| Year |
Citation |
Score |
| 2022 |
Rummukainen P, Tarkkonen K, Dudakovic A, Al-Majidi R, Nieminen-Pihala V, Valensisi C, Hawkins RD, van Wijnen AJ, Kiviranta R. Lysine-Specific Demethylase 1 (LSD1) epigenetically controls osteoblast differentiation. Plos One. 17: e0265027. PMID 35255108 DOI: 10.1371/journal.pone.0265027 |
0.371 |
|
| 2021 |
Leonen CJA, Shimada M, Weller CE, Nakadai T, Hsu PL, Tyson EL, Mishra A, Shelton PMM, Sadilek M, Hawkins RD, Zheng N, Roeder RG, Chatterjee C. Sumoylation of the human histone H4 tail inhibits p300-mediated transcription by RNA polymerase II in cellular extracts. Elife. 10. PMID 34747692 DOI: 10.7554/eLife.67952 |
0.312 |
|
| 2020 |
Yu B, Doni Jayavelu N, Battle SL, Mar JC, Schimmel T, Cohen J, Hawkins RD. Single-cell analysis of transcriptome and DNA methylome in human oocyte maturation. Plos One. 15: e0241698. PMID 33152014 DOI: 10.1371/journal.pone.0241698 |
0.377 |
|
| 2020 |
Doni Jayavelu N, Jajodia A, Mishra A, Hawkins RD. Candidate silencer elements for the human and mouse genomes. Nature Communications. 11: 1061. PMID 32103011 DOI: 10.1038/S41467-020-14853-5 |
0.438 |
|
| 2019 |
Li C, Mishra AS, Gil S, Wang M, Georgakopoulou A, Papayannopoulou T, Hawkins RD, Lieber A. Targeted Integration and High-Level Transgene Expression in AAVS1 Transgenic Mice after In Vivo HSC Transduction with HDAd5/35++ Vectors. Molecular Therapy : the Journal of the American Society of Gene Therapy. PMID 31494053 DOI: 10.1016/J.Ymthe.2019.08.006 |
0.321 |
|
| 2019 |
Singh DD, Hawkins RD, Lahesmaa R, Tripathi SK. CRISPR/Cas9 guided genome and epigenome engineering and its therapeutic applications in immune mediated diseases. Seminars in Cell & Developmental Biology. PMID 31112800 DOI: 10.1016/J.Semcdb.2019.05.007 |
0.41 |
|
| 2019 |
Yu B, Smith TH, Battle SL, Ferrell S, Hawkins RD. Superovulation alters global DNA methylation in early mouse embryo development. Epigenetics. PMID 31060426 DOI: 10.1080/15592294.2019.1615353 |
0.451 |
|
| 2019 |
Battle SL, Doni Jayavelu N, Azad RN, Hesson J, Ahmed FN, Overbey EG, Zoller JA, Mathieu J, Ruohola-Baker H, Ware CB, Hawkins RD. Enhancer Chromatin and 3D Genome Architecture Changes from Naive to Primed Human Embryonic Stem Cell States. Stem Cell Reports. PMID 31056477 DOI: 10.1016/J.Stemcr.2019.04.004 |
0.386 |
|
| 2019 |
Mathieu J, Detraux D, Kuppers D, Wang Y, Cavanaugh C, Sidhu S, Levy S, Robitaille AM, Ferreccio A, Bottorff T, McAlister A, Somasundaram L, Artoni F, Battle S, Hawkins RD, et al. Folliculin regulates mTORC1/2 and WNT pathways in early human pluripotency. Nature Communications. 10: 632. PMID 30733432 DOI: 10.1038/S41467-018-08020-0 |
0.305 |
|
| 2018 |
Yizhar-Barnea O, Valensisi C, Jayavelu ND, Kishore K, Andrus C, Koffler-Brill T, Ushakov K, Perl K, Noy Y, Bhonker Y, Pelizzola M, Hawkins RD, Avraham KB. DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory sensory epithelium. Scientific Reports. 8: 17348. PMID 30478432 DOI: 10.1038/S41598-018-35587-X |
0.432 |
|
| 2018 |
Li C, Psatha N, Sova P, Gil S, Wang H, Kim J, Kulkarni C, Valensisi C, Hawkins RD, Stamatoyannopoulos G, Lieber A. Reactivation of γ-globin in adult β-YAC mice after ex vivo and in vivo hematopoietic stem cell genome editing. Blood. PMID 29789357 DOI: 10.1182/Blood-2018-03-838540 |
0.357 |
|
| 2017 |
Mishra A, Hawkins RD. Three-dimensional genome architecture and emerging technologies: looping in disease. Genome Medicine. 9: 87. PMID 28964259 DOI: 10.1186/S13073-017-0477-2 |
0.414 |
|
| 2017 |
Moody JD, Levy S, Mathieu J, Xing Y, Kim W, Dong C, Tempel W, Robitaille AM, Dang LT, Ferreccio A, Detraux D, Sidhu S, Zhu L, Carter L, Xu C, ... ... Hawkins RD, et al. First critical repressive H3K27me3 marks in embryonic stem cells identified using designed protein inhibitor. Proceedings of the National Academy of Sciences of the United States of America. PMID 28864533 DOI: 10.1073/Pnas.1706907114 |
0.401 |
|
| 2017 |
Pasumarthy KK, Doni Jayavelu N, Kilpinen L, Andrus C, Battle SL, Korhonen M, Lehenkari P, Lund R, Laitinen S, Hawkins RD. Methylome Analysis of Human Bone Marrow MSCs Reveals Extensive Age- and Culture-Induced Changes at Distal Regulatory Elements. Stem Cell Reports. PMID 28844656 DOI: 10.1016/J.Stemcr.2017.07.018 |
0.477 |
|
| 2017 |
Valensisi C, Andrus C, Buckberry S, Doni Jayavelu N, Lund RJ, Lister R, Hawkins RD. Epigenomic Landscapes of hESC-Derived Neural Rosettes: Modeling Neural Tube Formation and Diseases. Cell Reports. 20: 1448-1462. PMID 28793267 DOI: 10.1016/J.Celrep.2017.07.036 |
0.387 |
|
| 2017 |
Yu B, Dong X, Gravina S, Kartal Ö, Schimmel T, Cohen J, Tortoriello D, Zody R, Hawkins RD, Vijg J. Genome-wide, Single-Cell DNA Methylomics Reveals Increased Non-CpG Methylation during Human Oocyte Maturation. Stem Cell Reports. PMID 28648898 DOI: 10.1016/J.Stemcr.2017.05.026 |
0.489 |
|
| 2017 |
Saarimäki-Vire J, Balboa D, Russell MA, Saarikettu J, Kinnunen M, Keskitalo S, Malhi A, Valensisi C, Andrus C, Eurola S, Grym H, Ustinov J, Wartiovaara K, Hawkins RD, Silvennoinen O, et al. An Activating STAT3 Mutation Causes Neonatal Diabetes through Premature Induction of Pancreatic Differentiation. Cell Reports. 19: 281-294. PMID 28402852 DOI: 10.1016/J.Celrep.2017.03.055 |
0.346 |
|
| 2016 |
Celik S, Logsdon BA, Battle S, Drescher CW, Rendi M, Hawkins RD, Lee SI. Extracting a low-dimensional description of multiple gene expression datasets reveals a potential driver for tumor-associated stroma in ovarian cancer. Genome Medicine. 8: 66. PMID 27287041 DOI: 10.1186/S13073-016-0319-7 |
0.305 |
|
| 2016 |
Konki M, Pasumarthy K, Malonzo M, Sainio A, Valensisi C, Söderström M, Emani MR, Stubb A, Närvä E, Ghimire B, Laiho A, Järveläinen H, Lahesmaa R, Lähdesmäki H, Hawkins RD, et al. Epigenetic Silencing of the Key Antioxidant Enzyme Catalase in Karyotypically Abnormal Human Pluripotent Stem Cells. Scientific Reports. 6: 22190. PMID 26911679 DOI: 10.1038/Srep22190 |
0.501 |
|
| 2016 |
Kyttälä A, Moraghebi R, Valensisi C, Kettunen J, Andrus C, Pasumarthy KK, Nakanishi M, Nishimura K, Ohtaka M, Weltner J, Van Handel B, Parkkonen O, Sinisalo J, Jalanko A, Hawkins RD, et al. Genetic Variability Overrides the Impact of Parental Cell Type and Determines iPSC Differentiation Potential. Stem Cell Reports. 6: 200-12. PMID 26777058 DOI: 10.1016/J.Stemcr.2015.12.009 |
0.414 |
|
| 2016 |
Konki M, Pasumarthy K, Malonzo M, Sainio A, Valensisi C, Söderström M, Emani MR, Stubb A, Närvä E, Ghimire B, Laiho A, Järveläinen H, Lahesmaa R, Lähdesmäki H, Hawkins RD, et al. Epigenetic Silencing of the Key Antioxidant Enzyme Catalase in Karyotypically Abnormal Human Pluripotent Stem Cells Scientific Reports. 6. DOI: 10.1038/srep22190 |
0.408 |
|
| 2015 |
Valensisi C, Liao JL, Andrus C, Battle SL, Hawkins RD. cChIP-seq: a robust small-scale method for investigation of histone modifications. Bmc Genomics. 16: 1083. PMID 26692029 DOI: 10.1186/S12864-015-2285-7 |
0.426 |
|
| 2015 |
Kanduri K, Tripathi S, Larjo A, Mannerström H, Ullah U, Lund R, Hawkins RD, Ren B, Lähdesmäki H, Lahesmaa R. Identification of global regulators of T-helper cell lineage specification. Genome Medicine. 7: 122. PMID 26589177 DOI: 10.1186/S13073-015-0237-0 |
0.488 |
|
| 2015 |
Sperber H, Mathieu J, Wang Y, Ferreccio A, Hesson J, Xu Z, Fischer KA, Devi A, Detraux D, Gu H, Battle SL, Showalter M, Valensisi C, Bielas JH, Ericson NG, ... ... Hawkins RD, et al. The metabolome regulates the epigenetic landscape during naive-to-primed human embryonic stem cell transition. Nature Cell Biology. PMID 26571212 DOI: 10.1038/Ncb3264 |
0.506 |
|
| 2015 |
Kotini AG, Chang CJ, Boussaad I, Delrow JJ, Dolezal EK, Nagulapally AB, Perna F, Fishbein GA, Klimek VM, Hawkins RD, Huangfu D, Murry CE, Graubert T, Nimer SD, Papapetrou EP. Functional analysis of a chromosomal deletion associated with myelodysplastic syndromes using isogenic human induced pluripotent stem cells. Nature Biotechnology. 33: 646-55. PMID 25798938 DOI: 10.1038/Nbt.3178 |
0.351 |
|
| 2015 |
Gupta B, Hawkins RD. Epigenomics of autoimmune diseases. Immunology and Cell Biology. 93: 271-6. PMID 25776989 DOI: 10.1038/Icb.2015.18 |
0.441 |
|
| 2015 |
Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, ... ... Hawkins RD, et al. Integrative analysis of 111 reference human epigenomes. Nature. 518: 317-30. PMID 25693563 DOI: 10.1038/Nature14248 |
0.752 |
|
| 2015 |
Battle SL, Larjo A, Liao J, Lähdesmäki H, Lieber A, Hawkins RD. Abstract AS04: Epigenomic characterization of gene regulatory networks in human ovarian cancer stem cells Clinical Cancer Research. 21. DOI: 10.1158/1557-3265.Ovcasymp14-As04 |
0.498 |
|
| 2014 |
Ware CB, Nelson AM, Mecham B, Hesson J, Zhou W, Jonlin EC, Jimenez-Caliani AJ, Deng X, Cavanaugh C, Cook S, Tesar PJ, Okada J, Margaretha L, Sperber H, Choi M, ... ... Hawkins RD, et al. Derivation of naive human embryonic stem cells. Proceedings of the National Academy of Sciences of the United States of America. 111: 4484-9. PMID 24623855 DOI: 10.1073/Pnas.1319738111 |
0.431 |
|
| 2014 |
Lister R, Pelizzola M, Kida YS, Hawkins RD, Nery JR, Hon G, Antosiewicz-Bourget J, O'Malley R, Castanon R, Klugman S, Downes M, Yu R, Stewart R, Ren B, Thomson JA, et al. Corrigendum: Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells Nature. 514: 126. DOI: 10.1038/Nature13843 |
0.71 |
|
| 2013 |
Hawkins RD, Larjo A, Tripathi SK, Wagner U, Luu Y, Lönnberg T, Raghav SK, Lee LK, Lund R, Ren B, Lähdesmäki H, Lahesmaa R. Global chromatin state analysis reveals lineage-specific enhancers during the initiation of human T helper 1 and T helper 2 cell polarization. Immunity. 38: 1271-84. PMID 23791644 DOI: 10.1016/J.Immuni.2013.05.011 |
0.558 |
|
| 2013 |
Xie W, Schultz MD, Lister R, Hou Z, Rajagopal N, Ray P, Whitaker JW, Tian S, Hawkins RD, Leung D, Yang H, Wang T, Lee AY, Swanson SA, Zhang J, et al. Epigenomic analysis of multilineage differentiation of human embryonic stem cells. Cell. 153: 1134-48. PMID 23664764 DOI: 10.1016/J.Cell.2013.04.022 |
0.701 |
|
| 2012 |
Sajan SA, Hawkins RD. Methods for identifying higher-order chromatin structure. Annual Review of Genomics and Human Genetics. 13: 59-82. PMID 22703176 DOI: 10.1146/Annurev-Genom-090711-163818 |
0.462 |
|
| 2012 |
Hon GC, Hawkins RD, Caballero OL, Lo C, Lister R, Pelizzola M, Valsesia A, Ye Z, Kuan S, Edsall LE, Camargo AA, Stevenson BJ, Ecker JR, Bafna V, Strausberg RL, et al. Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer. Genome Research. 22: 246-58. PMID 22156296 DOI: 10.1101/Gr.125872.111 |
0.723 |
|
| 2011 |
Hawkins RD, Hon GC, Yang C, Antosiewicz-Bourget JE, Lee LK, Ngo QM, Klugman S, Ching KA, Edsall LE, Ye Z, Kuan S, Yu P, Liu H, Zhang X, Green RD, et al. Dynamic chromatin states in human ES cells reveal potential regulatory sequences and genes involved in pluripotency. Cell Research. 21: 1393-409. PMID 21876557 DOI: 10.1038/Cr.2011.146 |
0.763 |
|
| 2011 |
Lister R, Pelizzola M, Kida YS, Hawkins RD, Nery JR, Hon G, Antosiewicz-Bourget J, O'Malley R, Castanon R, Klugman S, Downes M, Yu R, Stewart R, Ren B, Thomson JA, et al. Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells. Nature. 471: 68-73. PMID 21289626 DOI: 10.1038/Nature09798 |
0.763 |
|
| 2011 |
Egelhofer TA, Minoda A, Klugman S, Lee K, Kolasinska-Zwierz P, Alekseyenko AA, Cheung MS, Day DS, Gadel S, Gorchakov AA, Gu T, Kharchenko PV, Kuan S, Latorre I, Linder-Basso D, ... ... Hawkins RD, et al. An assessment of histone-modification antibody quality. Nature Structural & Molecular Biology. 18: 91-3. PMID 21131980 DOI: 10.1038/Nsmb.1972 |
0.477 |
|
| 2010 |
Harris RA, Wang T, Coarfa C, Nagarajan RP, Hong C, Downey SL, Johnson BE, Fouse SD, Delaney A, Zhao Y, Olshen A, Ballinger T, Zhou X, Forsberg KJ, Gu J, ... ... Hawkins RD, et al. Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Nature Biotechnology. 28: 1097-105. PMID 20852635 DOI: 10.1038/Nbt.1682 |
0.596 |
|
| 2010 |
Elo LL, Järvenpää H, Tuomela S, Raghav S, Ahlfors H, Laurila K, Gupta B, Lund RJ, Tahvanainen J, Hawkins RD, Orešič M, Lähdesmäki H, Rasool O, Rao KV, Aittokallio T, et al. Genome-wide profiling of interleukin-4 and STAT6 transcription factor regulation of human Th2 cell programming Immunity. 32: 852-862. PMID 20620947 DOI: 10.1016/J.Immuni.2010.06.011 |
0.407 |
|
| 2010 |
Hawkins RD, Hon GC, Ren B. Next-generation genomics: An integrative approach Nature Reviews Genetics. 11: 476-486. PMID 20531367 DOI: 10.1038/Nrg2795 |
0.691 |
|
| 2010 |
Hawkins RD, Hon GC, Lee LK, Ngo Q, Lister R, Pelizzola M, Edsall LE, Kuan S, Luu Y, Klugman S, Antosiewicz-Bourget J, Ye Z, Espinoza C, Agarwahl S, Shen L, et al. Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. Cell Stem Cell. 6: 479-91. PMID 20452322 DOI: 10.1016/J.Stem.2010.03.018 |
0.772 |
|
| 2009 |
Lister R, Pelizzola M, Dowen RH, Hawkins RD, Hon G, Tonti-Filippini J, Nery JR, Lee L, Ye Z, Ngo QM, Edsall L, Antosiewicz-Bourget J, Stewart R, Ruotti V, Millar AH, et al. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature. 462: 315-22. PMID 19829295 DOI: 10.1038/Nature08514 |
0.773 |
|
| 2009 |
Hon GC, Hawkins RD, Ren B. Predictive chromatin signatures in the mammalian genome Human Molecular Genetics. 18: R195-R201. PMID 19808796 DOI: 10.1093/Hmg/Ddp409 |
0.731 |
|
| 2009 |
Heintzman ND, Hon GC, Hawkins RD, Kheradpour P, Stark A, Harp LF, Ye Z, Lee LK, Stuart RK, Ching CW, Ching KA, Antosiewicz-Bourget JE, Liu H, Zhang X, Green RD, et al. Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature. 459: 108-12. PMID 19295514 DOI: 10.1038/Nature07829 |
0.749 |
|
| 2007 |
Heintzman ND, Stuart RK, Hon G, Fu Y, Ching CW, Hawkins RD, Barrera LO, Van Calcar S, Qu C, Ching KA, Wang W, Weng Z, Green RD, Crawford GE, Ren B. Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome Nature Genetics. 39: 311-318. PMID 17277777 DOI: 10.1038/Ng1966 |
0.739 |
|
| 2006 |
Hawkins RD, Ren B. Genome-wide location analysis: insights on transcriptional regulation. Human Molecular Genetics. 15: R1-7. PMID 16651365 DOI: 10.1093/Hmg/Ddl043 |
0.582 |
|
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