Chi Liang L - OmicsDI

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Transcriptomics (2151)
Genomics (564)
Unknown (189)
Proteomics (3)
Metabolomics (3)

Organisms

Homo sapiens (1000)
Mus musculus (811)
Drosophila melanogaster (115)
Arabidopsis thaliana (106)
Saccharomyces cerevisiae (95)
Rattus norvegicus (66)
Caenorhabditis elegans (40)
Danio rerio (36)
Rhizobium leguminosarum (26)
Schizosaccharomyces pombe (26)
Escherichia coli (15)
Escherichia coli str. K-12 substr. MG1655 (14)
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Repository

biostudies-arrayexpress (2721)
EGA (3)
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pride (2)

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Cell culture (2)
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Disease

Normal (16)
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Mass spectrometry (2)
Affinity purification coupled with mass spectrometry proteomics (2)
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Instrument Platform

Illumina NovaSeq 6000 (130)
Illumina HiSeq 2000 (46)
Illumina HiSeq 4000 (42)
NextSeq 500 (42)
Illumina HiSeq 2500 (33)
NextSeq 2000 (15)
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Illumina Genome Analyzer IIx (7)
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NA (4)
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GenePix 4000B [Axon Instruments] (3)
Ion Torrent Proton (3)
N/A (3)
Illumina HiSeq 1500 (3)
Illumina HiSeq 3000 (3)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (2)
Bio-Rad CFX96 Real-time System (2)
BD LSRFortessa (2)
10X Genomics Chromium (2)
RiboZero (2)
None (2)
Trizol (Invitrogen); FastPrep (MP Biochemicals) (2)
DASGIP bioreactors (2)

Publication Date

2013 (356)
2012 (313)
2010 (308)
2014 (300)
2011 (281)
2015 (248)
2016 (163)
2008 (127)
2009 (119)
2007 (68)
2025 (66)
2026 (56)
2021 (47)
2022 (41)
2020 (34)
2006 (33)
2024 (32)
2018 (30)
2023 (28)
2017 (25)
2005 (24)
2019 (15)
2004 (12)

CHEBI ID

CHEBI:10432 (2)
CHEBI:11060 (2)
CHEBI:116314 (2)
CHEBI:132244 (2)
CHEBI:15355 (2)
CHEBI:15365 (2)
CHEBI:15396 (2)
CHEBI:15702 (2)
CHEBI:15714 (2)
CHEBI:15728 (2)
CHEBI:15824 (2)
CHEBI:15843 (2)
CHEBI:15887 (2)
CHEBI:15971 (2)
CHEBI:16027 (2)
CHEBI:16112 (2)
CHEBI:16119 (2)
CHEBI:16164 (2)
CHEBI:16220 (2)
CHEBI:16259 (2)
CHEBI:16335 (2)
CHEBI:16424 (2)
CHEBI:16521 (2)
CHEBI:16547 (2)
CHEBI:16551 (2)
CHEBI:16610 (2)
CHEBI:16634 (2)
CHEBI:16643 (2)
CHEBI:16691 (2)
CHEBI:16704 (2)

Metabolite Name

Acetylcholine (2)
Adenine (2)
Adenosine (2)
Aspirin (2)
Biocytin (2)
Coniferin (2)
Eriodictyol (2)
Galactitol (2)
Hesperetin (2)
Inosine (2)
Kaempferol (2)
Kanosamine (2)
Marmesin (2)
Methyl cinnamate (2)
Quercitrin (2)
Spermidine (2)
Syringic acid (2)
Thiamine (2)
Thymidine (2)
(+)-(s)-carvone (1)
(+)-Bornane-2,5-dione (1)
(+)-Camphor (1)
(+)-Columbianetin (1)
(+)-ar-turmerone (1)
(+)-catechin (hydrate) (1)
(+)-exo-5-Hydroxycamphor (1)
(+/-)-c75 (1)
(+/-)-cannabichromeorcin (1)
(+/-)-cp 47,497-c7-hydroxy metabolite (1)
(-)-Epicatechin (1)

Study type

Transcription profiling by array (1242)
ChIP-seq (540)
ChIP-chip by tiling array (206)
RNA-seq of coding RNA from single cells (168)
RNA-seq of coding RNA (148)
ChIP-chip by array (90)
Comparative genomic hybridization by array (82)
Methylation profiling by array (47)
Other (27)
Genotyping by array (24)
Unknown experiment type (19)
RNA-seq of non coding RNA (17)
Methylation profiling by high throughput sequencing (15)
Transcription profiling by tiling array (12)
MicroRNA profiling by array (8)
Cell line - High-throughput sequencing (7)
RNAi profiling by array (7)
Animal - Single-cell sequencing (6)
High-throughput sequencing (6)
Single nucleus RNA sequencing (6)
DNA-seq (6)
Differential (4)
Animal - High-throughput sequencing (4)
Human - High-throughput sequencing (3)
Human - Single-cell sequencing (2)
ATAC-seq (2)
ScATAC-seq (2)
RNA-seq of total RNA (2)
ChIP-chip by SNP array (1)
RNA-seq of non coding RNA from single cells (1)

Release Date

2013 (363)
2012 (314)
2010 (309)
2014 (302)
2011 (285)
2015 (252)
2016 (173)
2008 (127)
2009 (119)
2025 (104)
2021 (74)
2007 (68)
2023 (61)
2026 (60)
2022 (60)
2024 (46)
2020 (41)
2006 (33)
2017 (30)
2018 (29)
2019 (24)
2005 (24)
2004 (12)

Lab affiliation

2The Key Laboratory of Integrated Crop Pest Management of Shandong Province, College of Agronomy and Plant Protection, Qingdao Agricultural University, Qingdao 266109, China (1)
Sun Yat-Sen University (1)

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CHiCAGO: Robust Detection of DNA Looping Interactions in Capture Hi-C data

Capture Hi-C (CHi-C) is a state-of-the art method for profiling chromosomal interactions involving targeted regions of interest (such as gene promoters) globally and at high resolution. Signal detection in CHi-C data involves a number of statistical challenges that are not observed when using other ...

ORGANISM(S): Mus musculus

2016-05-18 | E-GEOD-81503 | biostudies-arrayexpress

Transcriptome-wide discovery of microRNA binding sites in human brain by Ago2 HITS-CLIP [Ago2-miRNA-target mRNA complexes]

Here, seeking to gain insight into the array of transcripts engaged with miRNAs in human brain, we performed HITS-CLIP to profile transcriptome-wide Ago2:RNA interactions in a panel of eleven post-mortem adult human brain samples harvested from adult motor cortex and cingulate gyrus, regions associa...

ORGANISM(S): Homo sapiens

2014-01-03 | E-GEOD-52082 | biostudies-arrayexpress

Transcriptome-wide discovery of microRNA binding sites in human brain by Ago2 HITS-CLIP [Ago2-miRNA complexes]

ORGANISM(S): Homo sapiens

2014-01-03 | E-GEOD-52083 | biostudies-arrayexpress

Transcription profiling time series of S. aureus grown in mixed culture with L. lactis

the transcriptomic profile of S. aureus during mixed cultures with L. lactis was established on chemically defined medium at constant pH (6.6).

ORGANISM(S): Staphylococcus aureus

2009-05-13 | E-MEXP-1837 | biostudies-arrayexpress

Effect of Mixed Strains on Microbial Community and Flavor Metabolites in Fermentation Process of Chi-Flavor Baijiu.

Not available

S-EPMC11545386 | biostudies-literature

Chi-miR-370-3p regulates hair follicle morphogenesis of Inner Mongolian cashmere goats.

Not available

S-EPMC8104936 | biostudies-literature

Mediator Complex Regulates Alternative mRNA Processing via the Med23 Subunit

Mediator complex is an integrative hub for transcriptional regulation. Here we show that Mediator regulates alternative mRNA processing via its Med23 subunit. Combining tandem affinity purification and mass spectrometry, we identified a number of mRNA processing factors that bind to a soluble recomb...

ORGANISM(S): Homo sapiens

2012-02-24 | E-GEOD-33887 | biostudies-arrayexpress

Tai Chi for improving balance and reducing falls: A protocol of systematic review and meta-analysis.

Not available

S-EPMC6831220 | biostudies-literature

Trends and associated factors of HIV, HCV and syphilis infection among different drug users in the China-Vietnam border area: an 11-year cross-sectional study (2010-2020).

Not available

S-EPMC10478360 | biostudies-literature

Smooth Muscle Cells

This set contains 68 arrays of two series of experiments. 60 arrays are used to profile the heterogeneity of SMCs from different anatomic locations. 8 arrays are used to profile the change of gene expression of vascular smooth muscle cells upon serum exposure. An all pairs experiment design type is ...

ORGANISM(S): Homo sapiens

2007-09-27 | E-GEOD-7195 | biostudies-arrayexpress

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2918 Results

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