Knowledge

Transcriptome

Source 📝

1031: 523: 3625: 824: 1043: 1019: 3613: 659:
interest is converted into cDNA. Newer developments in single-cell transcriptomics allow for tissue and sub-cellular localization preservation through cryo-sectioning thin slices of tissues and sequencing the transcriptome in each slice. Another technique allows the visualization of single transcripts under a microscope while preserving the spatial information of each individual cell where they are expressed.
639:. With single-cell transcriptomics, subpopulations of cell types that constitute the tissue of interest are also taken into consideration. This approach allows to identify whether changes in experimental samples are due to phenotypic cellular changes as opposed to proliferation, with which a specific cell type might be overexpressed in the sample. Additionally, when assessing cellular progression through 420:"catalogue all species of transcript, including mRNAs, non-coding RNAs and small RNAs; to determine the transcriptional structure of genes, in terms of their start sites, 5′ and 3′ ends, splicing patterns and other post-transcriptional modifications; and to quantify the changing expression levels of each transcript during development and under different conditions". 801:. Genes involved in cell wall metabolism and cytoskeleton were found to be overexpressed. Transcriptome approaches also allowed to track changes in gene expression through different developmental stages of pollen, ranging from microspore to mature pollen grains; additionally such stages could be compared across species of different plants including 316:
map to a much larger fraction of the genome suggesting that the transcriptome contains spurious transcripts that do not come from genes. Some of these transcripts are known to be non-functional because they map to transcribed pseudogenes or degenerative transposons and viruses. Others map to unidentified regions of the genome that may be junk DNA.
643:, average expression profiles are only able to order cells by time rather than their stage of development and are consequently unable to show trends in gene expression levels specific to certain stages. Single-cell trarnscriptomic techniques have been used to characterize rare cell populations such as 557:
of two colors, usually green and red, for the two groups. The cDNA is spread onto the surface of the microarray where it hybridizes with oligonucleotides on the chip and a laser is used to scan. The fluorescence intensity on each spot of the microarray corresponds to the level of gene expression and
584:
The three main steps of sequencing transcriptomes of any biological samples include RNA purification, the synthesis of an RNA or cDNA library and sequencing the library. The RNA purification process is different for short and long RNAs. This step is usually followed by an assessment of RNA quality,
315:
Gene occupy most of prokaryotic genomes so most of their genomes are transcribed. Many eukaryotic genomes are very large and known genes may take up only a fraction of the genome. In mammals, for example, known genes only account for 40-50% of the genome. Nevertheless, identified transcripts often
658:
Although there are no standardized techniques for single-cell transcriptomics, several steps need to be undertaken. The first step includes cell isolation, which can be performed using low- and high-throughput techniques. This is followed by a qPCR step and then single-cell RNAseq where the RNA of
419:
and alternative transcription among others. Additionally, transcriptome techniques are capable of capturing transcription occurring in a sample at a specific time point, although the content of the transcriptome can change during differentiation. The main aims of transcriptomics are the following:
764:
Transcriptome analyses were used to discover the incidence of antisense transcription, their role in gene expression through interaction with surrounding genes and their abundance in different chromosomes. RNA-seq was also used to show how RNA isoforms, transcripts stemming from the same gene but
851:
based technologies, analysis of the transcriptome allows for an unbiased approach when validating hypotheses experimentally. This approach also allows for the discovery of novel mediators in signaling pathways. As with other -omics based technologies, the transcriptome can be analyzed within the
473:
Transcriptomics is the quantitative science that encompasses the assignment of a list of strings ("reads") to the object ("transcripts" in the genome). To calculate the expression strength, the density of reads corresponding to each object is counted. Initially, transcriptomes were analyzed and
742:
fertilization and embryo transfer (IVT-ET) revealed differences in genetic expression which are associated with higher frequency of adverse perinatal outcomes. Such insight can be used to optimize the practice. Transcriptome analyses can also be used to optimize cryopreservation of oocytes, by
580:
technology; as such it requires only a small amount of RNA and no previous knowledge of the genome. It allows for both qualitative and quantitative analysis of RNA transcripts, the former allowing discovery of new transcripts and the latter a measure of relative quantities for transcripts in a
141:
which can be seen as ome fields studying specific types of RNA transcripts. There are quantifiable and conserved relationships between the Transcriptome and other -omes, and Transcriptomics data can be used effectively to predict other molecular species, such as metabolites. There are numerous
561:
One microarray usually contains enough oligonucleotides to represent all known genes; however, data obtained using microarrays does not provide information about unknown genes. During the 2010s, microarrays were almost completely replaced by next-generation techniques that are based on DNA
201:
and the subsequent increased computational power, it became increasingly efficient and easy to characterize and analyze enormous amount of data. Attempts to characterize the transcriptome became more prominent with the advent of automated DNA sequencing during the 1980s. During the 1990s,
958:
they code for. The number of protein molecules synthesized using a given mRNA molecule as a template is highly dependent on translation-initiation features of the mRNA sequence; in particular, the ability of the translation initiation sequence is a key determinant in the recruiting of
323:. Some scientists claim that if a transcript has not been assigned to a known gene then the default assumption must be that it is junk RNA until it has been shown to be functional. This would mean that much of the transcriptome in species with large genomes is probably junk RNA. (See 585:
with the purpose of avoiding contaminants such as DNA or technical contaminants related to sample processing. RNA quality is measured using UV spectrometry with an absorbance peak of 260 nm. RNA integrity can also be analyzed quantitatively comparing the ratio and intensity of
871:
differs from the transcriptome in that it includes only those RNA molecules found in a specified cell population, and usually includes the amount or concentration of each RNA molecule in addition to the molecular identities. Additionally, the transcritpome also differs from the
178:
to denote all studies conducted on a genome-wide scale in the fields of life sciences and technology. As such, transcriptome and transcriptomics were one of the first words to emerge along with genome and proteome. The first study to present a case of a collection of a
343:/lncRNA: Non-coding RNA transcripts that are more than 200 nucleotides long. Members of this group comprise the largest fraction of the non-coding transcriptome other than introns. It is not known how many of these transcripts are functional and how many are junk RNA. 946:
However, the analysis of relative mRNA expression levels can be complicated by the fact that relatively small changes in mRNA expression can produce large changes in the total amount of the corresponding protein present in the cell. One analysis method, known as
899:). As with transcriptome analyses, the meiome can be studied at a whole-genome level using large-scale transcriptomic techniques. The meiome has been well-characterized in mammal and yeast systems and somewhat less extensively characterized in plants. 500:
There are two general methods of inferring transcriptome sequences. One approach maps sequence reads onto a reference genome, either of the organism itself (whose transcriptome is being studied) or of a closely related species. The other approach,
3134:
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP. (2005). Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
66:
libraries published in the 1980s. Subsequently, the advent of high-throughput technology led to faster and more efficient ways of obtaining data about the transcriptome. Two biological techniques are used to study the transcriptome, namely
593:
reported in the RNA Integrity Number (RIN) score. Since mRNA is the species of interest and it represents only 3% of its total content, the RNA sample should be treated to remove rRNA and tRNA and tissue-specific RNA transcripts.
552:
When performing microarray analyses, mRNA is collected from a control and an experimental sample, the latter usually representative of a disease. The RNA of interest is converted to cDNA to increase its stability and marked with
307:
Almost all functional transcripts are derived from known genes. The only exceptions are a small number of transcripts that might play a direct role in regulating gene expression near the prompters of known genes. (See
906:
consists of all RNA transcripts that continue to be expressed or that start getting re-expressed in internal organs of a dead body 24–48 hours following death. Some genes include those that are inhibited after
681:
fragments. The cDNA fragments are then sequenced using high-throughput sequencing technology and aligned to a reference genome or transcriptome which is then used to create an expression profile of the genes.
3548: 895:, synapse and recombination. Since meiosis in most organisms occurs in a short time period, meiotic transcript profiling is difficult due to the challenge of isolation (or enrichment) of meiotic cells ( 667:
A number of organism-specific transcriptome databases have been constructed and annotated to aid in the identification of genes that are differentially expressed in distinct cell populations.
2369:
Godoy, Patricio; Schmidt-Heck, Wolfgang; Hellwig, Birte; Nell, Patrick; Feuerborn, David; Rahnenführer, Jörg; Kattler, Kathrin; Walter, Jörn; Blüthgen, Nils; G. Hengstler, Jan (5 July 2018).
187:
mRNA was published in 1979. The first seminal study to mention and investigate the transcriptome of an organism was published in 1997 and it described 60,633 transcripts expressed in
617:
is used to convert the RNA templates into cDNA and three priming methods can be used to achieve it, including oligo-DT, using random primers or ligating special adaptor oligos.
730:
is used to understand the molecular mechanisms and signaling pathways controlling early embryonic development, and could theoretically be a powerful tool in making proper
954:
Although microarray studies can reveal the relative amounts of different mRNAs in the cell, levels of mRNA are not directly proportional to the expression level of the
232:(RNA) transcripts present in a given organism or experimental sample. RNA is the main carrier of genetic information that is responsible for the process of converting 330:
The transcriptome includes the transcripts of protein-coding genes (mRNA plus introns) as well as the transcripts of non-coding genes (functional RNAs plus introns).
275:
takes place usually several hundred nuclecotides away from the termination sequence and cleavage takes place. This process occurs in the nucleus of a cell along with
1334:
E Velculescu, Victor; Zhang, Lin; Zhou, Wei; Vogelstein, Jacob; A Basrai, Munira; E Bassett Jr., Douglas; Hieter, Phil; Vogelstein, Bert; W Kinzler, Kenneth (1997).
2009:
Schena, M.; Shalon, D.; Davis, R. W.; Brown, P. O. (20 October 1995). "Quantitative monitoring of gene expression patterns with a complementary DNA microarray".
793:
were sequenced. The protein coding sequences were subsequently compared to infer phylogenetic relationships between plants and to characterize the time of their
2845:
D. Bovill, William; Deveshwar, Priyanka; Kapoor, Sanjay; A. Able, Jason (2009). "Whole genome approaches to identify early meiotic gene candidates in cereals".
435:), the transcriptome can vary with external environmental conditions. Because it includes all mRNA transcripts in the cell, the transcriptome reflects the 597:
The step of library preparation with the aim of producing short cDNA fragments, begins with RNA fragmentation to transcripts in length between 50 and 300
459:
etc.), examines the expression level of RNAs in a given cell population, often focusing on mRNA, but sometimes including others such as tRNAs and sRNAs.
2535:
Transcriptomic biomarkers in safety and risk assessment of chemicals. In Ramesh Gupta, editors:Gupta - Biomarkers in Toxicology, Oxford:Academic Press
2375: 635:. Single-cell RNA sequencing (scRNA-seq) is a recently developed technique that allows the analysis of the transcriptome of single cells, including 758: 103: 408:.) The transcriptome consists of coding regions of mRNA plus non-coding UTRs, introns, non-coding RNAs, and spurious non-functional transcripts. 206:
sequencing was used to identify genes and their fragments. This was followed by techniques such as serial analysis of gene expression (SAGE),
3146:
Laule O, Hirsch-Hoffmann M, Hruz T, Gruissem W, and P Zimmermann. (2006) Web-based analysis of the mouse transcriptome using Genevestigator.
558:
based on the color of the fluorophores selected, it can be determined which of the samples exhibits higher levels of the mRNA of interest.
1933:
Chomczynski P, Sacchi N (April 1987). "Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction".
925:
mapping can be used to complement genomics with transcriptomics; genetic variants at DNA level and gene expression measures at RNA level.
3543: 2792:
Crismani, Wayne; Baumann, Ute; Sutton, Tim; Shirley, Neil; Webster, Tracie; Spangenberg, German; Langridge, Peter; A Able, Jason (2006).
1853: 1448: 508:, uses software to infer transcripts directly from short sequence reads and is used in organisms with genomes that are not sequenced. 291:
to increase their stability before being subsequently taken to the cytoplasm. The mRNA gives rise to proteins through the process of
2982:
Manzoni, Claudia; A Kia, Demis; Vandrovcova, Jana; Hardy, John; W Wood, Nicholas; A Lewis, Patrick; Ferrari, Raffaele (March 2018).
1175:
Cavicchioli, Maria Vittoria; Santorsola, Mariangela; Balboni, Nicola; Mercatelli, Daniele; Giorgi, Federico Manuel (January 2022).
976: 2939:
Javan, G. T.; Can, I.; Finley, S. J.; Soni, S (2015). "The apoptotic thanatotranscriptome associated with the liver of cadavers".
951:, identifies coregulated gene networks rather than individual genes that are up- or down-regulated in different cell populations. 211: 3585: 3160:"Dynamic changes in gene expression during human early embryo development: From fundamental aspects to clinical applications" 3113: 2551: 1972: 1909: 1096: 271:
and aids in the positioning of RNA polymerase at the appropriate start site. To finish the production of the RNA transcript,
797:
in the process of evolution. Transcriptome studies have been used to characterize and quantify gene expression in mature
3270: 2424:"The placental transcriptome of the first-trimester placenta is affected by in vitro fertilization and embryo transfer" 1076: 922: 194: 2890:"Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice" 1504: 1268: 319:
Spurious transcription is very common in eukaryotes, especially those with large genomes that might contain a lot of
673:
is emerging (2013) as the method of choice for measuring transcriptomes of organisms, though the older technique of
1690:
Sverdlov, Eugene (2017). "Transcribed Junk Remains Junk If It Does Not Acquire A Selected Function in Evolution".
3617: 3563: 1066: 915:), it can be referred to as the apoptotic thanatotranscriptome. Analyses of the thanatotranscriptome are used in 355:/miRNA: 19-24 nucleotides (nt) long. Micro RNAs up- or downregulate expression levels of mRNAs by the process of 207: 1293:"Use of a cDNA library for studies on evolution and developmental expression of the chorion multigene families" 677:
is still used. RNA-seq measures the transcription of a specific gene by converting long RNAs into a library of
502: 404:
In the human genome, all genes get transcribed into RNA because that's how the molecular gene is defined. (See
3591: 2099:"Advances in bacterial transcriptome understanding: From overlapping transcription to the excludon concept" 1081: 983: 948: 482: 468: 3507: 2988: 2984:"Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences" 1244: 719:
and requires at least three independent gene expression data from the former cell type and mature cells.
632: 626: 80: 3207:"Processing and transcriptome expansion at the mRNA 3′ end in health and disease: finding the right end" 2689: 1009: 778: 577: 1442:
Govindarajan, Rajeshwar; Duraiyan, Jeyapradha; Kaliyappan, Karunakaran; Palanisamy, Murugesan (2012).
3597: 264: 76: 3651: 3553: 3398: 3330: 1524: 883:
to describe the meiotic transcriptome or the set of RNA transcripts produced during the process of
704: 640: 545:
techniques (also known as DNA chips). Microarrays consist of thin glass layers with spots on which
95: 87: 2888:
Deveshwar, Priyanka; D Bovill, William; Sharma, Rita; A Able, Jason; Kapoor, Sanjay (9 May 2011).
3538: 3410: 2213: 1130: 475: 456: 241: 223: 56: 711:. A pipeline using RNA-seq or gene array data can be used to track genetic changes occurring in 86:
Data obtained from the transcriptome is used in research to gain insight into processes such as
3579: 3495: 3298: 3263: 2473:
Eroglu, Binnur; A. Szurek, Edyta; Schall, Peter; E. Latham, Keith; Eroglu, Ali (6 April 2020).
1245:"Chapter 4 - Omics Tools for the Genome-Wide Analysis of Methylation and Histone Modifications" 964: 738:. Analyses of the transcriptome content of the placenta in the first-trimester of pregnancy in 735: 644: 203: 111: 3158:
Assou, S.; Boumela, I.; Haouzi, D.; Anahory, T.; Dechaud, H.; De Vos, J.; Hamamah, S. (2010).
497:
techniques, followed by its separation from other cellular components and enrichment of mRNA.
411:
Several factors render the content of the transcriptome difficult to establish. These include
55:; it is associated with the process of transcript production during the biological process of 3666: 3558: 3512: 2532:
Szabo, David (2014). "Transcriptomic biomarkers in safety and risk assessment of chemicals".
2152: 1291:
GK, Sim; FC, Kafatos; CW, Jones; MD, Koehler; A, Efstratiadis; T., Maniatis (December 1979).
892: 614: 444: 362: 292: 272: 3318: 3303: 3049: 2647: 2633: 2575:
Drost, Hajk-Georg; Gabel, Alexander; Grosse, Ivo; Quint, Marcel; Grosse, Ivo (2018-05-01).
2486: 2018: 1984: 903: 648: 452: 412: 374: 260: 138: 2794:"Microarray expression analysis of meiosis and microsporogenesis in hexaploid bread wheat" 867:
There are several -ome fields that can be seen as subcategories of the transcriptome. The
8: 3528: 3502: 3360: 3347: 3308: 1056: 880: 427:, or to the specific subset of transcripts present in a particular cell type. Unlike the 368: 340: 99: 3053: 2651: 2490: 2022: 1988: 703:
cells are of particular interest to researchers who seek to understand the processes of
3482: 3293: 3231: 3206: 3184: 3073: 3010: 2983: 2964: 2916: 2889: 2870: 2822: 2793: 2769: 2742: 2718: 2693: 2671: 2609: 2576: 2557: 2543: 2509: 2474: 2450: 2423: 2399: 2370: 2346: 2319: 2292: 2257: 2238: 2184: 2147: 2123: 2098: 2050: 1810: 1783: 1759: 1734: 1715: 1631: 1626: 1599: 1572: 1547: 1472: 1443: 1416: 1389: 1365: 1260: 1211: 1177:"Prediction of Metabolic Profiles from Transcriptomics Data in Human Cancer Cell Lines" 1176: 1152: 1125: 794: 75:, a sequence-based approach. RNA-seq is the preferred method and has been the dominant 1352: 1335: 3533: 3342: 3256: 3236: 3189: 3109: 3077: 3065: 3015: 2956: 2921: 2862: 2827: 2774: 2723: 2663: 2638: 2614: 2596: 2547: 2514: 2455: 2404: 2351: 2297: 2279: 2242: 2230: 2189: 2171: 2128: 2042: 2034: 1950: 1946: 1915: 1905: 1815: 1764: 1707: 1672: 1577: 1500: 1477: 1421: 1357: 1316: 1311: 1292: 1264: 1216: 1198: 1157: 1047: 916: 908: 245: 3159: 2968: 2874: 2675: 2561: 1719: 1635: 1369: 761:
among individuals or to detect evolutionary patterns of transcriptome conservation.
3457: 3452: 3226: 3218: 3179: 3171: 3101: 3057: 3005: 2997: 2948: 2911: 2901: 2854: 2817: 2807: 2764: 2754: 2713: 2705: 2655: 2604: 2588: 2539: 2504: 2494: 2445: 2435: 2394: 2384: 2341: 2331: 2287: 2271: 2222: 2179: 2161: 2118: 2110: 2054: 2026: 1942: 1897: 1858: 1805: 1795: 1754: 1746: 1699: 1662: 1621: 1611: 1567: 1559: 1467: 1457: 1411: 1401: 1347: 1306: 1256: 1206: 1188: 1147: 1139: 781:
was completed in which the transcriptomes of 1,124 plant species from the families
731: 356: 2371:"Assessment of stem cell differentiation based on genome-wide expression profiles" 1750: 911:. If the thanatotranscriptome is related to the process of programmed cell death ( 3472: 3462: 3447: 3383: 2499: 2262: 2030: 1667: 1650: 1616: 1061: 751: 716: 546: 448: 440: 288: 244:; this mRNA is complementary to the strand of DNA it originated from. The enzyme 3034: 765:
with different structures, can produce complex phenotypes from limited genomes.
259:, located upstream (5') of the gene. In eukaryotes, this process is mediated by 3656: 3629: 3467: 3370: 3313: 1901: 1297: 1035: 1023: 708: 674: 526: 517: 494: 486: 324: 280: 276: 249: 198: 91: 68: 32: 28: 3222: 3105: 2952: 2858: 2759: 2709: 2440: 3645: 3442: 3388: 3352: 2600: 2422:
Zhao, L; Zheng, X; Liu, J; Zheng, R; Yang, R; Wang, Y; Sun, L (1 July 2019).
2283: 2175: 2038: 1800: 1462: 1202: 782: 334: 256: 237: 189: 107: 40: 3549:
Matrix-assisted laser desorption ionization-time of flight mass spectrometer
3175: 2906: 2812: 2688: 2659: 2592: 2336: 2166: 443:
at any given time, with the exception of mRNA degradation phenomena such as
3661: 3432: 3393: 3325: 3240: 3193: 3069: 3019: 2960: 2925: 2866: 2831: 2798: 2778: 2727: 2667: 2618: 2518: 2459: 2408: 2389: 2355: 2301: 2234: 2193: 2132: 1819: 1768: 1711: 1703: 1676: 1581: 1481: 1425: 1220: 1161: 857: 727: 602: 392: 378: 346: 309: 284: 2275: 2208: 2046: 1954: 1919: 1361: 860:
but contrary to proteomics, a direct association between a transcript and
549:, known as "probes" are arrayed; each spot contains a known DNA sequence. 255:
In order to initiate its function, RNA polymerase II needs to recognize a
3405: 3337: 3001: 2694:"One thousand plant transcriptomes and the phylogenomics of green plants" 1563: 1406: 1320: 1193: 1091: 1086: 873: 803: 786: 554: 416: 184: 155: 130: 83:
allows tracking of transcript changes over time within individual cells.
3098:
Transcriptome Analysis: Introduction and Examples from the Neurosciences
3061: 2209:"Computational and analytical challenges in single-cell transcriptomics" 1548:"Similar Ratios of Introns to Intergenic Sequence across Animal Genomes" 1441: 522: 236:
into an organism's phenotype. A gene can give rise to a single-stranded
3490: 3437: 3427: 3422: 1071: 861: 853: 836: 790: 712: 652: 610: 606: 542: 386: 126: 2114: 1243:
Jiménez-Chillarón, Josep C.; Díaz, Rubén; Ramón-Krauel, Marta (2014).
1174: 1030: 823: 631:
Transcription can also be studied at the level of individual cells by
36: 3417: 998: 912: 888: 774: 747: 696: 598: 382: 352: 167: 2533: 2226: 1143: 993: 3279: 1018: 988: 960: 940: 934: 896: 840: 832: 636: 432: 424: 423:
The term can be applied to the total set of transcripts in a given
320: 296: 268: 122: 1042: 248:
attaches to the template DNA strand and catalyzes the addition of
3378: 1597: 1242: 955: 884: 812: 670: 590: 586: 571: 490: 478:
libraries and serial and cap analysis of gene expression (SAGE).
72: 3204: 746:
Transcriptomics is an emerging and continually growing field in
2844: 1333: 828: 798: 750:
discovery for use in assessing the safety of drugs or chemical
723: 700: 428: 2472: 2207:
Stegle, Oliver; A. Teichmann, Sarah; C. Marioni, John (2015).
252:
to the 3' end of the growing sequence of the mRNA transcript.
2887: 2475:"Probing lasting cryoinjuries to oocyte-embryo transcriptome" 1896:. Methods in Molecular Biology. Vol. 86. pp. 61–4. 1124:
Wang, Zhong; Gerstein, Mark; Snyder, Michael (January 2009).
943:, that is, the entire set of proteins expressed by a genome. 868: 848: 134: 121:
based biological fields of study; it is complementary to the
118: 16:
Set of all RNA molecules in one cell or a population of cells
3035:"Global quantification of mammalian gene expression control" 2981: 2791: 2368: 2206: 3248: 1892:
Bryant S, Manning DL (1998). "Isolation of messenger RNA".
977:
Transcriptomics technologies § Transcriptome databases
808: 777:
and diversification process of plant species. In 2014, the
678: 436: 405: 180: 63: 2258:"Defining cell types and states with single-cell genomics" 1598:
van Bakel H, Nislow C, Blencowe BJ, and Hughes TR (2011).
431:, which is roughly fixed for a given cell line (excluding 337:/rRNA: Usually the most abundant RNA in the transcriptome. 197:(SAGE). With the rise of high-throughput technologies and 3157: 233: 229: 62:
The early stages of transcriptome annotations began with
24: 2634:"Antisense Transcription in the Mammalian Transcriptome" 1735:"Spurious transcription and its impact on cell function" 1539: 3205:
Ogorodnikov, A; Kargapolova, Y; Danckwardt, S. (2016).
2320:"Single Cell Transcriptomics: Methods and Applications" 2148:"Single Cell Transcriptomics: Methods and Applications" 1973:"Transcriptomics today: Microarrays, RNA-seq, and more" 1854:"Transcriptome: Connecting the Genome to Gene Function" 1648: 2008: 1784:"Non-coding RNA: what is functional and what is junk?" 2574: 1726: 1600:"Response to "the reality of pervasive transcription" 1007: 385:
family and have a function in targeting and cleaving
3095: 2084: 2072: 1879: 1839: 1775: 1593: 1591: 1126:"RNA-Seq: a revolutionary tool for transcriptomics" 887:. Meiosis is a key feature of sexually reproducing 876:, which is the set of RNAs undergoing translation. 773:Transcriptome analysis have been used to study the 43:, depending on the particular experiment. The term 2938: 1123: 35:. The term can also sometimes be used to refer to 2421: 2376:Philosophical Transactions of the Royal Society B 1932: 1495:Brown, TA (2018). "Chapter 12: Transcriptomics". 939:The transcriptome can be seen as a subset of the 3643: 2741:Rutley, Nicholas; Twell, David (12 March 2015). 2146:Kanter, Itamar; Kalisky, Tomer (10 March 2015). 2096: 1732: 1588: 827:General schema showing the relationships of the 493:. Both techniques require RNA isolation through 117:. The transcriptome is closely related to other 1875: 1873: 1545: 1518: 1516: 818: 743:lowering injuries associated with the process. 102:among others. Transcriptome-obtained data also 3033:Schwanhäusser, Björn; et al. (May 2011). 2068: 2066: 2064: 1835: 1833: 1831: 1829: 1781: 1642: 1390:"The Human Transcriptome: An Unfinished Story" 620: 541:The first transcriptome studies were based on 3264: 3032: 2525: 2317: 2145: 1891: 1437: 1435: 1336:"Characterization of the Yeast Transcriptome" 2690:One Thousand Plant Transcriptomes Initiative 2577:"myTAI: evolutionary transcriptomics with R" 2090: 1894:RNA Isolation and Characterization Protocols 1870: 1683: 1513: 1097:Weighted gene co-expression network analysis 240:(mRNA) through a molecular process known as 142:publicly available transcriptome databases. 3544:Matrix-assisted laser desorption ionization 2740: 2078: 2061: 1826: 1649:Jensen TH, Jacquier A, and Libri D (2013). 1238: 1236: 1234: 1232: 1230: 1181:International Journal of Molecular Sciences 302: 3612: 3271: 3257: 1449:Journal of Pharmacy and Bioallied Sciences 1432: 970: 462: 3230: 3183: 3009: 2941:Forensic Science, Medicine, and Pathology 2915: 2905: 2821: 2811: 2768: 2758: 2717: 2608: 2508: 2498: 2449: 2439: 2398: 2388: 2345: 2335: 2313: 2311: 2291: 2183: 2165: 2122: 1970: 1966: 1964: 1809: 1799: 1758: 1666: 1625: 1615: 1571: 1488: 1471: 1461: 1415: 1405: 1351: 1310: 1210: 1192: 1151: 1119: 1117: 1115: 1113: 647:, cancer stem cells in solid tumors, and 529:used to detect gene expression in human ( 3200: 3130: 2255: 1926: 1885: 1851: 1845: 1689: 1383: 1381: 1379: 1290: 1227: 822: 722:Analysis of the transcriptomes of human 605:), chemical (trismagnesium salt buffer, 521: 145: 2318:Kanter, Itamar; Kalisky, Tomer (2015). 1494: 1387: 928: 212:massively parallel signature sequencing 110:during the process of evolution and in 3644: 2428:Reproductive Biology and Endocrinology 2308: 1961: 1651:"Dealing with pervasive transcription" 1522: 1499:. New York, NY, USA: Garland Science. 1110: 601:. Fragmentation can be enzymatic (RNA 228:The transcriptome encompasses all the 71:, a hybridization-based technique and 31:, in an individual or a population of 3586:European Molecular Biology Laboratory 3252: 2847:Functional & Integrative Genomics 2531: 2097:Toledo-Arana A, Lasa I (March 2020). 1376: 377:/piRNA: 24-31 nt. They interact with 3096:Cellerino, A; Sanguanini, M (2018), 2743:"A decade of pollen transcriptomics" 1546:Francis WR, Wörheide G (June 2017). 757:Transcriptomes may also be used to 13: 3153: 3142: 3123: 2544:10.1016/B978-0-12-404630-6.00062-2 1261:10.1016/B978-0-444-62651-6.00004-0 1249:Comprehensive Analytical Chemistry 1077:Serial analysis of gene expression 511: 359:at the post-transcriptional level. 195:serial analysis of gene expression 27:transcripts, including coding and 14: 3678: 2632:S, Katayama; et al. (2005). 2631: 2256:Trapnell, Cole (1 October 2015). 2017:(5235). New York, N.Y.: 467–470. 1971:Tachibana, Chris (31 July 2015). 1733:Wade JT, and Grainger DC (2018). 1444:"Microarray and its applications" 856:approach. It is complementary to 565: 399: 3624: 3623: 3611: 1041: 1029: 1017: 759:infer phylogenetic relationships 217: 3564:Chromosome conformation capture 3026: 2975: 2932: 2881: 2838: 2785: 2734: 2682: 2625: 2568: 2466: 2415: 2362: 2249: 2200: 2139: 2085:Cellerino & Sanguanini 2018 2073:Cellerino & Sanguanini 2018 2002: 1880:Cellerino & Sanguanini 2018 1840:Cellerino & Sanguanini 2018 1782:Palazzo AF, and Lee ES (2015). 1067:List of omics topics in biology 685: 208:cap analysis of gene expression 166:. It appeared along with other 1327: 1284: 1168: 891:, and involves the pairing of 47:is a portmanteau of the words 1: 3592:National Institutes of Health 3088: 1751:10.1080/21541264.2017.1381794 1353:10.1016/S0092-8674(00)81845-0 267:(TFIID) which recognizes the 3278: 2500:10.1371/journal.pone.0231108 2031:10.1126/science.270.5235.467 1947:10.1016/0003-2697(87)90021-2 1668:10.1016/j.molcel.2013.10.032 1617:10.1371/journal.pbio.1001102 1552:Genome Biology and Evolution 1312:10.1016/0092-8674(79)90241-1 1082:Transcriptomics technologies 949:gene set enrichment analysis 819:Relation to other ome fields 469:Transcriptomics technologies 279:by which mRNA molecules are 7: 3508:Structure-based drug design 2989:Briefings in Bioinformatics 1003: 879:The term meiome is used in 662: 633:single-cell transcriptomics 627:Single-cell transcriptomics 621:Single-cell transcriptomics 445:transcriptional attenuation 81:Single-cell transcriptomics 10: 3683: 974: 932: 779:1000 Plant Genomes Project 690: 624: 578:next-generation sequencing 569: 515: 483:transcriptomics techniques 466: 221: 170:formed using the suffixes 108:phylogenetic relationships 3607: 3598:Wellcome Sanger Institute 3572: 3521: 3481: 3369: 3286: 3223:10.1007/s00424-016-1828-3 3164:Human Reproduction Update 3106:10.1007/978-88-7642-642-1 2953:10.1007/s12024-015-9704-6 2859:10.1007/s10142-008-0097-4 2760:10.1007/s00497-015-0261-7 2710:10.1038/s41586-019-1693-2 2441:10.1186/s12958-019-0494-7 1388:Peralta, Mihaela (2012). 768: 265:Transcription factor II D 77:transcriptomics technique 3554:Microfluidic-based tools 3399:Human Connectome Project 3331:Human Microbiome Project 1902:10.1385/0-89603-494-1:61 1801:10.3389/fgene.2015.00002 1523:Clancy, Suzanne (2008). 1463:10.4103/0975-7406.100283 1103: 705:cellular differentiation 481:Currently, the two main 439:that are being actively 303:Types of RNA transcripts 96:transcription regulation 88:cellular differentiation 3539:Electrospray ionization 3411:Human Epigenome Project 2907:10.1186/1471-2229-11-78 2813:10.1186/1471-2164-7-267 2660:10.1126/science.1112009 2337:10.3389/fonc.2015.00053 2214:Nature Reviews Genetics 2167:10.3389/fonc.2015.00053 1935:Analytical Biochemistry 1852:U. Adams, Jill (2008). 1131:Nature Reviews Genetics 992:Transcriptome Browser: 971:Transcriptome databases 864:cannot be established. 645:circulating tumor cells 476:expressed sequence tags 463:Methods of construction 457:splice variant analysis 224:Transcription (biology) 3580:DNA Data Bank of Japan 3496:Human proteome project 3299:Computational genomics 3137:Proc Natl Acad Sci USA 2538:. pp. 1033–1038. 2390:10.1098/rstb.2017.0221 1704:10.1002/bies.201700164 844: 736:in vitro fertilisation 695:The transcriptomes of 538: 506:transcriptome assembly 204:expressed sequence tag 3559:Isotope affinity tags 3513:Expression proteomics 3176:10.1093/humupd/dmq036 2593:10.1093/molbev/msv012 2324:Frontiers in Oncology 2276:10.1101/gr.190595.115 2153:Frontiers in Oncology 1788:Frontiers in Genetics 933:Further information: 893:homologous chromosome 826: 615:Reverse transcription 525: 363:small interfering RNA 261:transcription factors 146:Etymology and history 3319:Human Genome Project 3304:Comparative genomics 1407:10.3390/genes3030344 1194:10.3390/ijms23073867 929:Relation to proteome 904:thanatotranscriptome 651:(ESCs) in mammalian 649:embryonic stem cells 576:RNA sequencing is a 453:expression profiling 413:alternative splicing 375:Piwi-interacting RNA 295:that takes place in 139:thanatotranscriptome 129:and encompasses the 3529:2-D electrophoresis 3503:Call-map proteomics 3361:Structural genomics 3348:Population genomics 3309:Functional genomics 3062:10.1038/nature10098 3054:2011Natur.473..337S 2692:(23 October 2019). 2652:2005Sci...309.1564R 2491:2020PLoSO..1531108E 2023:1995Sci...270..467S 1989:2015Sci...349..544T 1525:"DNA Transcription" 1057:Functional genomics 881:functional genomics 607:chemical hydrolysis 369:small nucleolar RNA 341:Long non-coding RNA 100:biomarker discovery 3483:Structural biology 3294:Cognitive genomics 3148:BMC Bioinformatics 3002:10.1093/bib/bbw114 2747:Plant Reproduction 2383:(1750): 20170221. 1564:10.1093/gbe/evx103 845: 539: 451:, (which includes 104:finds applications 23:is the set of all 3639: 3638: 3534:Mass spectrometer 3343:Personal genomics 3139:102(43):15545-50. 3115:978-88-7642-641-4 3048:(7347): 337–342. 2894:BMC Plant Biology 2704:(7780): 679–685. 2553:978-0-12-404630-6 2270:(10): 1491–1498. 2115:10.1111/mmi.14456 1911:978-0-89603-494-5 1882:, p. preface 917:forensic medicine 909:fetal development 847:Similar to other 831:, transcriptome, 613:, nebulisation). 609:) or mechanical ( 257:promoter sequence 246:RNA polymerase II 79:since the 2010s. 3674: 3627: 3626: 3615: 3614: 3458:Pharmacogenomics 3453:Pharmacogenetics 3273: 3266: 3259: 3250: 3249: 3244: 3234: 3203: 3197: 3187: 3156: 3145: 3133: 3118: 3082: 3081: 3039: 3030: 3024: 3023: 3013: 2979: 2973: 2972: 2936: 2930: 2929: 2919: 2909: 2885: 2879: 2878: 2842: 2836: 2835: 2825: 2815: 2789: 2783: 2782: 2772: 2762: 2738: 2732: 2731: 2721: 2686: 2680: 2679: 2646:(5740): 1564–6. 2629: 2623: 2622: 2612: 2587:(9): 1589–1590. 2572: 2566: 2565: 2529: 2523: 2522: 2512: 2502: 2470: 2464: 2463: 2453: 2443: 2419: 2413: 2412: 2402: 2392: 2366: 2360: 2359: 2349: 2339: 2315: 2306: 2305: 2295: 2253: 2247: 2246: 2204: 2198: 2197: 2187: 2169: 2143: 2137: 2136: 2126: 2094: 2088: 2082: 2076: 2070: 2059: 2058: 2006: 2000: 1999: 1997: 1995: 1977:Science Magazine 1968: 1959: 1958: 1930: 1924: 1923: 1889: 1883: 1877: 1868: 1867: 1859:Nature Education 1849: 1843: 1837: 1824: 1823: 1813: 1803: 1779: 1773: 1772: 1762: 1730: 1724: 1723: 1687: 1681: 1680: 1670: 1646: 1640: 1639: 1629: 1619: 1595: 1586: 1585: 1575: 1558:(6): 1582–1598. 1543: 1537: 1536: 1529:Nature Education 1520: 1511: 1510: 1492: 1486: 1485: 1475: 1465: 1439: 1430: 1429: 1419: 1409: 1385: 1374: 1373: 1355: 1331: 1325: 1324: 1314: 1288: 1282: 1281: 1279: 1277: 1240: 1225: 1224: 1214: 1196: 1172: 1166: 1165: 1155: 1121: 1046: 1045: 1034: 1033: 1022: 1021: 1013: 732:embryo selection 547:oligonucleotides 365:/siRNA: 20-24 nt 357:RNA interference 230:ribonucleic acid 106:in establishing 3682: 3681: 3677: 3676: 3675: 3673: 3672: 3671: 3652:Gene expression 3642: 3641: 3640: 3635: 3603: 3568: 3517: 3477: 3473:Transcriptomics 3463:Systems biology 3448:Paleopolyploidy 3384:Cheminformatics 3365: 3282: 3277: 3247: 3217:(6): 993–1012. 3126: 3124:Further reading 3121: 3116: 3091: 3086: 3085: 3037: 3031: 3027: 2980: 2976: 2937: 2933: 2886: 2882: 2843: 2839: 2790: 2786: 2739: 2735: 2687: 2683: 2630: 2626: 2573: 2569: 2554: 2530: 2526: 2485:(4): e0231108. 2471: 2467: 2420: 2416: 2367: 2363: 2316: 2309: 2263:Genome Research 2254: 2250: 2227:10.1038/nrg3833 2205: 2201: 2144: 2140: 2095: 2091: 2083: 2079: 2071: 2062: 2007: 2003: 1993: 1991: 1969: 1962: 1931: 1927: 1912: 1890: 1886: 1878: 1871: 1850: 1846: 1838: 1827: 1780: 1776: 1731: 1727: 1698:(12): 1700164. 1688: 1684: 1647: 1643: 1610:(7): e1001102. 1596: 1589: 1544: 1540: 1521: 1514: 1507: 1493: 1489: 1440: 1433: 1386: 1377: 1332: 1328: 1289: 1285: 1275: 1273: 1271: 1241: 1228: 1173: 1169: 1144:10.1038/nrg2484 1122: 1111: 1106: 1101: 1062:Gene expression 1052: 1040: 1028: 1016: 1008: 1006: 979: 973: 937: 931: 821: 795:diversification 771: 752:risk assessment 717:precursor cells 693: 688: 675:DNA microarrays 665: 641:differentiation 629: 623: 574: 568: 520: 514: 512:DNA microarrays 487:DNA microarrays 471: 465: 449:transcriptomics 447:. The study of 402: 305: 263:, most notably 250:ribonucleotides 226: 220: 148: 17: 12: 11: 5: 3680: 3670: 3669: 3664: 3659: 3654: 3637: 3636: 3634: 3633: 3621: 3608: 3605: 3604: 3602: 3601: 3595: 3589: 3583: 3576: 3574: 3570: 3569: 3567: 3566: 3561: 3556: 3551: 3546: 3541: 3536: 3531: 3525: 3523: 3522:Research tools 3519: 3518: 3516: 3515: 3510: 3505: 3500: 3499: 3498: 3487: 3485: 3479: 3478: 3476: 3475: 3470: 3468:Toxicogenomics 3465: 3460: 3455: 3450: 3445: 3440: 3435: 3430: 3425: 3420: 3415: 3414: 3413: 3403: 3402: 3401: 3391: 3386: 3381: 3375: 3373: 3371:Bioinformatics 3367: 3366: 3364: 3363: 3358: 3350: 3345: 3340: 3335: 3334: 3333: 3323: 3322: 3321: 3314:Genome project 3311: 3306: 3301: 3296: 3290: 3288: 3284: 3283: 3276: 3275: 3268: 3261: 3253: 3246: 3245: 3198: 3170:(2): 272–290. 3151: 3140: 3127: 3125: 3122: 3120: 3119: 3114: 3092: 3090: 3087: 3084: 3083: 3025: 2996:(2): 286–302. 2974: 2947:(4): 509–516. 2931: 2880: 2837: 2784: 2733: 2681: 2624: 2581:Bioinformatics 2567: 2552: 2524: 2465: 2414: 2361: 2307: 2248: 2199: 2138: 2109:(3): 593–602. 2089: 2077: 2060: 2001: 1960: 1925: 1910: 1884: 1869: 1844: 1825: 1774: 1745:(3): 182–189. 1725: 1682: 1661:(4): 473–484. 1655:Molecular Cell 1641: 1587: 1538: 1512: 1505: 1487: 1431: 1400:(3): 344–360. 1375: 1346:(88): 243–51. 1326: 1305:(4): 1303–16. 1283: 1269: 1226: 1167: 1108: 1107: 1105: 1102: 1100: 1099: 1094: 1089: 1084: 1079: 1074: 1069: 1064: 1059: 1053: 1051: 1050: 1038: 1026: 1005: 1002: 1001: 1000: 997:ArrayExpress: 995: 990: 985: 972: 969: 930: 927: 820: 817: 770: 767: 709:carcinogenesis 692: 689: 687: 684: 664: 661: 625:Main article: 622: 619: 570:Main article: 567: 566:RNA sequencing 564: 527:DNA microarray 518:DNA microarray 516:Main article: 513: 510: 495:RNA extraction 474:studied using 467:Main article: 464: 461: 401: 400:Scope of study 398: 397: 396: 390: 372: 366: 360: 350: 344: 338: 325:Non-coding RNA 304: 301: 289:polyadenylated 277:RNA processing 219: 216: 199:bioinformatics 147: 144: 92:carcinogenesis 69:DNA microarray 15: 9: 6: 4: 3: 2: 3679: 3668: 3665: 3663: 3660: 3658: 3655: 3653: 3650: 3649: 3647: 3632: 3631: 3622: 3620: 3619: 3610: 3609: 3606: 3599: 3596: 3593: 3590: 3587: 3584: 3581: 3578: 3577: 3575: 3573:Organizations 3571: 3565: 3562: 3560: 3557: 3555: 3552: 3550: 3547: 3545: 3542: 3540: 3537: 3535: 3532: 3530: 3527: 3526: 3524: 3520: 3514: 3511: 3509: 3506: 3504: 3501: 3497: 3494: 3493: 3492: 3489: 3488: 3486: 3484: 3480: 3474: 3471: 3469: 3466: 3464: 3461: 3459: 3456: 3454: 3451: 3449: 3446: 3444: 3443:Nutrigenomics 3441: 3439: 3436: 3434: 3431: 3429: 3426: 3424: 3421: 3419: 3416: 3412: 3409: 3408: 3407: 3404: 3400: 3397: 3396: 3395: 3392: 3390: 3389:Chemogenomics 3387: 3385: 3382: 3380: 3377: 3376: 3374: 3372: 3368: 3362: 3359: 3357: 3355: 3351: 3349: 3346: 3344: 3341: 3339: 3336: 3332: 3329: 3328: 3327: 3324: 3320: 3317: 3316: 3315: 3312: 3310: 3307: 3305: 3302: 3300: 3297: 3295: 3292: 3291: 3289: 3285: 3281: 3274: 3269: 3267: 3262: 3260: 3255: 3254: 3251: 3242: 3238: 3233: 3228: 3224: 3220: 3216: 3212: 3211:Eur J Physiol 3208: 3202: 3199: 3195: 3191: 3186: 3181: 3177: 3173: 3169: 3165: 3161: 3155: 3152: 3149: 3144: 3141: 3138: 3132: 3129: 3128: 3117: 3111: 3107: 3103: 3099: 3094: 3093: 3079: 3075: 3071: 3067: 3063: 3059: 3055: 3051: 3047: 3043: 3036: 3029: 3021: 3017: 3012: 3007: 3003: 2999: 2995: 2991: 2990: 2985: 2978: 2970: 2966: 2962: 2958: 2954: 2950: 2946: 2942: 2935: 2927: 2923: 2918: 2913: 2908: 2903: 2899: 2895: 2891: 2884: 2876: 2872: 2868: 2864: 2860: 2856: 2853:(2): 219–29. 2852: 2848: 2841: 2833: 2829: 2824: 2819: 2814: 2809: 2805: 2801: 2800: 2795: 2788: 2780: 2776: 2771: 2766: 2761: 2756: 2752: 2748: 2744: 2737: 2729: 2725: 2720: 2715: 2711: 2707: 2703: 2699: 2695: 2691: 2685: 2677: 2673: 2669: 2665: 2661: 2657: 2653: 2649: 2645: 2641: 2640: 2635: 2628: 2620: 2616: 2611: 2606: 2602: 2598: 2594: 2590: 2586: 2582: 2578: 2571: 2563: 2559: 2555: 2549: 2545: 2541: 2537: 2536: 2528: 2520: 2516: 2511: 2506: 2501: 2496: 2492: 2488: 2484: 2480: 2476: 2469: 2461: 2457: 2452: 2447: 2442: 2437: 2433: 2429: 2425: 2418: 2410: 2406: 2401: 2396: 2391: 2386: 2382: 2378: 2377: 2372: 2365: 2357: 2353: 2348: 2343: 2338: 2333: 2329: 2325: 2321: 2314: 2312: 2303: 2299: 2294: 2289: 2285: 2281: 2277: 2273: 2269: 2265: 2264: 2259: 2252: 2244: 2240: 2236: 2232: 2228: 2224: 2221:(3): 133–45. 2220: 2216: 2215: 2210: 2203: 2195: 2191: 2186: 2181: 2177: 2173: 2168: 2163: 2159: 2155: 2154: 2149: 2142: 2134: 2130: 2125: 2120: 2116: 2112: 2108: 2104: 2103:Mol Microbiol 2100: 2093: 2086: 2081: 2074: 2069: 2067: 2065: 2056: 2052: 2048: 2044: 2040: 2036: 2032: 2028: 2024: 2020: 2016: 2012: 2005: 1990: 1986: 1983:(6247): 544. 1982: 1978: 1974: 1967: 1965: 1956: 1952: 1948: 1944: 1940: 1936: 1929: 1921: 1917: 1913: 1907: 1903: 1899: 1895: 1888: 1881: 1876: 1874: 1865: 1861: 1860: 1855: 1848: 1841: 1836: 1834: 1832: 1830: 1821: 1817: 1812: 1807: 1802: 1797: 1793: 1789: 1785: 1778: 1770: 1766: 1761: 1756: 1752: 1748: 1744: 1740: 1739:Transcription 1736: 1729: 1721: 1717: 1713: 1709: 1705: 1701: 1697: 1693: 1686: 1678: 1674: 1669: 1664: 1660: 1656: 1652: 1645: 1637: 1633: 1628: 1623: 1618: 1613: 1609: 1605: 1601: 1594: 1592: 1583: 1579: 1574: 1569: 1565: 1561: 1557: 1553: 1549: 1542: 1534: 1530: 1526: 1519: 1517: 1508: 1506:9780815345084 1502: 1498: 1491: 1483: 1479: 1474: 1469: 1464: 1459: 1456:(6): S310-2. 1455: 1451: 1450: 1445: 1438: 1436: 1427: 1423: 1418: 1413: 1408: 1403: 1399: 1395: 1391: 1384: 1382: 1380: 1371: 1367: 1363: 1359: 1354: 1349: 1345: 1341: 1337: 1330: 1322: 1318: 1313: 1308: 1304: 1300: 1299: 1294: 1287: 1272: 1270:9780444626516 1266: 1262: 1258: 1254: 1250: 1246: 1239: 1237: 1235: 1233: 1231: 1222: 1218: 1213: 1208: 1204: 1200: 1195: 1190: 1186: 1182: 1178: 1171: 1163: 1159: 1154: 1149: 1145: 1141: 1137: 1133: 1132: 1127: 1120: 1118: 1116: 1114: 1109: 1098: 1095: 1093: 1090: 1088: 1085: 1083: 1080: 1078: 1075: 1073: 1070: 1068: 1065: 1063: 1060: 1058: 1055: 1054: 1049: 1044: 1039: 1037: 1032: 1027: 1025: 1020: 1015: 1014: 1011: 999: 996: 994: 991: 989: 986: 984: 981: 980: 978: 968: 966: 962: 957: 952: 950: 944: 942: 936: 926: 924: 920: 918: 914: 910: 905: 900: 898: 894: 890: 886: 882: 877: 875: 870: 865: 863: 859: 855: 850: 842: 838: 834: 830: 825: 816: 814: 810: 806: 805: 800: 796: 792: 788: 784: 783:viridiplantae 780: 776: 766: 762: 760: 755: 753: 749: 744: 741: 737: 733: 729: 725: 720: 718: 714: 710: 706: 702: 698: 683: 680: 676: 672: 668: 660: 656: 654: 650: 646: 642: 638: 634: 628: 618: 616: 612: 608: 604: 603:endonucleases 600: 595: 592: 588: 582: 579: 573: 563: 559: 556: 550: 548: 544: 536: 533:) and mouse ( 532: 528: 524: 519: 509: 507: 505: 498: 496: 492: 488: 484: 479: 477: 470: 460: 458: 454: 450: 446: 442: 438: 434: 430: 426: 421: 418: 414: 409: 407: 394: 391: 388: 384: 380: 379:Piwi proteins 376: 373: 370: 367: 364: 361: 358: 354: 351: 348: 345: 342: 339: 336: 335:Ribosomal RNA 333: 332: 331: 328: 326: 322: 317: 313: 311: 300: 298: 294: 290: 286: 282: 278: 274: 270: 266: 262: 258: 253: 251: 247: 243: 242:transcription 239: 238:messenger RNA 235: 231: 225: 218:Transcription 215: 213: 209: 205: 200: 196: 192: 191: 190:S. cerevisiae 186: 182: 177: 173: 169: 165: 161: 158:of the words 157: 153: 152:transcriptome 143: 140: 137:, meiome and 136: 132: 128: 124: 120: 116: 115:fertilization 114: 109: 105: 101: 97: 93: 89: 84: 82: 78: 74: 70: 65: 60: 58: 57:transcription 54: 50: 46: 45:transcriptome 42: 38: 34: 30: 26: 22: 21:transcriptome 3667:RNA splicing 3628: 3616: 3438:Microbiomics 3433:Metabolomics 3394:Connectomics 3353: 3326:Metagenomics 3214: 3210: 3201: 3167: 3163: 3154: 3147: 3143: 3136: 3131: 3097: 3045: 3041: 3028: 2993: 2987: 2977: 2944: 2940: 2934: 2897: 2893: 2883: 2850: 2846: 2840: 2806:(267): 267. 2803: 2799:BMC Genomics 2797: 2787: 2753:(2): 73–89. 2750: 2746: 2736: 2701: 2697: 2684: 2643: 2637: 2627: 2584: 2580: 2570: 2534: 2527: 2482: 2478: 2468: 2431: 2427: 2417: 2380: 2374: 2364: 2327: 2323: 2267: 2261: 2251: 2218: 2212: 2202: 2157: 2151: 2141: 2106: 2102: 2092: 2087:, p. 18 2080: 2075:, p. 13 2014: 2010: 2004: 1992:. Retrieved 1980: 1976: 1941:(1): 156–9. 1938: 1934: 1928: 1893: 1887: 1863: 1857: 1847: 1842:, p. 12 1791: 1787: 1777: 1742: 1738: 1728: 1695: 1691: 1685: 1658: 1654: 1644: 1607: 1604:PLOS Biology 1603: 1555: 1551: 1541: 1532: 1528: 1496: 1490: 1453: 1447: 1397: 1393: 1343: 1339: 1329: 1302: 1296: 1286: 1274:. Retrieved 1252: 1248: 1184: 1180: 1170: 1138:(1): 57–63. 1135: 1129: 963:for protein 953: 945: 938: 921: 901: 878: 866: 858:metabolomics 846: 802: 772: 763: 756: 745: 739: 721: 694: 686:Applications 669: 666: 657: 630: 596: 583: 575: 562:sequencing. 560: 555:fluorophores 551: 540: 534: 530: 503: 499: 480: 472: 422: 410: 403: 393:enhancer RNA 347:transfer RNA 329: 318: 314: 310:Enhancer RNA 306: 254: 227: 210:(CAGE), and 188: 183:library for 175: 171: 163: 159: 151: 149: 112: 85: 61: 52: 48: 44: 20: 18: 3406:Epigenomics 3338:Pangenomics 1187:(7): 3867. 1092:Transpogene 1087:Translatome 987:OmicTools: 965:translation 874:translatome 852:scope of a 804:Arabidopsis 787:glaucophyta 653:blastocysts 417:RNA editing 387:transposons 293:translation 273:termination 156:portmanteau 131:translatome 3646:Categories 3491:Proteomics 3428:Lipidomics 3423:Immunomics 3089:References 2900:(78): 78. 2330:(13): 53. 1255:: 81–110. 1072:Metabolome 1048:Technology 975:See also: 889:eukaryotes 862:metabolite 854:multiomics 837:metabolome 791:rhodophyta 697:stem cells 611:sonication 599:base pairs 543:microarray 222:See also: 168:neologisms 160:transcript 127:metabolome 49:transcript 39:, or just 29:non-coding 3418:Glycomics 3078:205224972 2601:0737-4038 2434:(1): 50. 2284:1088-9051 2243:205486032 2176:2234-943X 2039:0036-8075 1866:(1): 195. 1692:BioEssays 1535:(11): 41. 1497:Genomes 4 1203:1422-0067 982:Ensembl: 961:ribosomes 913:apoptosis 897:meiocytes 775:evolution 748:biomarker 537:) samples 441:expressed 433:mutations 383:Argonaute 353:micro RNA 297:ribosomes 185:silk moth 150:The word 3630:Category 3356:genomics 3280:Genomics 3241:27220521 3194:20716614 3070:21593866 3020:27881428 2969:21583165 2961:26318598 2926:21554676 2875:22854431 2867:18836753 2832:17052357 2779:25761645 2728:31645766 2676:34559885 2668:16141073 2619:29309527 2562:89396307 2519:32251418 2479:PLOS ONE 2460:31262321 2409:29786556 2356:25806353 2302:26430159 2235:25628217 2194:25806353 2133:32185833 1820:25674102 1769:28980880 1720:35346807 1712:29071727 1677:24267449 1636:15680321 1582:28633296 1482:23066278 1426:22916334 1370:11430660 1276:25 April 1221:35409231 1162:19015660 1004:See also 956:proteins 941:proteome 935:Proteome 841:lipidome 833:proteome 740:in vitro 663:Analysis 637:bacteria 581:sample. 485:include 425:organism 321:junk DNA 269:TATA box 214:(MPSS). 125:and the 123:proteome 113:in vitro 37:all RNAs 3379:Biochip 3232:4893057 3185:3189516 3050:Bibcode 3011:6018996 2917:3112077 2823:1647286 2770:4432081 2719:6872490 2648:Bibcode 2639:Science 2610:5925770 2510:7135251 2487:Bibcode 2451:6604150 2400:5974444 2347:4354386 2293:4579334 2185:4354386 2124:7154746 2055:6720459 2047:7569999 2019:Bibcode 2011:Science 1985:Bibcode 1955:2440339 1920:9664454 1811:4306305 1760:5927700 1627:3134445 1573:5534336 1473:3467903 1417:3422666 1362:9008165 1212:8998886 1153:2949280 1036:Science 1024:Biology 1010:Portals 885:meiosis 813:tobacco 728:embryos 724:oocytes 691:Mammals 671:RNA-seq 591:18S RNA 587:28S RNA 572:RNA-Seq 504:de novo 491:RNA-Seq 381:of the 371:/snoRNA 285:spliced 73:RNA-seq 3287:Fields 3239:  3229:  3192:  3182:  3112:  3076:  3068:  3042:Nature 3018:  3008:  2967:  2959:  2924:  2914:  2873:  2865:  2830:  2820:  2777:  2767:  2726:  2716:  2698:Nature 2674:  2666:  2617:  2607:  2599:  2560:  2550:  2517:  2507:  2458:  2448:  2407:  2397:  2354:  2344:  2300:  2290:  2282:  2241:  2233:  2192:  2182:  2174:  2160:: 53. 2131:  2121:  2053:  2045:  2037:  1953:  1918:  1908:  1818:  1808:  1767:  1757:  1718:  1710:  1675:  1634:  1624:  1580:  1570:  1503:  1480:  1470:  1424:  1414:  1368:  1360:  1321:519770 1319:  1267:  1219:  1209:  1201:  1160:  1150:  835:, and 829:genome 799:pollen 769:Plants 701:cancer 429:genome 395:/eRNA: 281:capped 193:using 176:-omics 164:genome 53:genome 3657:Omics 3594:(USA) 3354:Socio 3150:7:311 3074:S2CID 3038:(PDF) 2965:S2CID 2871:S2CID 2672:S2CID 2558:S2CID 2239:S2CID 2051:S2CID 1994:2 May 1794:: 2. 1716:S2CID 1632:S2CID 1394:Genes 1366:S2CID 1104:Notes 869:exome 535:right 437:genes 349:/tRNA 154:is a 135:exome 33:cells 3618:List 3600:(UK) 3588:(EU) 3582:(JP) 3237:PMID 3190:PMID 3110:ISBN 3066:PMID 3016:PMID 2957:PMID 2922:PMID 2863:PMID 2828:PMID 2775:PMID 2724:PMID 2664:PMID 2615:PMID 2597:ISSN 2548:ISBN 2515:PMID 2456:PMID 2405:PMID 2352:PMID 2298:PMID 2280:ISSN 2231:PMID 2190:PMID 2172:ISSN 2129:PMID 2043:PMID 2035:ISSN 1996:2020 1951:PMID 1916:PMID 1906:ISBN 1816:PMID 1765:PMID 1708:PMID 1673:PMID 1578:PMID 1501:ISBN 1478:PMID 1422:PMID 1358:PMID 1340:Cell 1317:PMID 1298:Cell 1278:2020 1265:ISBN 1217:PMID 1199:ISSN 1158:PMID 923:eQTL 902:The 849:-ome 811:and 809:rice 789:and 726:and 715:and 713:stem 707:and 699:and 679:cDNA 531:left 489:and 406:Gene 287:and 181:cDNA 174:and 172:-ome 162:and 119:-ome 98:and 64:cDNA 51:and 41:mRNA 19:The 3662:RNA 3227:PMC 3219:doi 3215:468 3180:PMC 3172:doi 3102:doi 3058:doi 3046:473 3006:PMC 2998:doi 2949:doi 2912:PMC 2902:doi 2855:doi 2818:PMC 2808:doi 2765:PMC 2755:doi 2714:PMC 2706:doi 2702:574 2656:doi 2644:309 2605:PMC 2589:doi 2540:doi 2505:PMC 2495:doi 2446:PMC 2436:doi 2395:PMC 2385:doi 2381:373 2342:PMC 2332:doi 2288:PMC 2272:doi 2223:doi 2180:PMC 2162:doi 2119:PMC 2111:doi 2107:113 2027:doi 2015:270 1981:349 1943:doi 1939:162 1898:doi 1806:PMC 1796:doi 1755:PMC 1747:doi 1700:doi 1663:doi 1622:PMC 1612:doi 1568:PMC 1560:doi 1468:PMC 1458:doi 1412:PMC 1402:doi 1348:doi 1307:doi 1257:doi 1207:PMC 1189:doi 1148:PMC 1140:doi 734:in 589:to 312:.) 234:DNA 25:RNA 3648:: 3235:. 3225:. 3213:. 3209:. 3188:. 3178:. 3168:17 3166:. 3162:. 3108:, 3100:, 3072:. 3064:. 3056:. 3044:. 3040:. 3014:. 3004:. 2994:19 2992:. 2986:. 2963:. 2955:. 2945:11 2943:. 2920:. 2910:. 2898:11 2896:. 2892:. 2869:. 2861:. 2849:. 2826:. 2816:. 2802:. 2796:. 2773:. 2763:. 2751:28 2749:. 2745:. 2722:. 2712:. 2700:. 2696:. 2670:. 2662:. 2654:. 2642:. 2636:. 2613:. 2603:. 2595:. 2585:34 2583:. 2579:. 2556:. 2546:. 2513:. 2503:. 2493:. 2483:15 2481:. 2477:. 2454:. 2444:. 2432:17 2430:. 2426:. 2403:. 2393:. 2379:. 2373:. 2350:. 2340:. 2326:. 2322:. 2310:^ 2296:. 2286:. 2278:. 2268:25 2266:. 2260:. 2237:. 2229:. 2219:16 2217:. 2211:. 2188:. 2178:. 2170:. 2156:. 2150:. 2127:. 2117:. 2105:. 2101:. 2063:^ 2049:. 2041:. 2033:. 2025:. 2013:. 1979:. 1975:. 1963:^ 1949:. 1937:. 1914:. 1904:. 1872:^ 1862:. 1856:. 1828:^ 1814:. 1804:. 1790:. 1786:. 1763:. 1753:. 1741:. 1737:. 1714:. 1706:. 1696:39 1694:. 1671:. 1659:52 1657:. 1653:. 1630:. 1620:. 1606:. 1602:. 1590:^ 1576:. 1566:. 1554:. 1550:. 1531:. 1527:. 1515:^ 1476:. 1466:. 1452:. 1446:. 1434:^ 1420:. 1410:. 1396:. 1392:. 1378:^ 1364:. 1356:. 1342:. 1338:. 1315:. 1301:. 1295:. 1263:. 1253:64 1251:. 1247:. 1229:^ 1215:. 1205:. 1197:. 1185:23 1183:. 1179:. 1156:. 1146:. 1136:10 1134:. 1128:. 1112:^ 967:. 919:. 843:). 815:. 807:, 785:, 754:. 655:. 455:, 415:, 327:) 299:. 283:, 133:, 94:, 90:, 59:. 3272:e 3265:t 3258:v 3243:. 3221:: 3196:. 3174:: 3104:: 3080:. 3060:: 3052:: 3022:. 3000:: 2971:. 2951:: 2928:. 2904:: 2877:. 2857:: 2851:9 2834:. 2810:: 2804:7 2781:. 2757:: 2730:. 2708:: 2678:. 2658:: 2650:: 2621:. 2591:: 2564:. 2542:: 2521:. 2497:: 2489:: 2462:. 2438:: 2411:. 2387:: 2358:. 2334:: 2328:5 2304:. 2274:: 2245:. 2225:: 2196:. 2164:: 2158:5 2135:. 2113:: 2057:. 2029:: 2021:: 1998:. 1987:: 1957:. 1945:: 1922:. 1900:: 1864:1 1822:. 1798:: 1792:6 1771:. 1749:: 1743:9 1722:. 1702:: 1679:. 1665:: 1638:. 1614:: 1608:9 1584:. 1562:: 1556:9 1533:1 1509:. 1484:. 1460:: 1454:4 1428:. 1404:: 1398:3 1372:. 1350:: 1344:2 1323:. 1309:: 1303:8 1280:. 1259:: 1223:. 1191:: 1164:. 1142:: 1012:: 839:( 389:.

Index

RNA
non-coding
cells
all RNAs
mRNA
transcription
cDNA
DNA microarray
RNA-seq
transcriptomics technique
Single-cell transcriptomics
cellular differentiation
carcinogenesis
transcription regulation
biomarker discovery
finds applications
phylogenetic relationships
in vitro fertilization
-ome
proteome
metabolome
translatome
exome
thanatotranscriptome
portmanteau
neologisms
cDNA
silk moth
S. cerevisiae
serial analysis of gene expression

Text is available under the Creative Commons Attribution-ShareAlike License. Additional terms may apply.