteomicsJUMPg: an Integrative Proteogenomics Pipeline Identifying Unannotated Proteins in Human Brain and Cancer Cells
Proteogenomics is an emerging approach to improve gene annotation and interpretation of proteomics data. Here we present JUMPg, an integrative proteogenomics pipeline including customized database construction, tag-based database search, peptide-spectrum match filtering, and data visualization. JUMP...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-16 | MSV000080641 | MassIVE
UnknownRecounting the FANTOM CAGE-Associated Transcriptome.
Not available
S-EPMC7397872 | biostudies-literature
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