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TranscriptomicsRNA-seq of liver tissue and liver cancer cell lines
This dataset has been designed to test whether codons in mRNAs and anticodons in tRNAs vary in order to maximize translation in specific cellular conditions in mammals. Prokaryotes and simple unicellular eukaryotes optimize their translational rates by adjusting the codons in the protein-coding tran...
ORGANISM(S): human 
2016-04-18 | E-MTAB-4052 | biostudies-arrayexpress
TranscriptomicsRNA-seq of Breast Implant-Associated Anaplastic Large Cell Lymphoma
Breast implant-associated anaplastic large cell lymphoma (BIA-ALCL) is an anaplastic lymphoma kinase-negative (ALKneg) T-cell lymphoma. Here, we provide RNA-seq data of four BIA-ALCL and four ALCL cell lines:TLBR-1, TLBR-2, TLBR-3, TLBR-4 and DEL (two replicates), KARPAS-299, KI-JK, SUP-M2 (two repl...
ORGANISM(S): Homo sapiens 
2025-01-14 | E-MTAB-14735 | biostudies-arrayexpress
TranscriptomicsRNA-seq of human liver cancer cell lines after RBP-KD
Biological replicates of Human liver cancer cell lines HepG2 (n = 2) and Huh7 (n = 2) were treated with siRNA (KD) against CCT3, DDX39A, TOP2A, PKM, STMN1, HIST1H1C, NQO1, KPNA2, PEG10, IGF2BP1, and non-targeting (NT) control. Cells were harvested 48hrs after transfection. Total RNA was extracted an...
ORGANISM(S): Homo sapiens 
2021-12-23 | E-MTAB-9587 | biostudies-arrayexpress
TranscriptomicsTag profiling of genes from two Pachycladon species
Tag profiling and expression analysis of genes from Pachycladon enysii and Pachycladon fastigiatum
ORGANISM(S): Pachycladon fastigiatum 
2011-06-01 | E-MTAB-610 | biostudies-arrayexpress
TranscriptomicsOverproduction of indole-3-acetic acid in free-living rhizobia mimics physiological conditions required for nitrogen fixation inside root nodules
Background: The overproduction of the main auxin indole-3-acetic acid (IAA) in Sinorhizobium meliloti RD64 leads to beneficial effects both in free-living rhizobium and in host plant during symbiosis. These effects could be related to alteration in gene expression induced by IAA. Preliminary studies...
ORGANISM(S): Sinorhizobium meliloti 
2016-03-30 | E-GEOD-69880 | biostudies-arrayexpress
TranscriptomicsHigh-resolution analysis of parent-of-origin-allelic expression in Arabidopsis seeds
We report the identification of parent-of-origin specific gene expression in Arabidopsis seeds. F1 hybrid seeds were generated by reciprocally crossing Arabidopsis accessions Col-0 and Bur-0. Seeds were harvested at 4 DAP and total RNA was isolated and analyzed by deep sequencing. Overall identific...
ORGANISM(S): Arabidopsis thaliana 
2011-04-30 | E-GEOD-27292 | biostudies-arrayexpress
TranscriptomicsRNA-seq mouse development
The genetic code is an abstraction of how mRNA codons and tRNA anticodons molecularly interact during protein synthesis; the stability and regulation of this interaction remains largely unexplored. Here, we quantitatively characterized the expression of mRNA and tRNA genes across developing mouse ti...
ORGANISM(S): Mus musculus 
2014-08-08 | E-MTAB-2328 | biostudies-arrayexpress
TranscriptomicsMassive sequencing of hybrid DNA obtained by DNA:RNA immunoprecipitation (DRIP) in extracellular microvesicles (MV) produced by HeLa cells (using S9.6 antibody)
Hybrid (Bound) and non-hybrid (Unbound) DNA from Hela EV was isolated using DRIP procedure as follows. Between 1-5μg of nucleic acid DNA from EVs (DNase0 treated) was incubated overnight with 1μg of anti-DNA-RNA Hybrid (S9.6) antibody (KeraFast) under rotation at 4°C in 500μl of binding buffer (10mM...
ORGANISM(S): Homo sapiens 
2023-03-30 | E-MTAB-9634 | biostudies-arrayexpress
TranscriptomicsRNA-seq data of NKX6-3 knockdown in the BCP-ALL cell line RCH-ACV
Early B-cell development is primarily regulated at the transcriptional level and comprises the consecutive differentiation stages B-cell progenitor, pro-B-cell and pre-B-cell. These entities provide the cells of origin in B-cell precursor acute lymphoid leukemia (BCP-ALL) which show deregulation of ...
ORGANISM(S): Homo sapiens 
2025-08-27 | E-MTAB-15340 | biostudies-arrayexpress
TranscriptomicsRNA-seq in HAP1 tRNA gene locus deleted clones and control clones
This dataset contains ploy-A tailed enriched RNA-seq data obtained from single cell-derived control and CRISPR/Cas9 induced tRNA gene deletion clones in the human cancer cell line HAP1. In this study, we found a large genomic deletion of the 10q23 locus in our Cas9 modified clones and further invest...
ORGANISM(S): Homo sapiens 
2023-10-24 | E-MTAB-11858 | biostudies-arrayexpress
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