Alexander K K - OmicsDI

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Unknown (5156)
Transcriptomics (290)
Proteomics (215)
Genomics (196)
Models (75)
Metabolomics (46)
Multiomics (6)
Genomic (1)

Organisms

Homo sapiens (383)
Mus musculus (138)
Caenorhabditis elegans (22)
Rattus norvegicus (15)
Drosophila melanogaster (15)
Saccharomyces cerevisiae (11)
Glycine max (9)
Arabidopsis thaliana (9)
Danio rerio (8)
Bos taurus (6)
Streptomyces coelicolor (5)
Escherichia coli str. K-12 substr. MG1655 (4)
Candida albicans (4)
Sus scrofa (4)
Schizosaccharomyces pombe (4)
Streptococcus pyogenes (3)
Zea mays (3)
Metazoa (2)
Cottus (2)
Thalassiosira pseudonana CCMP1335 (2)
Fundulus heteroclitus (2)
Staphylococcus aureus (2)
Mammalia (1)
Tick-borne encephalitis virus (1)
Saponaria officinalis (1)
Coregonus lavaretus (1)
Burkholderia cenocepacia H111 (1)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (1)
Hypomesus transpacificus (1)
Eucalyptus grandis (1)

Organisms

Mus musculus (3)
Kluyveromyces lactis (2)
Aliivibrio salmonicida (1)
pond metagenome (1)
Candida albicans (1)
food fermentation metagenome (1)
lake water metagenome (1)
pig gut metagenome (1)
wastewater metagenome (1)

Repository

biostudies-arrayexpress (353)
pride (152)
EGA (116)
BioModels (73)
MetaboLights (40)
MassIVE (39)
ENA (16)
PAXDB (10)
GNPS (6)
PeptideAtlas (5)
PanoramaPublic (4)
jPOST (3)
LINCS (3)
FAIRDOMHub (2)
iProX (2)
dbGaP (1)
geo (1)

Tissue

Cell culture (32)
Brain (14)
Permanent cell line cell (7)
Epithelial cell (5)
Heart (5)
T cell (4)
Blood (3)
Liver (3)
Skin (3)
Blood cell (2)
Cell suspension culture (2)
Embryo (2)
Esophageal adenocarcinoma cell (2)
Extracellular exosome (2)
Fibroblast (2)
Leaf (2)
Plant cell (2)
Rosette (2)
Stem cell (2)
Stromal cell of bone marrow (2)
Plasma Non-glyco (1)
Astrocyte (1)
Blood platelet (1)
Blood serum (1)
Bone marrow (1)
C2C12 cell (1)
Cardiac muscle cell (1)
Cardiac muscle of left ventricle (1)
FL83B cell (1)
HeLa cell (1)

Disease

Melanoma (4)
Chronic myeloid leukemia (3)
Parkinson's disease (3)
Hypersensitivity reaction type II disease (2)
Breast cancer (2)
Heart failure (2)
Stomach cancer (2)
Vitamin B12 deficiency (1)
Pancreatic tumor (1)
Systemic sclerosis with diffuse scleroderma (1)
ARR1-SRDX (1)
Nevus (1)
Glioblastoma (1)
Prostate carcinoma (1)
Normal (1)
Alexander disease (1)
Alzheimer's disease (1)
Amyotrophic lateral sclerosis (1)
Asthma (1)
Autoimmune disease (1)
Brain glioblastoma multiforme (1)
Cervix carcinoma (1)
Colon cancer (1)
Disease free (1)
Esophagus adenocarcinoma (1)
Malignant neoplasm of ovary (1)
Rheumatoid arthritis (1)
Severe acute respiratory syndrome (1)
Synucleinopathy (1)
Type 1 diabetes mellitus (1)

Technology Type

Mass Spectrometry (152)
Shotgun proteomics (76)
Mass spectrometry (32)
Chemical cross-linking coupled with mass spectrometry proteomics (30)
Bottom-up proteomics (23)
Data-independent acquisition (20)
Affinity purification coupled with mass spectrometry proteomics (12)
NMR spectroscopy (6)
Data-dependent acquisition (5)
SRM/MRM (5)
Illumina HiSeq 2000 (4)
Chemiluminescence (3)
ELISA (3)
SWATH MS (3)
Top-down proteomics (3)
Mass spectrometry assay (2)
Gel-based experiment (2)
AB SOLiD 4 System (1)
Affymetrix 6.0, Illumina_670k - Illuminus, Illumina 1.2M (1)
Illumina CytoSNP, Illumina HumanOmni2.5, ILLUMINA, Illumina 450k, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, HiSeq X Ten, Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2000, Illumina HiSeq 2500 (1)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2500, Illumina HiSeq 2000 (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Illumina_Infinium_HumanMethylation450, Illumina_HumanHT-12v4 (1)
DiaPASEF (1)

Instrument Platform

Q Exactive (9)
LTQ Orbitrap Velos (8)
Illumina NovaSeq 6000 (7)
Illumina HiSeq 4000 (6)
Q Exactive HF (6)
Orbitrap Eclipse (6)
TripleTOF 6600 (5)
Illumina MiSeq (4)
Illumina HiSeq 2000 (4)
TSQ Quantiva (4)
Illumina HiSeq 2500 (3)
NextSeq 500 (3)
GenePix 4000A [Axon Instruments] (2)
Illumina HiSeq 1500 (2)
Agilent 7890A GC system, Agilent 5975C MS detector (2)
SYNAPT G2-Si (2)
TSQ Altis (2)
Xevo G2 XS Tof (2)
Xevo G2-XS QTof (2)
MACS (1)
HiSeq 2000 (1)
IScan (Illumina) (1)
HiSeq X Five (1)
BAS-5000 [FUJIFILM] (1)
418 [Affymetrix] (1)
GenePix 4000B [Axon Instruments] (1)
Scanning hardware (1)
MinION (1)
NextSeq 550 (1)
Illumina HiSeq 3000 (1)

Publication Date

2005 (70)
2015 (57)
2012 (48)
2011 (47)
2023 (45)
2013 (42)
2014 (41)
2010 (40)
2022 (35)
2020 (34)
2021 (26)
2024 (25)
2026 (25)
2019 (24)
2025 (23)
2016 (22)
2007 (19)
2018 (18)
2008 (16)
2009 (13)
2017 (11)
2006 (7)
2004 (1)

UNIPROT ID/AC

A0PJJ9 (66)
A0PJK1 (66)
A0S0A7 (66)
A6NFM2 (66)
A8K3J4 (66)
A8K761 (66)
A8K7W0 (66)
A8MU28 (66)
B1AK53 (66)
B1AM93 (66)
B2R6S5 (66)
B2RB13 (66)
B2RD24 (66)
B3KNC1 (66)
B3KXN9 (66)
B4DG68 (66)
B4DIA3 (66)
B4DK61 (66)
B4DKS0 (66)
B4DUG1 (66)
B7Z1R0 (66)
B7Z3W8 (66)
B7Z4Y6 (66)
B7Z792 (66)
C9JT23 (66)
C9JZ62 (66)
D3DX95 (66)
D9HTE9 (66)
E5KNH5 (66)
E5KS60 (66)

ENSEMBL ID

ENSMUSG00000098557 (4)
ENSMUSP00000141097 (4)
ENSMUSG00000021039 (2)
ENSMUSG00000027651 (2)
ENSMUSG00000093896 (2)
ENSMUSG00000094075 (2)
ENSMUSG00000094797 (2)
ENSMUSG00000094930 (2)
ENSMUSG00000095442 (2)
ENSMUSG00000096410 (2)
ENSMUSP00000141542 (2)
ENSMUSP00000141637 (2)
ENSG00000170477 (1)
ENSG00000204131 (1)
ENSMUSG00000072849 (1)
ENSMUSG00000076508 (1)
ENSMUSG00000076532 (1)
ENSMUSG00000076586 (1)
ENSMUSG00000076695 (1)
ENSMUSG00000076731 (1)
ENSMUSG00000093894 (1)
ENSMUSG00000094356 (1)
ENSMUSG00000094502 (1)
ENSMUSG00000094509 (1)
ENSMUSG00000094546 (1)
ENSMUSG00000094652 (1)
ENSMUSG00000094689 (1)
ENSMUSG00000095210 (1)
ENSMUSG00000095416 (1)
ENSMUSG00000095753 (1)

CHEBI ID

CHEBI:15428 (80)
CHEBI:10983 (66)
CHEBI:1148 (66)
CHEBI:11805 (66)
CHEBI:11851 (66)
CHEBI:1296 (66)
CHEBI:13705 (66)
CHEBI:15035 (66)
CHEBI:15343 (66)
CHEBI:15354 (66)
CHEBI:15355 (66)
CHEBI:15361 (66)
CHEBI:15374 (66)
CHEBI:15377 (66)
CHEBI:15379 (66)
CHEBI:15414 (66)
CHEBI:15440 (66)
CHEBI:15467 (66)
CHEBI:15570 (66)
CHEBI:15589 (66)
CHEBI:15603 (66)
CHEBI:15636 (66)
CHEBI:15698 (66)
CHEBI:15699 (66)
CHEBI:15710 (66)
CHEBI:15740 (66)
CHEBI:15748 (66)
CHEBI:15754 (66)
CHEBI:15893 (66)
CHEBI:15901 (66)

Metabolite Name

Glucose (10)
Myo-inositol (8)
4-hydroxybenzoic acid (7)
Alanine (7)
Citric acid (7)
Glyceric acid (7)
Glycerophosphoglycerol (7)
Glycine (7)
Glycolic acid (7)
L-glutamic acid (7)
L-proline (7)
Raffinose (7)
Succinic acid (7)
Valine (7)
1,6-anhydro-beta-D-glucose (6)
2-hydroxypyridine (6)
3-cyano-L-alanine (6)
Azelaic acid (6)
D-(−)-2-methylmalic acid (6)
D-fructose (6)
D-galactonic acid (6)
D-glucopyranose (6)
D-pinitol (6)
D-ribitol (6)
D-saccharic acid (6)
Fumaric acid (6)
Galactinol (6)
Isoleucine (6)
Itaconic acid (6)
L-Tyrosine (6)

First Public Date

2019 (6)
2014 (4)
2018 (3)
2021 (1)
2020 (1)
2016 (1)

Modelling Approach

Ordinary differential equation model (6)
Constraint-based model (1)

Lab affiliation

ETH Zurich, Institute of Molecular Systems Biology, Zurich, Switzerland (12)
Biozentrum, University of Basel, Switzerland (8)
ETH Zurich, Institute of Molecular Systems Biology (6)
Proteomics Core Facility, Biozentrum, University of Basel, Switzerland (6)
Biozentrum, University of Basel, 4056 Basel, Switzerland (3)
Functional Proteomics, ICR (3)
Biozentrum, University of Basel, CH-4056 Basel, Switzerland (2)
Department of Functional Genomics, Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald, Greifswald, Germany (2)
Dr. Alexander Schmidt Proteomics Core Facility Biozentrum, University of Basel Klingelbergstrasse 50/70 CH-4056 Basel / Switzerland (2)
ETH Zurich, Institute of Molecular Biology and Biophysics, Zurich, Switzerland (2)
Faculty of Medicine and University Hospital of Cologne, Institute of Pathology, University of Cologne, Cologne, Germany (2)
IBP RAS (2)
IMP, Vienna Biocenter, Vienna, Austria (2)
Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland (2)
Institute of Physiology II Universität Freiburg Germany (2)
Laboratory of Immune Regulation and Tolerance, Division of Basic Sciences, Medical School, University of Crete (2)
Nanoparticle Systems Engineering Laboratory Department of Mechanical and Process Engineering ETH Zurich, Switzerland (2)
Research Institute of Molecular Pathology, Vienna BioCenter, Vienna, Austria (2)
University of Edinburgh (2)
1. Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands. 2. Netherlands Proteomics Centre, Padualaan 8, 3584 CH Utrecht, The Netherlands. (1)
1. CERVO Brain Research Centre, Quebec Mental Health Institute; Québec, QC, G1E 1T2, Canada. 2. Department of Psychiatry & Neuroscience, Université Laval; Québec, QC, G1V 0A6, Canada. (1)
1Department of Internal Medicine 3, Rheumatology and Immunology, Friedrich-Alexander- University Erlangen-Nürnberg and Universitätsklinikum Erlangen; Erlangen, Germany (1)
1Human Embryonic and Induced Pluripotent Stem Cell Unit, Hellenic Pasteur Institute, Athens, Greece 2Laboratory of Cellular and Molecular Neurobiology-Stem Cells, Hellenic Pasteur Institute, Athens, Greece (1)
AG Alexander Graf Max-Planck-Institut für Molekulare Pflanzenphysiologie Wissenschaftspark Potsdam-Golm Am Mühlenberg 1 14476 Potsdam, Germany (1)
AG Alexander Graf Max-Planck-Institut für Molekulare Pflanzenphysiologie Wissenschaftspark Golm Am Mühlenberg 1 14476 Potsdam, Germany (1)
Alexander Schmidt, Biozentrum, University of Basel Spitalstrasse 41, CH-4056 Basel, Switzerland Tel. +41 61 207 0927, https://www.biozentrum.unibas.ch (1)
Alexander Schmidt, Biozentrum, University of Basel, Spitalstrasse 41, CH-4056 Basel, Switzerland, Tel. +41 61 207 0927, https://www.biozentrum.unibas.ch (1)
Barnett Institute of Chemical and Biological Analysis and Department of Chemistry & Chemical Biology, Northeastern University, Boston, MA, USA. (1)
Barnett Institute of Chemical and Biological Analysis, Department of Chemistry and Chemical Biology, Northeastern University, 360 Huntington Ave., Boston, Massachusetts 02115, United States (1)
Benaki Phytopathological Institute, 8 Stefanou Delta Str., 14561 Athens, Greece. (1)

IsPrivate

False (73)

Model Flag

Non Kinetic (67)

Classification

fungi (1)

Study type

Transcription profiling by array (146)
RNA-seq of coding RNA (62)
ChIP-seq (54)
RNA-seq of non coding RNA (15)
ChIP-chip by array (11)
Cell line - High-throughput sequencing (8)
Comparative genomic hybridization by array (8)
Methylation profiling by high throughput sequencing (7)
ChIP-chip by tiling array (5)
RNA-seq of coding RNA from single cells (5)
Unknown experiment type (4)
Genotyping by array (4)
Methylation profiling by array (4)
Transcription profiling by SAGE (3)
Transcription profiling by tiling array (3)
Transcription profiling by RT-PCR (3)
DNA-seq (3)
RNA-seq of total RNA (2)
RIP-chip by array (1)
Human - High-throughput sequencing (1)
Cell line - One-color microarray (1)
High-throughput sequencing (1)
Other (1)
CUT&RUN (1)

Release Date

2022 (621)
2023 (586)
2025 (568)
2021 (559)
2024 (508)
2020 (403)
2019 (323)
2018 (283)
2016 (257)
2015 (244)
2017 (241)
2014 (180)
2012 (143)
2013 (129)
2011 (123)
2026 (103)
2010 (82)
2009 (55)
2007 (32)
2008 (31)
2005 (12)
2006 (8)
2004 (5)
2003 (3)
2002 (3)
2000 (2)
1998 (2)
2001 (1)
1999 (1)

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Chromatin immunoprecipitation of human erythroleukemia cell line K-562 with H3K4me2, H3K4me3, H3ac, H4ac, Histone H2B and Histone H3 antibodies using an ENCODE array

ENCODE ChIP-chip study using human myelogenous leukemia cell line K-562 and anti histone H3K4me2 (Abcam; ab7766); H3K4me3 (Abcam; ab8580); H3ac (Upstate; 06-599); H4ac (Upstate; 06-866); Histone H2B (Abcam: ab1790) and Histone H3 (Abcam: ab1791) antibodies. Each antibody experiment was conducted in ...

ORGANISM(S): Homo sapiens

2006-09-01 | E-TABM-140 | biostudies-arrayexpress

Multiomics approaches in Alexander disease zebrafish model show correlation between GFAP aggregation, altered lipid metabolism and oxidative stress

In this work we used our zebrafish model of Alexander Desease (AxD), aiming at unraveling the main pathways involved in AxD pathogenesis performing the first multi-omics analysis on a in vivo model of AxD. The obtained results have been functionally validated and they open the way to further investi...

ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio)

2025-03-03 | PXD040214 | Pride

Composition of Rosenthal fibers in Alexander disease patients and mouse models

Alexander disease (AxD) is a fatal neurodegenerative disorder characterized by the presence in astrocytes of protein aggregates called Rosenthal fibers (RFs). In this work, we used a new biochemical fractionation method to enrich for RFs followed by analysis of this fraction using quantitative iTRA...

ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human)

2016-05-23 | PXD002448 | Pride

Alexander disease Rosenthal fibers Itraq 8-plex

The butyrylcholinesterase K variant confers structurally derived risks for Alzheimer pathology.

Not available

S-EPMC2719355 | biostudies-literature

Multi-targeting of K-Ras domains and mutations by peptide and small molecule inhibitors.

Not available

S-EPMC9041843 | biostudies-literature

Targeting Cathepsin K to Accelerate Diabetic Wound Healing.

Not available

S-EPMC12338955 | biostudies-literature