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Product NameCatalog NoDescriptionFormatPrice
LncPath™ Mouse Epigenetic Pathway Microarray AS-LP-003M 884 LncRNAs and 835 potential coding targets 8*15K
LncPath™ Human Epigenetic Pathway Microarray AS-LP-003H 1,321 LncRNAs and 477 potential coding targets 8*15K

Epigenetic modifications play critical roles in gene expression regulation, and have been associated with the induction and maintenance of various human cancers. The common epigenetic changes include DNA methylation, histone modifications and chromatin remodeling, which are mediated by the enzymes that chemically modify genomic DNA, histones, and chromatin remodeling factors. LncRNAs have emerged as novel epigenetic modulators, and might participate in epigenetic signaling pathway by targeting the critical epigenetic modification enzymes and protein factors.

The LncPath™ Human Epigenetic Pathway LncRNA Microarray simultaneously profiles the expression of 1,321 LncRNAs and 477 their potential coding targets related to the epigenetic signaling pathway. The LncPath™ Mouse Epigenetic Pathway LncRNA Microarray simultaneously profiles the expression of 884 LncRNAs and 835 their potential coding targets related to the epigenetic signaling pathway. The LncRNAs whose gene loci located at or near the protein-coding genes critical in the epigenetic pathway, and LncRNAs which have high possibility as the potential ceRNAs of the key epigenetic genes, are carefully selected from the authoritative databases by using a rigorous process. By limiting LncRNAs to those most relevant to the epigenetic pathway, analysis can be achieved quickly and precisely due to a highly specific yet smaller data set. More importantly, it can establish the expression relationship between LncRNAs and their potential protein-coding targets involved in the epigenetic signaling pathway, thereby providing comprehensive insights into the underlying regulatory mechanisms of LncRNAs in epigenetic modifications.

Reliable epigenetic pathway focus LncRNA collection
Simultaneous analysis of LncRNAs and their potential coding gene targets related to the epigenetic pathway
Efficient and robust labeling system
Innovative probe design
Guaranteed performance

An example showing a protein coding gene and its corresponding regulatory LncRNAs

Click the LncRNA accession number listed in databases, you will see the figures showing the detailed information about the LncRNAs and their potential target gene.


Figure 1. An example of genomic map views of the LncRNA ENST00000580587 whose gene is located at the BRD2 gene locus. From top to bottom,
Genome view: A chromosome ideogram showing the map position of the LncRNA ENST00000580587 and its potential target gene BRD2 (red bar).
Map view ruler: The map coordinates of the human genome assembly hg19 for the map views below.
LncRNA map view: The LncRNAs whose genes located at or near the BRD2 gene are presented in the Noncoding panel (shaded blue). The LncRNAs are indicated by the transcript IDs, the exons by solid blocks, the introns by thin lines, and the transcription directions by arrows.
Coding gene map view: The coding gene BRD2 is presented in the Coding panel (shaded green). The coding gene is indicated by its canonical transcript ID, the exons by solid blocks, the introns by thin lines, and the transcription direction by arrows.


Figure 2. The relationship between LncRNA ENST00000580587 and its protein coding gene target BRD2. The other neighboring LncRNAs which may regulate BRD2 expression are also shown.


Figure 3. The LncRNA uc011kzr.2 may function as a competing endogenous RNA (ceRNA) of the protein coding gene BRD2.
* MuTaMe Score, Mutually Targeted MRE Enrichment Score [1].

References1.   Tay, Y., et al., Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs. Cell, 2011. 147(2): p. 344-57.

 

LncRNA List
The human epigenetic pathway LncRNAs are listed in Table 1. Click the LncRNA accession numbers to see the detailed information about the LncRNAs and their potential coding gene targets in the epigenetic pathway.

Table 1. Human Epigenetic pathway focused LncRNAs

ENST00000279573, ENST00000319429, ENST00000327785, ENST00000340444, ENST00000343999, ENST00000359165, ENST00000372993, ENST00000388909, ENST00000391782, ENST00000398739, ENST00000398804, ENST00000401064, ENST00000402520, ENST00000404127, ENST00000405257, ENST00000407942, ENST00000408914, ENST00000411806, ENST00000412085, ENST00000412181, ENST00000413053, ENST00000413431, ENST00000414135, ENST00000414855, ENST00000415054, ENST00000415494, ENST00000415731, ENST00000415890, ENST00000416028, ENST00000416049, ENST00000416061, ENST00000416554, ENST00000416679, ENST00000417359, ENST00000417447, ENST00000417480, ENST00000418149, ENST00000418270, ENST00000418474, ENST00000419324, ENST00000419441, ENST00000419531, ENST00000419906, ENST00000419973, ENST00000420020, ENST00000420193, ENST00000420227, ENST00000420253, ENST00000420498, ENST00000420537, 

Full List of Human Epigenetic Pathway Focused LncRNAs.pdf

Gene List
The potential gene targets of human epigenetic pathway focus LncRNAs are listed in Table 2. Click the protein gene names to see the detailed information about the genes and their corresponding regulatory LncRNAs in the epigenetic pathway.

Table 2. Functional gene grouping

Disrupted DNA-methylation genes in cancer:
DNMT1 DNMT3A DNMT3B MBD1 MBD2 MBD3 MBD4 MECP2
Chromatin regulators:
ARID1A DNMT3A DNMT3B DOT1L EHMT2 KDM2B KDM1A SETDB1 SUV39H1 KDM6A
Disrupted histone-modification genes in cancer:
OPN1LW KAT6B KAT6A EP300 KAT2B HDAC1 HDAC2 EZH2 NSD1 PRDM2 KDM4C
Histone modification Enzymes:
OPN1LW KAT6B KAT6A EP300 BRD1 BRD3 BRD4 PBRM1 TRIM33 EZH2 NSD1 WHSC1 WHSC1L1 SETD2 ING1 ING4 MSH6 TRIM33 KDM5A KDM5C KDM6A ATM JAK2 PIM1 BRCA1
DNA methylases:
DNMT1 DNMT3A DNMT3B
Chromatin Remodeling Complexes:
SMARCA4 SMARCA2 SMARCC1 SMARCC2 ARID1A ACTL6A ACTL6B SMARCE1 SMARCD1 SMARCD2 SMARCD3 SMARCB1 ACTB SMARCA4 SMARCC1 SMARCC2 PBRM1 ARID2 ACTL6A ACTL6B SMARCE1 SMARCD1 SMARCD2 SMARCD3 SMARCB1 ACTB SMARCA5 BPTF RBBP7 RBBP4 SMARCA1 BAZ1A SMARCA1 BAZ1A CHD1 CHD3 CHD4 CDK2AP1 HDAC1 HDAC2 MBD3 MTA1 MTA2 MTA3 GATAD2A GATAD2B RBBP4 RBBP7 INO80 ACTR5 ACTR8 ACTL6A INO80C INO80B RUVBL1 SRCAP ACTR6 ACTL6A DMAP1 YEATS4 H2AFZ HIST2H2BE RUVBL1 VPS72 ZNHIT1 EP400 ACTL6A BRD8 DMAP1 EPC1 EPC2 MEAF6 YEATS4 ING3 MORF4L1 MORF4L2 RUVBL1 KAT5 TRRAP VPS72 ARID1A ARID1B ARID2 SMARCD1 BCL7A SMARCA4 SMARCA2 PBRM1 SMARCB1 EED EZH1 EZH2 RBBP4 RBBP7 SUZ12 BMI1 CBX2 CBX4 CBX8 PCGF2 PHC1 PHC2 PHC3 RING1 RNF2 ZNF134 ASH1L ASH2L HCFC1 MEN1 WDR5 ARID1A ARID1B ARID4A ARID4B SMARCA4 SMARCA2 SMARCC2 SMARCB1 BPTF RBBP4 RBBP7 SMARCA1 CHD1 CHD2 CHD3 CHD4 CHD5 CHD6 CHD7 CHD8 CHD9
Disrupted DNA-hydroxymethylation genes in cancer:
TET1 TET2
Genes silenced by CpG island promoter hypermethylation in human cancer:
APC AR BRCA1 CDH1 CDH13 PTGS2 DAPK1 DKK1 EREG EXT1 FAT1 GATA4 GATA5 GSTP1 HIC1 HOXA9 ID4 IGFBP3 LMNA STK11 MGMT MLH1 RASSF5 CDKN2A CDKN2B CDKN2A TP73 PGR PRLR RARB RASSF1 RB1 PRDM2 SFRP1 SLC5A8 SOCS1 SOCS3 CD2 SYK THBS1 PYCARD TMEFF2 TSHR VHL WIF1 WRN
DNA hydroxymethylases:
TET1 TET2 TET3
Histone Modification Enzymes Disrupted in Cancers:
KAT2B CREBBP EP300 KAT6A KAT6B EHMT2 NSD1 SMYD2 DOT1L EZH2 PRDM2 WHSC1L1 SUZ12 HDAC2 KDM1A KDM4C KDM6A

LncRNA List
The mouse epigenetic pathway LncRNAs are listed in Table 1. Click the LncRNA accession numbers to see the detailed information about the LncRNAs and their potential coding gene targets in the epigenetic pathway.

Table 1. Mouse Epigenetic pathway focused LncRNAs

ENSMUST00000032594, ENSMUST00000070779, ENSMUST00000092369, ENSMUST00000105060, ENSMUST00000113671, ENSMUST00000117520, ENSMUST00000118796, ENSMUST00000118843, ENSMUST00000119116, ENSMUST00000119157, ENSMUST00000119539, ENSMUST00000119987, ENSMUST00000120703, ENSMUST00000121061, ENSMUST00000121500, ENSMUST00000121836, ENSMUST00000122005, ENSMUST00000123040, ENSMUST00000123212, ENSMUST00000123381, ENSMUST00000123517, ENSMUST00000124166, ENSMUST00000124577, ENSMUST00000124663, ENSMUST00000125345, ENSMUST00000125440, ENSMUST00000125567, ENSMUST00000125917, ENSMUST00000126970, ENSMUST00000127003, ENSMUST00000127008, ENSMUST00000127059, ENSMUST00000127079, ENSMUST00000127174, ENSMUST00000127456, ENSMUST00000128067, ENSMUST00000128182, ENSMUST00000128654, ENSMUST00000129200, ENSMUST00000129260, 

Full List of Mouse Epigenetic Pathway Focused LncRNAs.pdf

Gene List
The potential gene targets of mouse epigenetic pathway focus LncRNAs are listed in Table 2. Click the protein gene names to see the detailed information about the genes and their corresponding regulatory LncRNAs in the epigenetic pathway.

Table 2. Functional gene grouping

Disrupted DNA-methylation genes in cancer:
Dnmt1 Dnmt3a Dnmt3b Mbd1 Mbd2 Mbd3 Mbd4 Mecp2
Chromatin regulators:
Arid1a Dnmt3a Dnmt3b Dot1l Ehmt2 Kdm2b Kdm1a Mll1 Mll3 Setdb1 Suv39h1 Kdm6a
Disrupted histone-modification genes in cancer:
Opn1mw Myst4 Ep300 Kat2b Hdac1 Hdac2 Ezh2 Mll1 Mll3 Nsd1 Prdm2 Kdm4c
Histone modification Enzymes:
Opn1mw Myst4 Ep300 Brd1 Brd3 Brd4 Pbrm1 Trim33 Ezh2 Mll1 Mll3 Nsd1 Whsc1 Whsc1l1 Setd2 Ing1 Ing4 Msh6 Trim33 Kdm5a Kdm5c Kdm6a Atm Jak2 Pim1 Brca1
DNA methylases:
Dnmt1 Dnmt3a Dnmt3b
Chromatin Remodeling Complexes:
Smarca4 Smarca2 Smarcc1 Smarcc2 Arid1a Actl6a Actl6b Smarce1 Smarcd1 Smarcd2 Smarcd3 Smarcb1 Actb Smarca4 Smarcc1 Smarcc2 Pbrm1 Arid2 Actl6a Actl6b Smarce1 Smarcd1 Smarcd2 Smarcd3 Smarcb1 Actb Smarca5 Bptf Rbbp7 Rbbp4 Smarca1 Baz1a Smarca1 Baz1a Chd1 Chd3 Chd4 Cdk2ap1 Hdac1 Hdac2 Mbd3 Mta1 Mta2 Mta3 Gatad2a Gatad2b Rbbp4 Rbbp7 Ino80 Actr5 Actr8 Actl6a Ino80c Ino80b Ruvbl1 Srcap Actr6 Actl6a Dmap1 Yeats4 H2afz Hist1h2bc Hist1h2be Hist1h2bg Ruvbl1 Vps72 Znhit1 Ep400 Actl6a Brd8 Dmap1 Epc1 Epc2 Meaf6 Yeats4 Ing3 Morf4l1 Mrgbp Morf4l2 Ruvbl1 Kat5 Trrap Vps72 Arid1a Arid1b Arid2 Smarcd1 Bcl7a Smarca4 Smarca2 Pbrm1 Smarcb1 Eed Ezh1 Ezh2 Rbbp4 Rbbp7 Suz12 Cbx2 Cbx4 Cbx8 Pcgf2 Phc1 Phc2 Phc3 Ring1 Rnf2 Ash1l Ash2l Hcfc1 Men1 Mll1 Mll3 Mll5 Wdr5 Arid1a Arid1b Arid4a Arid4b Smarca4 Smarca2 Smarcc2 Smarcb1 Bptf Rbbp4 Rbbp7 Smarca1 Chd1 Chd2 Chd3 Chd4 Chd5 Chd6 Chd7 Chd8 Chd9
Disrupted DNA-hydroxymethylation genes in cancer:
Tet1 Tet2
Genes silenced by CpG island promoter hypermethylation in human cancer:
Apc Ar Brca1 Cdh1 Cdh13 Ptgs2 Dapk1 Dkk1 Ereg Ext1 Fat1 Gata4 Gata5 Gstp1 Gstp2 Hic1 Hoxa9 Id4 Igfbp3 Lmna Stk11 Mgmt Mlh1 Rassf5 Cdkn2a Cdkn2b Cdkn2a Trp73 Pgr Prlr Rarb Rassf1 Rb1 Prdm2 Sfrp1 Slc5a8 Socs1 Socs3 Cd2 Syk Thbs1 Pycard Tmeff2 Tshr Vhl Wif1 Wrn
DNA hydroxymethylases:
Tet1 Tet2 Tet3
Histone Modification Enzymes Disrupted in Cancers:
Kat2b Crebbp Ep300 Myst4 Ehmt2 Mll1 Mll3 Nsd1 Smyd2 Dot1l Ezh2 Prdm2 Whsc1l1 Suz12 Hdac2 Kdm1a Kdm4c Kdm6a