lineage 7 - OmicsDI

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Unknown (2488)
Transcriptomics (1677)
Genomics (1187)
Other (143)
Proteomics (141)
Metabolomics (21)
Methylation profiling (13)
Models (2)
Genomic (1)
Clinical (1)
Multiomics (1)

Organisms

Mus musculus (1226)
Homo sapiens (748)
Rattus norvegicus (31)
Danio rerio (19)
Arabidopsis thaliana (13)
Drosophila melanogaster (13)
Staphylococcus aureus (13)
Gallus gallus (7)
Macaca mulatta (5)
Bos taurus (5)
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Pan troglodytes (4)
Schmidtea mediterranea (3)
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Caenorhabditis elegans (3)
Saccharomyces cerevisiae (3)
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Toxoplasma gondii (3)
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Streptococcus agalactiae (2)
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Canis lupus familiaris (2)
Pseudomonas aeruginosa (2)
Ostreococcus tauri (1)
Arabidopsis thaliana x Arabidopsis halleri (1)
Sinorhizobium fredii (1)
Fusarium oxysporum (1)
Cottus (1)

Organisms

Mus musculus (359)
Homo sapiens (235)
Danio rerio (13)
Drosophila melanogaster (7)
Rattus norvegicus (7)
Bos taurus (5)
Mesocricetus auratus (2)
Marchantia polymorpha (2)
Sus scrofa (2)
Mycobacterium tuberculosis (2)
Arabidopsis thaliana (2)
Ectocarpus sp. 7 (1)
Fusarium graminearum GZ3639 (1)
Heliocidaris erythrogramma (1)
Lagopus muta hyperborea (1)
Fusarium graminearum PH-1 (1)
Armillaria ostoyae (1)
Pleurodeles waltl (1)
Campylobacter jejuni subsp. jejuni (1)
Mycobacterium tuberculosis complex (1)
Cavia porcellus (1)
Xenopus laevis (1)
Magallana gigas (1)
Ciona robusta (1)
Colletotrichum fructicola (1)
Ambystoma mexicanum (1)
Oncorhynchus mykiss (1)
Macaca mulatta (1)
Mycobacterium (1)
Candida albicans (1)

Repository

biostudies-arrayexpress (1709)
ENA (754)
geo (405)
pride (118)
MassIVE (78)
GPMDB (62)
EGA (30)
MetaboLights (18)
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EVA (2)
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jPOST (2)
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dbGaP (1)

Tissue

Cell culture (27)
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Stem cell (7)
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Seedling (2)
Arterial system endothelium (1)
B cell (1)
Basal cell (1)
Blood (1)
Blood platelet (1)
Blood serum (1)
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Burkitt lymphoma cell line (1)
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Dermis (1)

Disease

Not Available (62)
Normal (5)
Tuberculosis (4)
Glioblastoma multiforme (3)
Disease free (3)
Megakaryoblastic leukemia (2)
Acute leukemia (2)
Neurofibromatosis 1 (2)
Cytomegalovirus seropositive (1)
Yersinia enterocolitica WAP infected (virulent) (1)
Benign nevi (1)
HIV-associated dementia (1)
LPS-induced acute lung injury (1)
Not applicable (1)
Myeloid neoplasm (1)
Non-metastatic melanoma (1)
Erythroleukemia (1)
Osteosarcoma (1)
Neurofibromatosis type 1 (1)
Patients with LF syndrome and SOS of stage II active disease (1)
The study population will include patients with (1)
Breast cancer (1)
Burkitt lymphoma (1)
COVID-19 (1)
Melanoma (1)
Melanomatosis (1)
Mutational_hotspot (1)
Neuroblastoma (1)
Osteoarthritis (1)
Pancreatic ductal adenocarcinoma (1)

Technology Type

Mass Spectrometry (118)
Shotgun proteomics (65)
Affinity purification coupled with mass spectrometry proteomics (23)
Bottom-up proteomics (21)
Data-dependent acquisition (19)
Mass spectrometry (11)
Mass spectrometry assay (7)
SWATH MS (6)
Data-independent acquisition (5)
Gel-based experiment (3)
Top-down proteomics (3)
Illumina HiSeq 2000 (2)
Illumina HiSeq 4000, ILLUMINA (1)
Illumina OmniQuad 2.5 - CNVpartition (1)
Illumina Genome Analyzer II (1)
Whole Genome Sequencing (1)
NMR spectroscopy (1)
Affinity proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
DiaPASEF (1)

Instrument Platform

Illumina NovaSeq 6000 (79)
Illumina HiSeq 2500 (38)
NextSeq 500 (31)
Illumina HiSeq 2000 (21)
Illumina HiSeq 4000 (21)
NextSeq 550 (9)
Illumina NovaSeq X (6)
Illumina HiSeq 3000 (5)
Illumina Genome Analyzer IIx (4)
Flow Cytometer (4)
Agilent G2565AA and G2565BA Microarray Scanner (3)
Spectronic Helios Alpha UV-Vis spectrophotometer (3)
Illumina Genome Analyzer II (3)
NA (3)
NextSeq 2000 (3)
Illumina HiSeq 1500 (3)
Thermomixer (2)
Sony SH800 (2)
Ultracentrifuge (2)
Ion Torrent Proton (2)
Illumina MiSeq (2)
Illumina DNA Prep sample preparation kits (Illumina Inc., San Diego, CA, USA). Final libraries concentrations and size were assessed with Quant-IT DNA Assay Kit and Agilent 4200 Tapestation System (Agilent Technologies, Milan, Italy), (1)
QIAamp DNA minikit, Qiagen, Germany (1)
GeneTitan MultiChannel System (1)
GeneChip Clariom S mouse array cartridge and Affymetrix GeneTitan MultiChannel System (1)
GeneChip Pico Kit (Affymetrix/ThermoFisher) (1)
ReliaPrep RNA Miniprep System (Promega) (1)
Adipocyte Progenitor Isolation Kit (Miltenyi Biotec) (1)
Cellranger (1)
FACS BD Aria II & III (1)

Publication Date

2013 (250)
2014 (239)
2015 (233)
2012 (196)
2011 (154)
2016 (150)
2010 (144)
2022 (106)
2008 (100)
2023 (92)
2021 (86)
2020 (83)
2025 (82)
2026 (81)
2019 (66)
2024 (65)
2009 (60)
2018 (46)
2007 (45)
2017 (42)
2005 (11)
2006 (4)
2004 (1)

UNIPROT ID/AC

P92973 (1)
Q9LKL2 (1)

CHEBI ID

CHEBI:15354 (5)
CHEBI:28842 (4)
CHEBI:15741 (4)
CHEBI:7916 (4)
CHEBI:15891 (4)
CHEBI:30915 (4)
CHEBI:17295 (4)
CHEBI:25351 (3)
CHEBI:741548 (3)
CHEBI:17634 (3)
CHEBI:18132 (3)
CHEBI:16856 (3)
CHEBI:30794 (3)
CHEBI:17497 (3)
CHEBI:17154 (3)
CHEBI:17115 (3)
CHEBI:116314 (3)
CHEBI:27248 (3)
CHEBI:18176 (3)
CHEBI:17750 (3)
CHEBI:73024 (3)
CHEBI:16467 (3)
CHEBI:18211 (3)
CHEBI:17084 (3)
CHEBI:48131 (3)
CHEBI:15971 (3)
CHEBI:422 (3)
CHEBI:17053 (3)
CHEBI:25078 (1)
CHEBI:33699 (1)

Metabolite Name

Ethylmalonic acid (4)
Fumaric acid (4)
Citric acid (4)
L-Isoleucine (4)
Glycine (3)
Succinic acid (3)
Palmitoleic acid (3)
Choline (3)
Taurine (3)
4-Hydroxybenzaldehyde (3)
2-Hydroxycaproic acid (3)
Valeric acid (3)
Oleamide (3)
Tyramine (3)
Adenosine (3)
Urocanic acid (3)
Spermidine (3)
N-Acetylserotonin (3)
2-Hydroxycinnamic acid (3)
Suberic acid (3)
Malonic acid (3)
Linoleic acid (3)
Glutaric acid (3)
Creatine (3)
Tryptophan (3)
Hippuric acid (3)
L-Leucine (3)
L-Phenylalanine (3)
3-Phosphoglyceric acid (2)
DHA (2)

First Public Date

2014 (96)
2024 (88)
2023 (83)
2025 (74)
2026 (70)
2020 (64)
2022 (60)
2021 (51)
2019 (48)
2017 (32)
2018 (27)
2016 (22)
2015 (17)
2013 (15)
2012 (6)
2010 (1)

Modelling Approach

Ordinary differential equation model (1)

Study status

Not yet recruiting (1)

Lab affiliation

1. Center for Molecular Medicine Cologne, University of Cologne, Robert-Koch-Str. 21, D- 50931 Cologne, Germany 2. Inst. for Neurophysiology, University of Cologne, Robert-Koch-Str. 39, D-50931 Cologne, Germany 3. CECAD; Cologne Cluster of Excellence in Cellular Stress Responses in Ageing-associated Diseases, University of Cologne, Joseph-Stelzmann-Str. 26, D-50931 Cologne, Germany (3)
Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, 75390, TX, USA (2)
Department of Pharmacology University of North Carolina - Chapel Hill Chapel Hill, NC 27599 (2)
Head, Chair Plant Biotechnology Faculty of Biology University of Freiburg Schaenzlestrasse 1 D-79104 Freiburg Germany (2)
University of Edinburgh (2)
1 Department of Medicine - Western Health, The University of Melbourne, Melbourne, Australia The Australian Institute for Musculoskeletal Science (AIMSS), Western Health, Victoria University and The University of Melbourne, Melbourne, Australia 3 Institute for Health and Sport, Victoria University, Melbourne, Australia (1)
1 Hudson Institute of Medical Research, Clayton, VIC, Australia, 2 Department of Molecular and Translational Sciences, Monash University, Clayton, VIC, Australia (1)
1 Princess Margaret Cancer Centre, University Health Network, Toronto, ON M5G 1L7, Canada 2 Department of Molecular Genetics, University of Toronto, Toronto, ON M5S1A5, Canada (1)
1. Centre for Gene Therapy and Regenerative Medicine, King’s College London, London, UK 2. Department of Internal Medicine III, University Hospital Carl Gustav Carus at the Technische Universität Dresden, Dresden, Germany (1)
1. Faculty of Biology, Technion - Israel Institute of Technology, Haifa 320003, Israel 2. Computer Science Department, Technion - Israel Institute of Technology, Haifa 320003, Israel (1)
1UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, NSW 2052, Australia (1)
1Université Libre de Bruxelles, Laboratory of Stem Cells and Cancer, Brussels B-1070, Belgium. 2WELBIO, Université Libre de Bruxelles, Brussels B-1070, Belgium (1)
Amsterdam UMC location University of Amsterdam, Department of Medical Biochemistry, Amsterdam, the Netherlands. (1)
Assistant Member, Immunology Department St. Jude Children's Research Hospital Memphis, TN USA (1)
Associate Professor Tracy Putoczki The Walter and Eliza Hall Institute of Medical Research Australia (1)
Associate Professor, HSS Reseach Institute, Weill Cornell Medical College, New York (1)
Biochemistry and Molecular Biology, Michael Smith Laboratories, University of British Columbia, Canada (1)
CNIO (1)
Cambridge Institute for Medical Research, University of Cambridge, Hills Road, Cambridge, CB2 0XY, UK (1)
Caris Science Inc (1)
Carnegie Mass Spectrometry Facility (1)
Center for Musculoskeletal Research, Department of Orthopaedics & Rehabilitation, University of Rochester Medical Center, Rochester, NY, 14642 Department of Biomedical Engineering, University of Rochester, Rochester, NY, 14627 (1)
Center for Neuroscience Research, Children's National Hospital, Washington, DC. 20010 USA (1)
Center of Growth Metabolism and Aging, College of Life Sciences, Sichuan University, Chengdu, China. (1)
Centre for Advanced Imaging, the University of Queensland (1)
Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Barcelona, Spain. (1)
Centre for Proteome Research, Dept. Biochemistry & Systems Biology, University of Liverpool, Liverpool, UK (1)
Chair of Proteomics and Bioanalytics, TU Munich (1)
China Medical University (1)
Cutaneous Oncology/Tumor Biology Moffitt Cancer Center Tampa, FL, USA (1)

Keyword

Intestinal microbiota transplantation (1)

IsPrivate

False (1)

Classification

bacteria (5)
fungi (3)
protozoa (1)

Modification

6-dioxaoctanediamine derivatized cysteine (1)
N6 (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (876)
ChIP-seq (269)
RNA-seq of coding RNA (233)
RNA-seq of coding RNA from single cells (81)
Methylation profiling by array (38)
ChIP-chip by tiling array (30)
Methylation profiling by high throughput sequencing (24)
Comparative genomic hybridization by array (21)
Other (16)
RNA-seq of non coding RNA (15)
Unknown experiment type (14)
ChIP-chip by array (10)
DNA-seq (8)
Genotyping by array (6)
ATAC-seq (6)
Cell line - High-throughput sequencing (5)
MicroRNA profiling by array (5)
Human - High-throughput sequencing (4)
Animal - High-throughput sequencing (4)
MicroRNA profiling by high throughput sequencing (4)
Cell line - Single-cell sequencing (3)
Baseline (3)
Differential (3)
Transcription profiling by tiling array (3)
Ribo-seq (3)
Animal - One-color microarray (2)
Animal - Single-cell sequencing (2)
High-throughput sequencing (2)
Transcription profiling by RT-PCR (2)
Hi-C (2)

Release Date

2016 (351)
2014 (350)
2015 (328)
2013 (305)
2012 (256)
2011 (219)
2021 (213)
2022 (212)
2010 (208)
2018 (201)
2025 (175)
2019 (175)
2023 (172)
2017 (171)
2020 (166)
2024 (155)
2008 (128)
2009 (106)
2007 (106)
2026 (53)
2006 (46)
2005 (32)
2004 (15)
2003 (12)
2002 (11)
2001 (10)
2000 (9)
1999 (5)
1998 (5)
1997 (2)

Location

United Kingdom (1)

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Palmitic acid-mediated TLR4/NF-κB activation drives the pathogenicity of hypervirulent Bordetella pertussis MT28 lineage

Whooping cough resurged globally despite the widespread vaccination. A macrolide-resistant (MR) lineage carrying the high-virulence ptxP3 allele, ptxP3 MR-MT28 (MT28), has imposed a substantial burden on pertussis epidemics, while the underlying factors driving its prevalence remain unclear. Thus...

2025-06-21 | MTBLS12625 | MetaboLights

Comparative Proteomic Analysis of the Mycobacterium tuberculosis Lineage 7 Reveals Differentially Abundant Proteins Linked to Slow Growth

Differentially abundant proteins were quantified in the slowly growing Mycobacterium tuberculosis (M. tuberculosis) lineage 7 strains and the M. tuberculosis lineage 4 reference strain H37Rv. Mass spectrometry based proteomic analysis was employed to identify, quantitate and compare the protein pro...

ORGANISM(S): Mycobacterium tuberculosis H37Rv

2017-05-24 | PXD006117 | Pride

Lineage 7 - Ethiopia

Genetic diversity of Lineage 7 isolates in Ethiopia

PRJEB13960 | ENA

Nε- and O-Acetylation in Mycobacterium tuberculosis Lineage 7 is Biased Towards Proteins Involved in Growth, Virulence and Antimicrobial Resistance

Protein acetylation is one of the post-translational modifications (PTMs) involved in regulating a myriad of cellular processes in bacteria. Increasing evidence demonstrates that lysine acetylation is involved in Mycobacterium tuberculosis (Mtb) virulence and pathogenesis. However, previous reports ...

ORGANISM(S): Mycobacterium tuberculosis H37Rv

2018-05-02 | PXD006630 | Pride

Mycobacterium tuberculosis lineage 7 post-translational modifications acetylome nε-acetylation o-acetylation.

Ehtiopia clinical isolates of MTBC Lineage 7

Tuberculosis isolates from patients in Ethiopia that represents a new lineage (Lineage 7)

PRJEB220 | ENA

Expression data from Tcf1 deficient and Tcf1 wildtype cultured bone marrow lymphoid primed progenitors after four days on Notch ligand expressing stroma (OP9-DL4).

Tcf1 is necessary for optimal T lineage development. Tcf1 deficient progenitors fail to initiate the T lineage program in vitro and development is severely defective in vivo. We used microarrays to assess the overal global gene expression differences from Tcf1 wildtype and deficient lymphoid biased ...

ORGANISM(S): Mus musculus

2011-08-03 | E-GEOD-26559 | biostudies-arrayexpress

Expression data from Tcf1-expressing Thy1+CD25+ T lineage cells

We used microarrays to perform a global gene expression analysis in Tcf1-expressing Thy1+CD25+ T lineage cells that develop on OP9 stroma in the absence of Notch1 signals. We compare this to the starting population, LMPP progenitors, and to control expressing T lineage cells that developed on OP9 st...

ORGANISM(S): Mus musculus

2011-08-03 | E-GEOD-26560 | biostudies-arrayexpress

Lineage-Specific Proteomic Signatures in the Mycobacterium Tuberculosis Complex Reveal Differential Abundance of Proteins Involved in Virulence, DNA Repair, CRISPR-Cas, Bioenergetics and Lipid Metabolism

Despite the discovery of Mycobacterium tuberculosis (Mtb) more than 130 years ago, Mtb physiology and the mechanisms of virulence are still not fully understood. The objective of this study was to compare and characterize the differentially abundant protein profiles of modern, pre-modern and ancient...

ORGANISM(S): Mycobacterium tuberculosis

2020-09-01 | PXD020383 | Pride

Proteomics Virulence Esx-3 secretion system Dna repair Mycobacterium tuberculosis lineage 7 Ethiopia

Mutant Huntingtin promotes neuronal death through cell autonomous microglial activation via myeloid lineage- determining factors

Huntington's Disease (HD) is a fatal neurodegenerative disorder caused by an extended polyglutamine repeat in the N-terminus of the huntingtin (Htt) protein. Reactive microglia and elevated cytokine levels are observed in the brains of HD patients, but the extent to which neuroinflammation results f...

ORGANISM(S): Mus musculus

2014-03-02 | E-GEOD-54443 | biostudies-arrayexpress

PU.1 regulates T-lineage gene expression and progression via indirect repression during early T-cell development

The Ets family transcription factor PU.1 is essential for the development and maintenance of several hematopoietic lineages. In the thymus, PU.1 is expressed only in the early ETP/DN1, DN2a and DN2b stages of development. While PU.1 deletion in multipotent precursors leads to a complete block in T-c...

ORGANISM(S): Mus musculus

2015-04-08 | E-GEOD-65344 | biostudies-arrayexpress

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