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TranscriptomicsmRNA expression in TTHA1939 deletion mutant of Thermus thermophilus HB8 strain grown on minimum medium
We compared the expression profile of TTHA1939 deletion mutant strain of Thermus thermophils HB8 with that of wild-type. The mutant strain grown in minimum essential medium (CS medium) exhibited growth arrest and cellular aggregation during the logarithm growth phase. In this phase, 99 genes were ...
ORGANISM(S): Thermus thermophilus HB8 
2010-05-22 | E-GEOD-8795 | biostudies-arrayexpress
ModelsHayashi2013 - TNF-induced Signaling Dynamics (Model A)
Hayashi2013 - TNF-induced Signaling Dynamics Model (Model A) Tumor necrosis factor (TNF) plays a crucial role in inflammation and is associated with diseases such as rheumatoid arthritis and cancer. While TNF signaling pathways are well studied, targeted regulation of proinflammatory responses rem...
2025-02-19 | MODEL2502170001 | BioModels
ModelsHayashi2013 - Extended TNF-induced Signaling with Gene Expression Dynamics (Model B)
Hayashi2013 - Extended TNF-induced Signaling with Gene Expression Dynamics (Model B) Tumor necrosis factor (TNF) plays a crucial role in inflammation and is associated with diseases such as rheumatoid arthritis and cancer. While TNF signaling pathways are well studied, targeted regulation of proin...
2025-02-19 | MODEL2502170002 | BioModels
TranscriptomicsTranscription profiling of wild type and talA talB double knock out E. coli
Wild-type and talA talB double knockout cells were grown in 50 ml of MOPS medium supplemented with 0.2% glucose or xylose in 500 ml Erlenmeyer flasks until the OD600 reached 1. At the sampling RNA was stabilized by mixing with RNAprotect Bacteria regent (Qiagen) and total RNA were isolated, by RNeas...
ORGANISM(S): Escherichia coli 
2009-06-01 | E-MEXP-1841 | biostudies-arrayexpress
TranscriptomicsExpression of Mouse and Human Sense-Antisense Transcript
Increasing numbers of sense–antisense transcripts (SATs), which are transcribed from the same chromosomal location but in opposite directions, have been identified in various eukaryotic species, but the biological meanings of most SATs remain unclear. To improve understanding of natural sense–an...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-9581 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of S. cerevisiae and S. pastorianus harvested after 0, 6, 24, and 48 hrs of fermentation
S. cerevisiae S288C and S. pastorianus KBY011 were fermented at 20C for 48 hrs, respectively. The difference of transcription profiling between them was examined using samples harvested at 0, 6, 24, and 48 hrs during fermentation.
ORGANISM(S): Saccharomyces pastorianus 
2008-03-15 | E-MEXP-1086 | biostudies-arrayexpress
ProteomicsRice (Oryza sativa) proteome
Here, we present OryzaPG-DB, a rice proteome database based on shotgun proteogenomics, which incorporates the genomic features of experimental shotgun proteomics data. This version of the database was created from the results of 27 nanoLC-MS/MS runs on a hybrid ion trap-orbitrap mass spectrometer, w...
ORGANISM(S): Oryza Sativa 
2016-07-20 | PXD004603 | JPOST Repository
ProteomicsMass Spectrometry-compatible Subcellular Fractionation
We developed a mass spectrometry-compatible subcellular fractionation protocol. This method involves separating cells into cytoplasmic, organellar, and nuclear fractions without ultracentrifugation.
ORGANISM(S): Homo Sapiens (human) 
2019-11-15 | PXD013581 | JPOST Repository
ProteomicsOne-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale.
We successfully identified the proteome expressed in Escherichia coli (E. coli) cells on a microarray scale using one-dimensional capillary liquid chromatography-tandem mass spectrometry (LC-MS/MS) with a 350 cm long, 100 microm i. d., monolithic silica-C(18) capillary column. E. coli tryptic digest...
ORGANISM(S): Escherichia Coli 
2016-07-20 | PXD004605 | JPOST Repository
ProteomicsOrb-weaver spider (Nephila pilipes) dragline silk proteome
Proteome analysis of Nephila pilipes (family Araneidae) dragline silk
ORGANISM(S): Nephila Pilipes 
2021-07-21 | PXD024371 | JPOST Repository
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