M S N Prasad P - OmicsDI

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Unknown (593)
Proteomics (95)
Transcriptomics (41)
Metabolomics (14)
Genomics (4)
Models (2)
Other (1)
Multiomics (1)

Organisms

Homo sapiens (61)
Mus musculus (6)
Danio rerio (4)
Bacteria (4)
Euglena gracilis (3)
Bombyx mori (2)
Schizosaccharomyces pombe (2)
Caenorhabditis elegans (2)
Drosophila melanogaster (2)
Bos indicus (2)
Bos taurus (2)
Mycobacteroides abscessus ATCC 19977 (2)
Rattus norvegicus (2)
Bradyrhizobium japonicum (1)
Saccharomyces cerevisiae (1)
Candida albicans (1)
Acyrthosiphon pisum (1)
Leishmania donovani (1)
Leishmania donovani BPK282A1 (1)
Mycobacterium avium subsp. paratuberculosis ATCC 19698 (1)
Mycobacterium intracellulare ATCC 13950 (1)
Mycobacterium kansasii ATCC 12478 (1)
Mycobacterium tuberculosis (1)
Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841 = JCM 6387 (1)
Mycolicibacterium smegmatis (1)
Oryza sativa (1)
Plasmodium falciparum (1)
Plasmodium falciparum 3D7 (1)
Plasmodium yoelii yoelii 17XNL (1)
Santalum album (1)

Repository

pride (56)
biostudies-arrayexpress (44)
PeptideAtlas (18)
PAXDB (15)
MetaboLights (13)
MassIVE (4)
BioModels (2)
EGA (2)
GNPS (1)
GPMDB (1)
ENA (1)

Tissue

Brain (5)
Cell culture (3)
Kidney (3)
Liver (3)
Retina (3)
Blood (2)
Blood serum (2)
Colon (2)
Oral epithelium (2)
Placenta (2)
Testis (2)
Adenohypophysis (1)
Adipose tissue (1)
Adrenal gland (1)
B-lymphocyte (1)
Blood plasma (1)
Blood platelet (1)
Cell (1)
Cytotoxic T-lymphocyte (1)
Diploid cell (1)
Epithelial cell (1)
Epithelium of gall bladder (1)
Erythroid progenitor cell (1)
Esophagus (1)
Eukaryotic cell (1)
Eye (1)
Eye trabecular meshwork (1)
Frontal lobe (1)
Fruit (1)
HUVEC cell (1)

Disease

Disease free (3)
Retinoblastoma (2)
Not Available (1)
Beta thalassemia (1)
Colorectal cancer (1)
Glaucoma (1)
Head and neck squamous cell carcinoma (1)
Hepatitis C (1)
Leishmaniasis (1)
Major depressive disorder (1)
Malaria (1)
Oral cavity cancer (1)
Oral squamous cell carcinoma (1)
Sickle cell anemia (1)
Tuberculosis (1)
Visceral leishmaniasis (1)

Technology Type

Mass Spectrometry (56)
Shotgun proteomics (45)
Mass spectrometry (13)
Bottom-up proteomics (4)
Data-independent acquisition (4)
SWATH MS (2)
Illumina HiSeq 2500, Illumina HiSeq 2000 (1)
Proteogenomics (1)

Instrument Platform

Agilent Q-ToF (15)
LTQ Orbitrap Velos (5)
Liquid Chromatography MS - positive - reverse phase (5)
Liquid Chromatography MS - negative - reverse phase (4)
Illumina HiSeq 4000 (2)
LTQ Orbitrap Elite (2)
Liquid Chromatography MS - negative - direct infusion (2)
Liquid Chromatography MS - negative - hilic (2)
GenePix 4000A [Axon Instruments] (1)
Illumina NovaSeq 6000 (1)
Illumina HiSeq 2000 (1)
LTQ FT (1)
MaXis (1)
Instrument (1)
Orbitrap Fusion (1)
Q Exactive (1)
Diode array detection MS - (1)
Direct infusion MS - positive (1)
Liquid Chromatography MS - (1)
Liquid Chromatography MS - - hilic (1)
Liquid Chromatography MS - HILIC (1)
Liquid Chromatography MS - alternating - direct infusion (1)
Liquid Chromatography MS - positive - hilic (1)
Liquid Chromatography MS – HILIC (1)

Publication Date

2014 (36)
2024 (18)
2021 (15)
2011 (15)
2019 (11)
2022 (9)
2016 (7)
2023 (6)
2015 (6)
2026 (5)
2010 (4)
2018 (4)
2025 (4)
2013 (3)
2012 (3)
2008 (2)
2017 (2)
2007 (1)
2006 (1)
2020 (1)

UNIPROT ID/AC

143BA_DANRE (15)
143BB_DANRE (15)
143G1_DANRE (15)
7955.ENSDARP00000023429 (15)
7955.ENSDARP00000067603 (15)
7955.ENSDARP00000067945 (15)
7955.ENSDARP00000082327 (15)
7955.ENSDARP00000093747 (15)
7955.ENSDARP00000093780 (15)
7955.ENSDARP00000093791 (15)
7955.ENSDARP00000093801 (15)
7955.ENSDARP00000096295 (15)
7955.ENSDARP00000096352 (15)
7955.ENSDARP00000098342 (15)
7955.ENSDARP00000098726 (15)
7955.ENSDARP00000099550 (15)
7955.ENSDARP00000100434 (15)
7955.ENSDARP00000101311 (15)
7955.ENSDARP00000101467 (15)
7955.ENSDARP00000101525 (15)
7955.ENSDARP00000101862 (15)
7955.ENSDARP00000102682 (15)
7955.ENSDARP00000102749 (15)
7955.ENSDARP00000102775 (15)
7955.ENSDARP00000103208 (15)
7955.ENSDARP00000103318 (15)
7955.ENSDARP00000103819 (15)
7955.ENSDARP00000104168 (15)
7955.ENSDARP00000104379 (15)
7955.ENSDARP00000104630 (15)

ENSEMBL ID

ENSDARG00000000103 (17)
ENSDARG00000001431 (17)
ENSDARG00000001915 (17)
ENSDARG00000001950 (17)
ENSDARG00000001993 (17)
ENSDARG00000002480 (17)
ENSDARG00000005039 (17)
ENSDARG00000005560 (17)
ENSDARG00000005791 (17)
ENSDARG00000006399 (17)
ENSDARG00000007219 (17)
ENSDARG00000009285 (17)
ENSDARG00000009484 (17)
ENSDARG00000010149 (17)
ENSDARG00000013078 (17)
ENSDARG00000016301 (17)
ENSDARG00000016393 (17)
ENSDARG00000017014 (17)
ENSDARG00000017624 (17)
ENSDARG00000018404 (17)
ENSDARG00000021124 (17)
ENSDARG00000022767 (17)
ENSDARG00000023323 (17)
ENSDARG00000025012 (17)
ENSDARG00000025301 (17)
ENSDARG00000025350 (17)
ENSDARG00000025635 (17)
ENSDARG00000027355 (17)
ENSDARG00000029406 (17)
ENSDARG00000031164 (17)

CHEBI ID

CHEBI:17596 (5)
CHEBI:30797 (5)
CHEBI:15346 (4)
CHEBI:15351 (4)
CHEBI:15428 (4)
CHEBI:15891 (4)
CHEBI:16335 (4)
CHEBI:16750 (4)
CHEBI:17368 (4)
CHEBI:17562 (4)
CHEBI:17568 (4)
CHEBI:134548 (3)
CHEBI:138560 (3)
CHEBI:15422 (3)
CHEBI:15468 (3)
CHEBI:15713 (3)
CHEBI:15727 (3)
CHEBI:15741 (3)
CHEBI:15751 (3)
CHEBI:15760 (3)
CHEBI:15971 (3)
CHEBI:16027 (3)
CHEBI:16040 (3)
CHEBI:16108 (3)
CHEBI:16235 (3)
CHEBI:16311 (3)
CHEBI:16450 (3)
CHEBI:16467 (3)
CHEBI:16474 (3)
CHEBI:165591 (3)

Metabolite Name

Purine (3)
1,1,1-Trichloroethane (2)
1,3,5-Trithiane (2)
1,3-Diaminopropane (2)
1,3-Diphenylpropane (2)
10Z-Nonadecenoic acid (2)
2,2',4,4',5,6'-Hexabromodiphenyl ether (2)
2-Hexaprenyl-6-methoxyphenol (2)
2-Hydroxyestradiol-3-methyl ether (2)
3-(4-Hydroxy-3,5-diiodophenyl)lactic acid (2)
3-Iodothyronamine (2)
3-Methoxytyramine (2)
3-Oxotetradecanoyl-CoA (2)
3-Phosphoadenylylselenate (2)
3H-1,2-Dithiole-3-thione (2)
5-Chloroorsellinic acid (2)
5-Diphosphoinositol pentakisphosphate (2)
5-Methylthioribose (2)
7,8-Diaminononanoate (2)
Acarbose (2)
Acetoacetyl-CoA (2)
Acetyl-CoA (2)
Acrylamide (2)
Acrylyl-CoA (2)
Adenosine (2)
Adrenorphin (2)
Agmatine (2)
Alfentanil (2)
Aluminium octadecanoate (2)
Amantadine (2)

IsPrivate

False (2)

Submitter Keywords

Machine Learning Model (2)
FAIR-AIML (1)

First Public Date

2023 (1)

Modelling Approach

Computational model (1)
Random forest procedure (1)

Study type

Transcription profiling by array (17)
Comparative genomic hybridization by array (8)
RNA-seq of coding RNA (7)
Genotyping by array (4)
Unknown experiment type (1)
ChIP-chip by tiling array (1)
Cell line - High-throughput sequencing (1)
Proteomic profiling by mass spectrometer (1)
Transcription profiling by tiling array (1)
Antigen profiling (1)
ChIP-seq (1)
RNA-seq of non coding RNA (1)

Release Date

2025 (83)
2022 (79)
2024 (72)
2021 (65)
2020 (58)
2023 (55)
2018 (40)
2019 (29)
2016 (26)
2015 (24)
2017 (24)
2011 (18)
2014 (15)
2013 (13)
2026 (9)
2010 (8)
2008 (6)
2012 (5)
2006 (3)
2009 (3)
2007 (1)
2002 (1)

Lab affiliation

Professor and Deputy Director, Center for Systems Biology and Molecular Medicine, Yenepoya Research Centre, Yenepoya (Deemed to be University), University Road, Deralakatte, Mangalore 575018, India (6)
Center for Systems Biology and Molecular Medicine Yenepoya Research Centre Yenepoya (Deemed to be University) University Road, Deralakatte Mangalore 575018, India (3)
Centre for Ocular Regeneration (CORE), Prof. Brien Holden Eye Research Centre (BHERC), L V Prasad Eye Institute, Hyderabad, Telangana, India (2)
McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland 21205 USA (2)
Professor and Deputy Director Center for systems biology and molecular medicine Yenepoya Research Center Yenepoya (Deemed to be University) Mangalore, India (2)
733 N. Broadway Room 527, Miller Research Building Baltimore MD 21205 USA (1)
Associate professor Department of Biotechnology National Institute of Pharmaceutical Education and Research, Hajipur, Bihar-844102 (1)
CSIR-Institute of Genomics and Integrative Biology, New Delhi (1)
Cell Biophysics, Nencki Institute, Warsaw, Poland (1)
Center for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya (Deemed to be University), Mangalore, India (1)
Center for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya(Deemed to be University) (1)
Center for Systems Biology and Molecular Medicine, Yenepoya Research Centre, Yenepoya (Deemed to be University), Mangalore, India (1)
Chair of Proteomics and Bioanalytics, Technische Universitaet Muenchen (1)
College of Pharmacy and Pharmaceutical Sciences, Washington State University, Spokane, WA 99202, USA (1)
Department of Anaesthesia and Intensive Care, Post Graduate Institute of Medical Education and Research, Chandigarh 160012, India. (1)
Department of Infectious Diseases, Molecular Virology, Heidelberg University, Heidelberg, Germany (1)
Department of Molecular Microbiology, Washington University School of Medicine (1)
Department of Nanotechnology, Vision Research Foundation, Sankara Nethralaya, 18-college Road, Nungambakkam, Chennai 600006 India (1)
Dept of pathology, Vision research foundation, Chennai, India (1)
Dr. Sailaja V Elchuri,Department of Nanotechnology, VisionResearch Foundation, Sankara Nethralaya, 18-college Road, Nungambakkam, Chennai 600006 India (1)
Faculty Scientist, Institute of Bioinformatics, Bangalore, India (1)
Institue of Bioinformatics Discoverer Building, 7th Floor International Tech Park Whitefield, Bangalore - 560 066 Karnataka, India. (1)
Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997-0017, Japan (1)
Institute of Bioinformatics , International Technology Park, Bangalore, India (1)
Institute of Bioinformatics, 7th floor, Discoverer building, International Tech Park, Bangalore 560 066, India (1)
Institute of Bioinformatics, Discoverer-7th Floor, Unit-1, International Technology Park, Whitefield, Bangalore - 560066, India (1)
Institute of Bioinformatics, International Tech Park, Bangalore 560066, India (1)
Institute of Bioinformatics, International Technology Park, Bangalore-560066, India (1)
Institute of Bioinformatics, Unit 1, 7th floor, Discoverer building, ITPL, Whitefield, Bangalore - 560066, Karnataka, India (1)
LV Prasad Eye Institute,MTC campus, Patia,Bhubaneswar, India (1)

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CHD1 remodelers space nucleosomes in vitro and link regular arrays to 5M-bM-^@M-^Y ends of genes in S. Pombe

Nucleosome positioning governs access to eukaryotic genomes. Many genes show a stereotypic organisation at their 5M-bM-^@M-^Y end: a nucleosome free region just upstream of the transcription start site (TSS) followed by a regular nucleosomal array over the coding region. The determinants for this pe...

ORGANISM(S): Schizosaccharomyces pombe

2012-10-11 | E-GEOD-41024 | biostudies-arrayexpress

A Comparative Proteomic Analysis of Whey Protein from Early, Mid and Late Lactation Stages of Indian Indigenous Breed, MalnadGidda (Bosindicus)

Different lactation stages have marked influence on milk yield, milk constituents and nourishment of the neonates. However, the differential gene expression during different lactation stages in Bosindicus has not been investigated so far. In this study, we carried out high-resolution mass spectromet...

ORGANISM(S): Bos indicus

2018-02-16 | PXD007655 | Pride

Reanalysis of Data-dependent acquisition based proteomic datasets of Mycobacterium abscessus

Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium abscessus is essential. Therefore, we carried out reanalysis of publicly available M. abscessus proteomic dataset MSV000085363, PXD015680 and PXD...

ORGANISM(S): Mycobacterium abscessus (strain ATCC 19977 / DSM 44196 / CIP 104536 / JCM 13569 / NCTC 13031 / TMC 1543)

2024-03-07 | PXD045930 | Pride

M. abscessus Proteomics Non-tuberculous mycobacteria Lc-ms/ms

Data-dependent acquisition based proteomic analysis of Mycobacterium kansasii ATCC 12478

Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium kansasii is essential. Therefore, we carried out an in-depth global proteomic experiment using M. kansasii ATCC 12478 strain followed by proteome...

ORGANISM(S): Mycobacterium kansasii ATCC 12478

2024-03-07 | PXD040523 | Pride

Mycobacterium kansasii Non-tuberculous mycobacteria Dda Lc-ms/ms

Data-dependent acquisition based proteomic analysis of Mycobacterium abscessus ATCC 19977

Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium abscessus is essential. Therefore, we carried out an in-depth global proteomic experiment using M. abscessus ATCC 19977 strain followed by proteo...

ORGANISM(S): Mycobacterium abscessus (strain ATCC 19977 / DSM 44196 / CIP 104536 / JCM 13569 / NCTC 13031 / TMC 1543) Bacteria

2024-03-07 | PXD040615 | Pride

Mycobacterium abscessus Non-tuberculous mycobacteria Dda Lc-ms/ms

Data-dependent acquisition based proteomic analysis of Mycobacterium intracellulare ATCC 13950

Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium intracellulare is essential. Therefore, we carried out an in-depth global proteomic experiment using M. intracellulare ATCC 13950 strain followed...

ORGANISM(S): Mycobacterium intracellulare ATCC 13950 Bacteria

2024-03-07 | PXD040549 | Pride

Mycobacterium intracellulare Non-tuberculous mycobacteria Dda Lc-ms/ms

Reanalysis of Data-dependent acquisition based proteomic datasets of Mycobacterium avium subsp. paratuberculosis, Mycobacterium marinum and Mycobacterium vaccae

Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium avium subsp. paratuberculosis, Mycobacterium marinum and Mycobacterium vaccae is essential. Therefore, we carried out reanalysis of publicly avai...

ORGANISM(S): Acyrthosiphon pisum (Pea aphid)

2024-03-07 | PXD045965 | Pride

M. marinum M.vaccae Proteomics Non-tuberculous mycobacteria M. avium Lc-ms/ms

Identifying transcription start sites and active enhancer elements using BruUV-seq

BruUV-seq utilizes UV light to introduce transcription-blocking DNA lesions randomly in the genome prior to bromouridine-labeling and deep sequencing of nascent RNA. By inhibiting transcription elongation, but not initiation, pre-treatment with UV light leads to a redistribution of transcription rea...

ORGANISM(S): Homo sapiens

2015-12-21 | E-GEOD-75398 | biostudies-arrayexpress

Occurrence of overlooked zoonotic tuberculosis: detection of Mycobacterium bovis in human cerebrospinal fluid.

Not available

S-EPMC1448613 | biostudies-literature

Genome-Wide Transcriptional Effects of the Anti-Cancer Agent Camptothecin

The anti-cancer drug camptothecin inhibits replication and transcription by trapping DNA topoisomerase I (Top1) covalently to DNA in a M-bM-^@M-^\cleavable complexM-bM-^@M-^]. To examine the effects of camptothecin on RNA synthesis genome-wide we used Bru-Seq and show that camptothecin treatment aff...