ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments
Jeanne Chèneby, Zacharie Ménétrier, Martin Mestdagh, Thomas Rosnet, Allyssa Douida, Wassim Rhalloussi, Aurélie Bergon, Fabrice Lopez, Benoit Ballester. Nucleic Acids Research, 29 October 2019, gkz94510.1093/nar/gkz945
Jeanne Chèneby, Zacharie Ménétrier, Martin Mestdagh, Thomas Rosnet, Allyssa Douida, Wassim Rhalloussi, Aurélie Bergon, Fabrice Lopez, Benoit Ballester. Nucleic Acids Research, 29 October 2019, gkz94510.1093/nar/gkz945
Papers citing ReMap
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Nasal DNA methylation is associated with childhood asthma. Zhang X., Biagini Myers J. M., Burleson J. D., Ulm A., Bryan K. S., Chen X., Weirauch M. T., Baker T. A., Butsch Kovacic M. S. and Ji H. Epigenomics. 2018;10(5):629-641. Epub 2018/04/26. |
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TFmapper: A Tool for Searching Putative Factors Regulating Gene Expression Using ChIP-seq Data. Zeng J. and Li G. Int J Biol Sci. 2018;14(12):1724-1731. Epub 2018/11/13. |
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Genetic Associations with Gestational Duration and Spontaneous Preterm Birth. Zhang G., Feenstra B., Bacelis J., Liu X., Muglia L. M., Juodakis J., Miller D. E., Litterman N., Jiang P. P., Russell L., Hinds D. A., Hu Y., Weirauch M. T., Chen X., Chavan A. R., Wagner G. P., Pavlicev M., Nnamani M. C., Maziarz J., Karjalainen M. K., Ramet M., Sengpiel V., Geller F., Boyd H. A., Palotie A., Momany A., Bedell B., Ryckman K. K., Huusko J. M., Forney C. R., Kottyan L. C., Hallman M., Teramo K., Nohr E. A., Davey Smith G., Melbye M., Jacobsson B. and Muglia L. J. N Engl J Med. 2017;377(12):1156-1167. Epub 2017/09/07. |
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Integrative Analysis of Transcription Factor Combinatorial Interactions Using a Bayesian Tensor Factorization Approach. Ye Y., Gao L. and Zhang S. Front Genet. 2017;8:140. Epub 2017/10/17. |
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Genome-wide association study (GWAS) of ovarian cancer in Japanese predicted regulatory variants in 22q13.1. Yodsurang V., Tang Y., Takahashi Y., Tanikawa C., Kamatani Y., Takahashi A., Momozawa Y., Fuse N., Sugawara J., Shimizu A., Fukushima A., Hishida A., Furusyo N., Naito M., Wakai K., Yamaji T., Sawada N., Iwasaki M., Tsugane S., Hirata M., Murakami Y., Kubo M. and Matsuda K. PLoS One. 2018;13(12):e0209096. Epub 2018/12/18. |
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Inferring condition-specific targets of human TF-TF complexes using ChIP-seq data. Yang C. C., Chen M. H., Lin S. Y., Andrews E. H., Cheng C., Liu C. C. and Chen J. J. BMC Genomics. 2017;18(1):61. Epub 2017/01/11. |
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Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay. Trypsteen W., Mohammadi P., Van Hecke C., Mestdagh P., Lefever S., Saeys Y., De Bleser P., Vandesompele J., Ciuffi A., Vandekerckhove L. and De Spiegelaere W. Sci Rep. 2016;6:36111. Epub 2016/10/27. |
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Androgen receptor profiling predicts prostate cancer outcome. Stelloo S., Nevedomskaya E., van der Poel H. G., de Jong J., van Leenders G. J., Jenster G., Wessels L. F., Bergman A. M. and Zwart W. EMBO Mol Med. 2015;7(11):1450-64. Epub 2015/09/29. |
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Cystic fibrosis gene modifier SLC26A9 modulates airway response to CFTR-directed therapeutics. Strug L. J., Gonska T., He G., Keenan K., Ip W., Boelle P. Y., Lin F., Panjwani N., Gong J., Li W., Soave D., Xiao B., Tullis E., Rabin H., Parkins M. D., Price A., Zuberbuhler P. C., Corvol H., Ratjen F., Sun L., Bear C. E. and Rommens J. M. Hum Mol Genet. 2016;25(20):4590-4600. Epub 2017/02/09. |
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DNA Hypermethylation Encroachment at CpG Island Borders in Cancer Is Predisposed by H3K4 Monomethylation Patterns. Skvortsova K., Masle-Farquhar E., Luu P. L., Song J. Z., Qu W., Zotenko E., Gould C. M., Du Q., Peters T. J., Colino-Sanguino Y., Pidsley R., Nair S. S., Khoury A., Smith G. C., Miosge L. A., Reed J. H., Kench J. G., Rubin M. A., Horvath L., Bogdanovic O., Lim S. M., Polo J. M., Goodnow C. C., Stirzaker C. and Clark S. J. Cancer Cell. 2019;35(2):297-314 e8. Epub 2019/02/13. |
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LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor. Sheffield N. C. and Bock C. Bioinformatics. 2016;32(4):587-9. Epub 2015/10/29. |
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ONECUT2 is a targetable master regulator of lethal prostate cancer that suppresses the androgen axis. Rotinen M., You S., Yang J., Coetzee S. G., Reis-Sobreiro M., Huang W. C., Huang F., Pan X., Yanez A., Hazelett D. J., Chu C. Y., Steadman K., Morrissey C. M., Nelson P. S., Corey E., Chung L. W. K., Freedland S. J., Di Vizio D., Garraway I. P., Murali R., Knudsen B. S. and Freeman M. R. Nat Med. 2018;24(12):1887-1898. Epub 2018/11/28. |
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Topoisomerase 1 inhibition suppresses inflammatory genes and protects from death by inflammation. Rialdi A., Campisi L., Zhao N., Lagda A. C., Pietzsch C., Ho J. S. Y., Martinez-Gil L., Fenouil R., Chen X., Edwards M., Metreveli G., Jordan S., Peralta Z., Munoz-Fontela C., Bouvier N., Merad M., Jin J., Weirauch M., Heinz S., Benner C., van Bakel H., Basler C., Garcia-Sastre A., Bukreyev A. and Marazzi I. Science. 2016;352(6289):aad7993. Epub 2016/04/30. |
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The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. Rigden D. J. and Fernandez X. M. Nucleic Acids Res. 2018;46(D1):D1-D7. Epub 2018/01/11. |
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ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline. Qin Q., Mei S., Wu Q., Sun H., Li L., Taing L., Chen S., Li F., Liu T., Zang C., Xu H., Chen Y., Meyer C. A., Zhang Y., Brown M., Long H. W. and Liu X. S. BMC Bioinformatics. 2016;17(1):404. Epub 2016/10/08. |
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Epigenomic Promoter Alterations Amplify Gene Isoform and Immunogenic Diversity in Gastric Adenocarcinoma. Qamra A., Xing M., Padmanabhan N., Kwok J. J. T., Zhang S., Xu C., Leong Y. S., Lee Lim A. P., Tang Q., Ooi W. F., Suling Lin J., Nandi T., Yao X., Ong X., Lee M., Tay S. T., Keng A. T. L., Gondo Santoso E., Ng C. C. Y., Ng A., Jusakul A., Smoot D., Ashktorab H., Rha S. Y., Yeoh K. G., Peng Yong W., Chow P. K. H., Chan W. H., Ong H. S., Soo K. C., Kim K. M., Wong W. K., Rozen S. G., Teh B. T., Kappei D., Lee J., Connolly J. and Tan P. Cancer Discov. 2017;7(6):630-651. Epub 2017/03/23. |
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A microRNA-328 binding site in PAX6 is associated with centrotemporal spikes of rolandic epilepsy. Panjwani N., Wilson M. D., Addis L., Crosbie J., Wirrell E., Auvin S., Caraballo R. H., Kinali M., McCormick D., Oren C., Taylor J., Trounce J., Clarke T., Akman C. I., Kugler S. L., Mandelbaum D. E., McGoldrick P., Wolf S. M., Arnold P., Schachar R., Pal D. K. and Strug L. J. Ann Clin Transl Neurol. 2016;3(7):512-22. Epub 2016/07/08. |
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Parkinson's disease genetic risk in a midbrain neuronal cell line. Pierce S. E., Tyson T., Booms A., Prahl J. and Coetzee G. A. Neurobiol Dis. 2018;114:53-64. Epub 2018/02/28. |
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Epigenomic profiling of primary gastric adenocarcinoma reveals super-enhancer heterogeneity. Ooi W. F., Xing M., Xu C., Yao X., Ramlee M. K., Lim M. C., Cao F., Lim K., Babu D., Poon L. F., Lin Suling J., Qamra A., Irwanto A., Qu Zhengzhong J., Nandi T., Lee-Lim A. P., Chan Y. S., Tay S. T., Lee M. H., Davies J. O., Wong W. K., Soo K. C., Chan W. H., Ong H. S., Chow P., Wong C. Y., Rha S. Y., Liu J., Hillmer A. M., Hughes J. R., Rozen S., Teh B. T., Fullwood M. J., Li S. and Tan P. Nat Commun. 2016;7:12983. Epub 2016/09/30. |
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Genetic and enzymatic characterization of 3-O-sulfotransferase SNPs associated with Plasmodium falciparum parasitaemia. Nguyen N. T., Vives R. R., Torres M., Delauzun V., Saesen E., Roig-Zamboni V., Lortat-Jacob H., Rihet P. and Bourne Y. Glycobiology. 2018;28(7):534-541. Epub 2018/05/03. |
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ChIP-Atlas: a data-mining suite powered by full integration of public ChIP-seq data. Oki S., Ohta T., Shioi G., Hatanaka H., Ogasawara O., Okuda Y., Kawaji H., Nakaki R., Sese J. and Meno C. EMBO Rep. 2018;19(12). Epub 2018/11/11. |
| 2018 |
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Genetic and enzymatic characterization of 3-O-sulfotransferase SNPs associated with Plasmodium falciparum parasitaemia. Nguyen N. T., Vives R. R., Torres M., Delauzun V., Saesen E., Roig-Zamboni V., Lortat-Jacob H., Rihet P. and Bourne Y. Glycobiology. 2018;28(7):534-541. Epub 2018/05/03. |
| 2017 |
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Recent advances in ChIP-seq analysis: from quality management to whole-genome annotation. Nakato R. and Shirahige K. Brief Bioinform. 2017;18(2):279-290. Epub 2016/03/17. |
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BRD4 localization to lineage-specific enhancers is associated with a distinct transcription factor repertoire. Najafova Z., Tirado-Magallanes R., Subramaniam M., Hossan T., Schmidt G., Nagarajan S., Baumgart S. J., et al. Nucleic Acids Res. 2017;45(1):127-141. Epub 2016/09/22. |
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LOLAweb: a containerized web server for interactive genomic locus overlap enrichment analysis. Nagraj V. P., Magee N. E. and Sheffield N. C. Nucleic Acids Res. 2018;46(W1):W194-W199. Epub 2018/06/08. |
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LOLAweb: a containerized web server for interactive genomic locus overlap enrichment analysis. Nagraj V. P., Magee N. E. and Sheffield N. C. Nucleic Acids Res. 2018;46(W1):W194-W199. Epub 2018/06/08. |
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SP1 and STAT3 Functionally Synergize to Induce the RhoU Small GTPase and a Subclass of Non-canonical WNT Responsive Genes Correlating with Poor Prognosis in Breast Cancer. Monteleone E., Orecchia V., Corrieri P., Schiavone D., Avalle L., Moiso E., Savino A., Molineris I., Provero P. and Poli V. Cancers (Basel). 2019;11(1). Epub 2019/01/19. |
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Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay (EMSA) and DNA-affinity Precipitation Assay (DAPA). Miller D. E., Patel Z. H., Lu X., Lynch A. T., Weirauch M. T. and Kottyan L. C. J Vis Exp. 2016(114). Epub 2016/09/02. |
| 2017 |
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Histone deacetylase class-I inhibition promotes epithelial gene expression in pancreatic cancer cells in a BRD4- and MYC-dependent manner. Mishra V. K., Wegwitz F., Kosinsky R. L., Sen M., Baumgartner R., Wulff T., Siveke J. T., Schildhaus H. U., Najafova Z., Kari V., Kohlhof H., Hessmann E. and Johnsen S. A. Nucleic Acids Res. 2017;45(11):6334-6349. Epub 2017/04/04. |
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Application of dual reading domains as novel reagents in chromatin biology reveals a new H3K9me3 and H3K36me2/3 bivalent chromatin state. Mauser R., Kungulovski G., Keup C., Reinhardt R. and Jeltsch A. Epigenetics Chromatin. 2017;10(1):45. Epub 2017/09/28. |
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The next generation of melanocyte data: Genetic, epigenetic, and transcriptional resource datasets and analysis tools. Loftus S. K. Pigment Cell Melanoma Res. 2018;31(3):442-447. Epub 2018/01/18. |
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Transcription Factor IRF4 Promotes CD8(+) T Cell Exhaustion and Limits the Development of Memory-like T Cells during Chronic Infection. Man K., Gabriel S. S., Liao Y., Gloury R., Preston S., Henstridge D. C., Pellegrini M., Zehn D., Berberich-Siebelt F., Febbraio M. A., Shi W. and Kallies A. Immunity. 2017;47(6):1129-1141 e5. Epub 2017/12/17. |
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Modeling co-occupancy of transcription factors using chromatin features. Liu L., Zhao W. and Zhou X. Nucleic Acids Res. 2016;44(5):e49. Epub 2015/11/22. |
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Systematic target function annotation of human transcription factors. Li Y. F. and Altman R. B. BMC Biol. 2018;16(1):4. Epub 2018/01/13. |
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ConTra v3: a tool to identify transcription factor binding sites across species, update 2017. Kreft L., Soete A., Hulpiau P., Botzki A., Saeys Y. and De Bleser P. Nucleic Acids Res. 2017;45(W1):W490-W494. Epub 2017/05/05. |
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C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution. Kouno T., Moody J., Kwon A. T., Shibayama Y., Kato S., Huang Y., Bottcher M., Motakis E., Mendez M., Severin J., Luginbuhl J., Abugessaisa I., Hasegawa A., Takizawa S., Arakawa T., Furuno M., Ramalingam N., West J., Suzuki H., Kasukawa T., Lassmann T., Hon C. C., Arner E., Carninci P., Plessy C. and Shin J. W. Nat Commun. 2019;10(1):360. Epub 2019/01/22. |
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Genome-wide association study of self-reported food reactions in Japanese identifies shrimp and peach specific loci in the HLA-DR/DQ gene region. Khor S. S., Morino R., Nakazono K., Kamitsuji S., Akita M., Kawajiri M., Yamasaki T., Kami A., Hoshi Y., Tada A., Ishikawa K., Hine M., Kobayashi M., Kurume N., Kamatani N., Tokunaga K. and Johnson T. A. Sci Rep. 2018;8(1):1069. Epub 2018/01/20. |
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Intervene: a tool for intersection and visualization of multiple gene or genomic region sets. Khan A. and Mathelier A. BMC Bioinformatics. 2017;18(1):287. Epub 2017/06/02. |
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A common haplotype lowers PU.1 expression in myeloid cells and delays onset of Alzheimer's disease. Huang K. L., Marcora E., Pimenova A. A., Di Narzo A. F., Kapoor M., Jin S. C., Harari O., et al. Nat Neurosci. 2017;20(8):1052-1061. Epub 2017/06/20. |
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JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework. Khan A., Fornes O., Stigliani A., Gheorghe M., Castro-Mondragon J. A., van der Lee R., Bessy A., Cheneby J., Kulkarni S. R., Tan G., Baranasic D., Arenillas D. J., Sandelin A., Vandepoele K., Lenhard B., Ballester B., Wasserman W. W., Parcy F. and Mathelier A. Nucleic Acids Res. 2018;46(D1):D260-D266. Epub 2017/11/16. |
| 2018 |
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Japanese GWAS identifies variants for bust-size, dysmenorrhea, and menstrual fever that are eQTLs for relevant protein-coding or long non-coding RNAs. Hirata T., Koga K., Johnson T. A., Morino R., Nakazono K., Kamitsuji S., Akita M., Kawajiri M., Kami A., Hoshi Y., Tada A., Ishikawa K., Hine M., Kobayashi M., Kurume N., Fujii T., Kamatani N. and Osuga Y. Sci Rep. 2018;8(1):8502. Epub 2018/06/02. |
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Integrative whole-genome sequence analysis reveals roles of regulatory mutations in BCL6 and BCL2 in follicular lymphoma. Batmanov K., Wang W., Bjoras M., Delabie J. and Wang J. Sci Rep. 2017;7(1):7040. Epub 2017/08/03. |
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CHD1 regulates cell fate determination by activation of differentiation-induced genes. Baumgart S. J., Najafova Z., Hossan T., Xie W., Nagarajan S., Kari V., Ditzel N., Kassem M. and Johnsen S. A. Nucleic Acids Res. 2017;45(13):7722-7735. Epub 2017/05/06. |
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Genetic variants with gene regulatory effects are associated with diisocyanate-induced asthma. Bernstein D. I., Lummus Z. L., Kesavalu B., Yao J., Kottyan L., Miller D., Cartier A., Cruz M. J., Lemiere C., Munoz X., Quirce S., Tarlo S., Sastre J., Boulet L. P., Weirauch M. T. and Kaufman K. J Allergy Clin Immunol. 2018;142(3):959-969. Epub 2018/07/04. |
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The quality agenda: governance and regulation of preschool teachers’ work. Grant S., Comber B., Danby S., Theobald M. and Thorpe K. Cambridge Journal of Education. 2018;48(4):515-532. | |
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Transcription factors operate across disease loci, with EBNA2 implicated in autoimmunity. Harley J. B., Chen X., Pujato M., Miller D., Maddox A., Forney C., Magnusen A. F., et al. Nat Genet. 2018;50(5):699-707. Epub 2018/04/18. |
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Epigenetic Identity in AML Depends on Disruption of Nonpromoter Regulatory Elements and Is Affected by Antagonistic Effects of Mutations in Epigenetic Modifiers. Glass J. L., Hassane D., Wouters B. J., Kunimoto H., Avellino R., Garrett-Bakelman F. E., Guryanova O. A., Bowman R., Redlich S., Intlekofer A. M., Meydan C., Qin T., Fall M., Alonso A., Guzman M. L., Valk P. J. M., Thompson C. B., Levine R., Elemento O., Delwel R., Melnick A. and Figueroa M. E. Cancer Discov. 2017;7(8):868-883. Epub 2017/04/15. |
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MANTA2, update of the Mongo database for the analysis of transcription factor binding site alterations. Fornes O., Gheorghe M., Richmond P. A., Arenillas D. J., Wasserman W. W. and Mathelier A. Sci Data. 2018;5:180141. Epub 2018/07/25. |
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DNA methylation at enhancers identifies distinct breast cancer lineages. Fleischer T., Tekpli X., Mathelier A., Wang S., Nebdal D., Dhakal H. P., Sahlberg K. K., Schlichting E., Borresen-Dale A. L., Borgen E., Naume B., Eskeland R., Frigessi A., Tost J., Hurtado A. and Kristensen V. N. Nat Commun. 2017;8(1):1379. Epub 2017/11/11. |
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Dissecting the genomic activity of a transcriptional regulator by the integrative analysis of omics data. Ferrero G., Miano V., Beccuti M., Balbo G., De Bortoli M. and Cordero F. Sci Rep. 2017;7(1):8564. Epub 2017/08/19. |
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Genome-wide association study in Japanese females identifies fifteen novel skin-related trait associations. Endo C., Johnson T. A., Morino R., Nakazono K., Kamitsuji S., Akita M., Kawajiri M., Yamasaki T., Kami A., Hoshi Y., Tada A., Ishikawa K., Hine M., Kobayashi M., Kurume N., Tsunemi Y., Kamatani N. and Kawashima M. Sci Rep. 2018;8(1):8974. Epub 2018/06/14. |
| 2018 |
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Genome-wide association study in Japanese females identifies fifteen novel skin-related trait associations. Endo C., Johnson T. A., Morino R., Nakazono K., Kamitsuji S., Akita M., Kawajiri M., Yamasaki T., Kami A., Hoshi Y., Tada A., Ishikawa K., Hine M., Kobayashi M., Kurume N., Tsunemi Y., Kamatani N. and Kawashima M. Sci Rep. 2018;8(1):8974. Epub 2018/06/14. |
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Epigenomic annotation-based interpretation of genomic data: from enrichment analysis to machine learning. Dozmorov M. G. Bioinformatics. 2017;33(20):3323-3330. Epub 2017/10/14. |
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Gene expression changes in damaged osteoarthritic cartilage identify a signature of non-chondrogenic and mechanical responses. Dunn S. L., Soul J., Anand S., Schwartz J. M., Boot-Handford R. P. and Hardingham T. E. Osteoarthritis Cartilage. 2016;24(8):1431-40. Epub 2016/03/15. |
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Tracing ‘the Social’ in Processes of Rural Development in Kyrgyzstan. Dergousoff D. Forum for Development Studies. 2017;44(3):473-492. | |
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Insights into mammalian transcription control by systematic analysis of ChIP sequencing data. Devailly G. and Joshi A. BMC Bioinformatics. 2018;19(Suppl 14):409. Epub 2018/11/21. |
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By the company they keep: interaction networks define the binding ability of transcription factors. Cirillo D., Botta-Orfila T. and Tartaglia G. G. Nucleic Acids Res. 2015;43(19):e125. Epub 2015/06/20. |
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c-Myc is a novel Leishmania virulence factor by proxy that targets the host miRNA system and is essential for survival in human macrophages. Colineau L., Lambertz U., Fornes O., Wasserman W. W. and Reiner N. E. J Biol Chem. 2018;293(33):12805-12819. Epub 2018/06/24. |
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Loss of androgen receptor signaling in prostate cancer-associated fibroblasts (CAFs) promotes CCL2- and CXCL8-mediated cancer cell migration. Cioni B., Nevedomskaya E., Melis M. H. M., van Burgsteden J., Stelloo S., Hodel E., Spinozzi D., de Jong J., van der Poel H., de Boer J. P., Wessels L. F. A., Zwart W. and Bergman A. M. Mol Oncol. 2018;12(8):1308-1323. Epub 2018/05/29. |
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DNA methylation at the mu-1 opioid receptor gene (OPRM1) promoter predicts preoperative, acute, and chronic postsurgical pain after spine fusion. Chidambaran V., Zhang X., Martin L. J., Ding L., Weirauch M. T., Geisler K., Stubbeman B. L., Sadhasivam S. and Ji H. Pharmgenomics Pers Med. 2017;10:157-168. Epub 2017/05/24. |
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ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP-seq experiments. Cheneby J., Gheorghe M., Artufel M., Mathelier A. and Ballester B. Nucleic Acids Res. 2018;46(D1):D267-D275. Epub 2017/11/11. |
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Orchid: a novel management, annotation and machine learning framework for analyzing cancer mutations. Cario C. L. and Witte J. S. Bioinformatics. 2018;34(6):936-942. Epub 2017/11/07. |
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Goldmine integrates information placing genomic ranges into meaningful biological contexts. Bhasin J. M. and Ting A. H. Nucleic Acids Res. 2016;44(12):5550-6. Epub 2016/06/04. |
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Contextual Refinement of Regulatory Targets Reveals Effects on Breast Cancer Prognosis of the Regulome. Andrews E., Wang Y., Xia T., Cheng W. and Cheng C. PLoS Comput Biol. 2017;13(1):e1005340. Epub 2017/01/20. |
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Beyond genome-wide scan: Association of a cis-regulatory NCR3 variant with mild malaria in a population living in the Republic of Congo. Baaklini S., Afridi S., Nguyen T. N., Koukouikila-Koussounda F., Ndounga M., Imbert J., Torres M., Pradel L., Ntoumi F. and Rihet P. PLoS One. 2017;12(11):e0187818. Epub 2017/11/10. |
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Diesel exhaust and house dust mite allergen lead to common changes in the airway methylome and hydroxymethylome. Zhang X., Chen X., Weirauch M. T., Burleson J. D., Brandt E. B. and Ji H. Environ Epigenet. 2018;4(3):dvy020. Epub 2018/08/10. |
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ChIP-PIT: Enhancing the Analysis of ChIP-Seq Data Using Convex-Relaxed Pair-Wise Interaction Tensor Decomposition. Zhu L., Guo W. L., Deng S. P. and Huang D. S. IEEE/ACM Trans Comput Biol Bioinform. 2016;13(1):55-63. Epub 2016/02/18. |
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Collaborative Completion of Transcription Factor Binding Profiles via Local Sensitive Unified Embedding. Zhu L., Guo W. L., Lu C. and Huang D. S. IEEE Trans Nanobioscience. 2016;15(8):946-958. Epub 2016/11/16. |
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