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Page 1
ENCODE data at the ENCODE portal.
Sloan CA, Chan ET, Davidson JM, Malladi VS, Strattan JS, Hitz BC, Gabdank I, Narayanan AK, Ho M, Lee BT, Rowe LD, Dreszer TR, Roe G, Podduturi NR, Tanaka F, Hong EL, Cherry JM. Sloan CA, et al. Among authors: strattan js. Nucleic Acids Res. 2016 Jan 4;44(D1):D726-32. doi: 10.1093/nar/gkv1160. Epub 2015 Nov 2. Nucleic Acids Res. 2016. PMID: 26527727 Free PMC article.
Ontology application and use at the ENCODE DCC.
Malladi VS, Erickson DT, Podduturi NR, Rowe LD, Chan ET, Davidson JM, Hitz BC, Ho M, Lee BT, Miyasato S, Roe GR, Simison M, Sloan CA, Strattan JS, Tanaka F, Kent WJ, Cherry JM, Hong EL. Malladi VS, et al. Among authors: strattan js. Database (Oxford). 2015 Mar 16;2015:bav010. doi: 10.1093/database/bav010. Print 2015. Database (Oxford). 2015. PMID: 25776021 Free PMC article. Review.
Principles of metadata organization at the ENCODE data coordination center.
Hong EL, Sloan CA, Chan ET, Davidson JM, Malladi VS, Strattan JS, Hitz BC, Gabdank I, Narayanan AK, Ho M, Lee BT, Rowe LD, Dreszer TR, Roe GR, Podduturi NR, Tanaka F, Hilton JA, Cherry JM. Hong EL, et al. Among authors: strattan js. Database (Oxford). 2016 Mar 15;2016:baw001. doi: 10.1093/database/baw001. Print 2016. Database (Oxford). 2016. PMID: 26980513 Free PMC article.
SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata.
Hitz BC, Rowe LD, Podduturi NR, Glick DI, Baymuradov UK, Malladi VS, Chan ET, Davidson JM, Gabdank I, Narayana AK, Onate KC, Hilton J, Ho MC, Lee BT, Miyasato SR, Dreszer TR, Sloan CA, Strattan JS, Tanaka FY, Hong EL, Cherry JM. Hitz BC, et al. Among authors: strattan js. PLoS One. 2017 Apr 12;12(4):e0175310. doi: 10.1371/journal.pone.0175310. eCollection 2017. PLoS One. 2017. PMID: 28403240 Free PMC article.
The Encyclopedia of DNA elements (ENCODE): data portal update.
Davis CA, Hitz BC, Sloan CA, Chan ET, Davidson JM, Gabdank I, Hilton JA, Jain K, Baymuradov UK, Narayanan AK, Onate KC, Graham K, Miyasato SR, Dreszer TR, Strattan JS, Jolanki O, Tanaka FY, Cherry JM. Davis CA, et al. Among authors: strattan js. Nucleic Acids Res. 2018 Jan 4;46(D1):D794-D801. doi: 10.1093/nar/gkx1081. Nucleic Acids Res. 2018. PMID: 29126249 Free PMC article.
Prevention of data duplication for high throughput sequencing repositories.
Gabdank I, Chan ET, Davidson JM, Hilton JA, Davis CA, Baymuradov UK, Narayanan A, Onate KC, Graham K, Miyasato SR, Dreszer TR, Strattan JS, Jolanki O, Tanaka FY, Hitz BC, Sloan CA, Cherry JM. Gabdank I, et al. Among authors: strattan js. Database (Oxford). 2018 Jan 1;2018:bay008. doi: 10.1093/database/bay008. Database (Oxford). 2018. PMID: 29688363 Free PMC article.
New developments on the Encyclopedia of DNA Elements (ENCODE) data portal.
Luo Y, Hitz BC, Gabdank I, Hilton JA, Kagda MS, Lam B, Myers Z, Sud P, Jou J, Lin K, Baymuradov UK, Graham K, Litton C, Miyasato SR, Strattan JS, Jolanki O, Lee JW, Tanaka FY, Adenekan P, O'Neill E, Cherry JM. Luo Y, et al. Among authors: strattan js. Nucleic Acids Res. 2020 Jan 8;48(D1):D882-D889. doi: 10.1093/nar/gkz1062. Nucleic Acids Res. 2020. PMID: 31713622 Free PMC article.
The ENCODE Portal as an Epigenomics Resource.
Jou J, Gabdank I, Luo Y, Lin K, Sud P, Myers Z, Hilton JA, Kagda MS, Lam B, O'Neill E, Adenekan P, Graham K, Baymuradov UK, R Miyasato S, Strattan JS, Jolanki O, Lee JW, Litton C, Y Tanaka F, Hitz BC, Cherry JM. Jou J, et al. Among authors: strattan js. Curr Protoc Bioinformatics. 2019 Dec;68(1):e89. doi: 10.1002/cpbi.89. Curr Protoc Bioinformatics. 2019. PMID: 31751002 Free PMC article.
An atlas of dynamic chromatin landscapes in mouse fetal development.
Gorkin DU, Barozzi I, Zhao Y, Zhang Y, Huang H, Lee AY, Li B, Chiou J, Wildberg A, Ding B, Zhang B, Wang M, Strattan JS, Davidson JM, Qiu Y, Afzal V, Akiyama JA, Plajzer-Frick I, Novak CS, Kato M, Garvin TH, Pham QT, Harrington AN, Mannion BJ, Lee EA, Fukuda-Yuzawa Y, He Y, Preissl S, Chee S, Han JY, Williams BA, Trout D, Amrhein H, Yang H, Cherry JM, Wang W, Gaulton K, Ecker JR, Shen Y, Dickel DE, Visel A, Pennacchio LA, Ren B. Gorkin DU, et al. Among authors: strattan js. Nature. 2020 Jul;583(7818):744-751. doi: 10.1038/s41586-020-2093-3. Epub 2020 Jul 29. Nature. 2020. PMID: 32728240 Free PMC article.
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