List of omics topics in biology

Inspired by the terms genome and genomics, other words to describe complete biological datasets, mostly sets of biomolecules originating from one organism, have been coined with the suffix -ome and -omics. Some of these terms are related to each other in a hierarchical fashion. For example, the genome contains the ORFeome, which gives rise to the transcriptome, which is translated to the proteome. Other terms are overlapping and refer to the structure and/or function of a subset of proteins (e.g. glycome, kinome).

An omicist is a scientist who studies omeomics, cataloging all the “omics” subfields.[1]

Omics.org is a Wiki that collects and alphabetically lists all the known "omes" and "omics."[2]

List of topics
-omeField of study
(-omics)		Collection ofParent subjectNotes
AllergenomeAllergenomics[3]Proteomics of allergens
BibliomeBibliomicsScientific bibliographic data
TrialomeMedicineHuman interventional trials data from clinical trial registries extended with trial results and links to resulting publications
ConnectomeConnectomicsStructural and functional brain connectivity at different spatiotemporal scalesNeuroscience
CytomeCytomicsCellular systems of an organismCytology
EditomeRNA editing sites
EmbryomeEmbryomicsCell lineages of embryonic cells, genes expressed and antigens present during developmentEmbryology
EnviromeEnviromicsGene related environment factors (envirome)
EpigenomeEpigenomicsEpigenetic modificationsMolecular geneticsEpigenomics is the study of the complete set of epigenetic modifications on the genetic material of a cell, collectively known as the epigenome
Exposome (2005)ExposomicsAn individual's environmental exposures, including in the prenatal environmentMolecular geneticsA proposed term and field of study of the disease-causing effects of environmental factors (the "nurture" component of "nature vs. nurture").[4]
Exposome (2009)Composite occupational exposures and occupational health problemsOccupational safety and healthThe proposers of this term were aware of the previous term as used above but proposed to apply the term to a new field.[5][6]
ExomeExomicsExons in a genomeMolecular Genetics
FoodomeFoodomicsFood and Nutrition issues related to bioactivity, quality, safety and traceability of foods through the application and integration of advanced omics technologies to improve consumer's well-being, health, and confidence.NutritionThe term was first defined in 2009[7]
GenomeGenomics
(Classical genetics)		Genes
(DNA sequences/Chromosomes)		Genetics"Genome" refers to the set of all genes in an organism. However, "genome" was coined decades before it was discovered that most DNA is "non-coding" and not part of a gene; thus, "genome" originally referred to the entire collection of DNA within an organism. Today, both definitions are used, depending on the context.[8]
GlycomeGlycomicsGlycansGlycobiology
Hologenome Hologenomics Genomes of community members (i.e., holobionts) Metagenomics
InterferomeInterferomicsInterferonsImmunologyAlso a database of the same name.
InteractomeInteractomicsAll interactionsThe term "interactomics" is generally not used. Instead, interactomes are considered the study of systems biology.[9][10]
IonomeIonomicsInorganic biomoleculesMolecular Biology
KinomeKinomicsKinasesMolecular BiologyProteins that add a phosphate group
LipidomeLipidomics[11]LipidsBiochemistry
MechanomeMechanomicsThe mechanical systems within an organism
MetabolomeMetabolomicsMetabolitesAll products of a biological reaction (including intermediates)
MetagenomeMetagenomicsGenetic material found in an environmental sampleMolecular BiologyThe genetic material is assumed to contain DNA from multiple organisms and therefore multiple genomes, hence the inclusion of the prefix meta-.
MetallomeMetallomicsMetals and metalloids
MicrobiomemicrobiomicsCollection of microorganisms in another organism such as an animalMicrobiology
ObesidomeObesidomicsObesity related proteinsProteomicsCoined by Pardo et al., 2012.
ORFeomeORFeomicsOpen reading frames (ORFs)Molecular Genetics
OrganomeOrganomicsOrgan interactionsCellular Signalling / Cell Signaling and Tissue EngineeringThe study of crosstalk between organs using physiologically relevant in-vitro models
ParvomeParvomicsSecondary metabolitesBiochemistryCoined by Mark Martin and introduced by Julian Davies in 2008, referring to the Latin parvus for "small", and describing the "humungous microbial world of small (secreted) molecules of great structural diversity".[12] See also [13]
PharmacogeneticsPharmacogeneticsSNPs and their effect on pharmacokinetics and pharmacodynamicsPharmacogenomics
Genomics
PharmacogenomePharmacogenomicsThe effect of changes on the genome on pharmacologyPharmacogenetics
Genomics
PhenomePhenomicsPhenotypesGenetics
PhysiomePhysiomicsPhysiology of an organism
PhytochemomePhytochemomicsPhytochemicalsThe term has been coined by del Castillo et al., 2013, Food Research International, . Phytochemomics is a comprehensive concept aimed to increase the knowledge of phytochemicals' bioactivity which is of growing importance in agricultural, food, medicine and cosmetic sciences
ProteomeProteomicsProteinsMolecular Biology
RegulomeRegulomicsTranscription factors and other molecules involved in the regulation of gene expressionMolecular Biology
ResearchsomeResearch areas covered by an individual researcher or institutionResearchCoined by Ivan Erill at the 2011 EBM meeting[14]
SecretomeSecretomicsSecreted proteinsProteomicsSubset of the proteome consisting of proteins actively exported from cells.[15]
SpeechomeSpeecheomicsInfluences on language acquisitionCoined by the Human Speechome Project[16]
SynthetomeA set of artificial genes in an organism[17]
TranscriptomeTranscriptomicsAll RNA molecules including mRNA, rRNA, tRNA and other ncRNAsMolecular Biology
ToponomeToponomicsCell and tissue structureMolecular Biology
VolatilomeVolatilomicscomplete collection of volatile metabolitesBiomarkers

Hierarchy of topics

For the sake of clarity, some topics are listed more than once.

References
  1. Yadav SP. (2007). "The Wholeness in Suffix -omics, -omes, and the Word Om". J Biomol Tech. 18 (5): 277. PMC 2392988. PMID 18166670.
  3. Yagami T, Haishima Y, Tsuchiya T, Tomitaka-Yagami A, Kano H, Matsunaga K.; Haishima; Tsuchiya; Tomitaka-Yagami; Kano; Matsunaga (2004). "Proteomic analysis of putative latex allergens". Int Arch Allergy Immunol. 135 (1): 3–11. doi:10.1159/000080036. PMID 15286439.CS1 maint: multiple names: authors list (link)
  4. Wild CP (2005). "Complementing the genome with an "exposome": the outstanding challenge of environmental exposure measurement in molecular epidemiology". Cancer Epidemiol. Biomarkers Prev. 14 (8): 1847–50. doi:10.1158/1055-9965.EPI-05-0456. PMID 16103423.
  5. Faisandier, Laurie; De Gaudemaris, Régis; Bicout, Dominique J. (2009). "Occupational Health Problem Network : the Exposome". arXiv:0907.3410 [stat.ME].
  6. Faisandier, Laurie; Bonneterre, Vincent; De Gaudemaris, Régis; Bicout, Dominique J. (2009). "A network-based approach for surveillance of occupational health exposures". arXiv:0907.3355 [stat.ME].
  7. Cifuentes, A. (2009). "Food analysis and Foodomics". Journal of Chromatography A. 1216 (43): 7109. doi:10.1016/j.chroma.2009.09.018. hdl:10261/154212. PMID 19765718.
  8. "genome, n". Oxford English Dictionary. March 2008.
  9. Archived December 2, 2008, at the Wayback Machine
  10. Main Page - Interactomics Archived July 6, 2008, at the Wayback Machine
  11. Subramaniam S, Fahy E, Gupta S, Sud M, Byrnes RW, Cotter D, Dinasarapu AR, Maurya MR (2011). "Bioinformatics and Systems Biology of the Lipidome". Chemical Reviews. 111 (10): 6452–6490. doi:10.1021/cr200295k. PMC 3383319. PMID 21939287.
  12. Schaechter M (2014-05-15). "Of Terms in Biology: The Parvome". Small Things Considered. Retrieved 2020-04-21.
  13. Davies J, Ryan KS (2012). "Introducing the parvome: bioactive compounds in the microbial world". ACS Chemical Biology. 7 (2): 252–259. doi:10.1021/cb200337h.
  14. (2011) "15th EBM PROGRAM" Archived 2016-01-26 at the Wayback Machine Evolutionary Biology Meeting at Marseilles'.' Retrieved December 14, 2011.
  15. Dov Greenbaum; Nicholas M. Luscombe; Ronald Jansen; et al. (2001). "Interrelating Different Types of Genomic Data, from Proteome to Secretome: 'Oming in on Function". Genome Research. 11 (9): 1463–1468. doi:10.1101/gr.207401. PMID 11544189.
  16. BBC article on the Speechome Project
  17. Synthetome
  18. Carlson, Scott M.; Gozani, Or (2014-10-09). "Emerging technologies to map the protein methylome". Journal of Molecular Biology. 426 (20): 3350–3362. doi:10.1016/j.jmb.2014.04.024. ISSN 1089-8638. PMC 4177301. PMID 24805349.
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  20. Bouhifd, Mounir; Andersen, Melvin E.; Baghdikian, Christina; Boekelheide, Kim; Crofton, Kevin M.; Fornace, Albert J.; Kleensang, Andre; Li, Henghong; Livi, Carolina (2015-01-01). "The human toxome project". ALTEX. 32 (2): 112–124. doi:10.14573/altex.1502091. ISSN 1868-596X. PMC 4778566. PMID 25742299.
  21. DeFelipe, Javier (2010-11-26). "From the Connectome to the Synaptome: An Epic Love Story". Science. 330 (6008): 1198–1201. Bibcode:2010Sci...330.1198D. doi:10.1126/science.1193378. ISSN 0036-8075. PMID 21109663.
  22. Kopell, Nancy J.; Gritton, Howard J.; Whittington, Miles A.; Kramer, Mark A. (2014-09-17). "Beyond the connectome: the dynome". Neuron. 83 (6): 1319–1328. doi:10.1016/j.neuron.2014.08.016. ISSN 1097-4199. PMC 4169213. PMID 25233314.
  23. Dimitrov, DS (May–Jun 2010). "Therapeutic antibodies, vaccines and antibodyomes". mAbs. 2 (3): 347–56. doi:10.4161/mabs.2.3.11779. PMC 2881260. PMID 20400863.
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