Papers

2021

ZNF410 Uniquely Activates the NuRD Component CHD4 to Silence Fetal Hemoglobin Expression. Lan X, Ren R, Feng R, Ly LC, Lan Y, Zhang Z, Aboreden N, Qin K, Horton JR, Grevet JD, Mayuranathan T, Abdulmalik O, Keller CA, Giardine B, Hardison RC, Crossley M, Weiss MJ, Cheng X, Shi J, Blobel GA. Mol Cell. 2021 Jan 21;81(2):239-254.e8. doi: 10.1016/j.molcel.2020.11.006. Epub 2020 Dec 9. PMID: 33301730

2020

The Nucleosome Remodeling and Deacetylase Complex Has an Asymmetric, Dynamic, and Modular Architecture. Low JKK, Silva APG, Sharifi Tabar M, Torrado M, Webb SR, Parker BL, Sana M, Smits C, Schmidberger JW, Brillault L, Jackman MJ, Williams DC Jr, Blobel GA, Hake SB, Shepherd NE, Landsberg MJ, Mackay JP. Cell Rep. 2020 Dec 1;33(9):108450. doi: 10.1016/j.celrep.2020.108450. PMID: 33264611 Free article.

HRI depletion cooperates with pharmacologic inducers to elevate fetal hemoglobin and reduce sickle cell formation. Peslak SA, Khandros E, Huang P, Lan X, Geronimo CL, Grevet JD, Abdulmalik O, Zhang Z, Giardine BM, Keller CA, Shi J, Hardison RC, Blobel GA. Blood Adv. 2020 Sep 22;4(18):4560-4572. doi: 10.1182/bloodadvances.2020002475. PMID: 32956454 Free PMC article.

Alteration of genome folding via contact domain boundary insertion. Zhang D, Huang P, Sharma M, Keller CA, Giardine B, Zhang H, Gilgenast TG, Phillips-Cremins JE, Hardison RC, Blobel GA. Nat Genet. 2020 Oct;52(10):1076-1087. doi: 10.1038/s41588-020-0680-8. Epub 2020 Aug 31. PMID: 32868908

The HRI-regulated transcription factor ATF4 activates BCL11A transcription to silence fetal hemoglobin expression. Huang P, Peslak SA, Lan X, Khandros E, Yano JA, Sharma M, Keller CA, Giardine B, Qin K, Abdulmalik O, Hardison RC, Shi J, Blobel GA. Blood. 2020 Jun 11;135(24):2121-2132. doi: 10.1182/blood.2020005301. PMID: 32299090

Understanding heterogeneity of fetal hemoglobin induction through comparative analysis of F and A erythroblasts. Khandros E, Huang P, Peslak SA, Sharma M, Abdulmalik O, Giardine BM, Zhang Z, Keller CA, Hardison RC, Blobel GA. Blood. 2020 May 28;135(22):1957-1968. doi: 10.1182/blood.2020005058. PMID: 32268371

Comparative structure-function analysis of bromodomain and extraterminal motif (BET) proteins in a gene-complementation system. Werner MT, Wang H, Hamagami N, Hsu SC, Yano JA, Stonestrom AJ, Behera V, Zhong Y, Mackay JP, Blobel GA. J Biol Chem. 2020 May 1;295(18):6251. doi: 10.1074/jbc.AAC120.013771. PMID: 32358084 Free PMC article. No abstract available.

An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis. Xiang G, Keller CA, Heuston E, Giardine BM, An L, Wixom AQ, Miller A, Cockburn A, Sauria MEG, Weaver K, Lichtenberg J, Göttgens B, Li Q, Bodine D, Mahony S, Taylor J, Blobel GA, Weiss MJ, Cheng Y, Yue F, Hughes J, Higgs DR, Zhang Y, Hardison RC. Genome Res. 2020 Mar;30(3):472-484. doi: 10.1101/gr.255760.119. Epub 2020 Mar 4. PMID: 32132109 Free PMC article.

2019

Spatial Genome Re-organization between Fetal and Adult Hematopoietic Stem Cells. Chen C, Yu W, Tober J, Gao P, He B, Lee K, Trieu T, Blobel GA, Speck NA, Tan K. Cell Rep. 2019 Dec 17;29(12):4200-4211.e7. doi: 10.1016/j.celrep.2019.11.065. PMID: 31851943 Free PMC article.

Comparative structure-function analysis of bromodomain and extraterminal motif (BET) proteins in a gene-complementation system. Werner MT, Wang H, Hamagami N, Hsu SC, Yano JA, Stonestrom AJ, Behera V, Zhong Y, Mackay JP, Blobel GA. J Biol Chem. 2020 Feb 14;295(7):1898-1914. doi: 10.1074/jbc.RA119.010679. Epub 2019 Dec 2. PMID: 31792058 Free article.

Chromatin structure dynamics during the mitosis-to-G1 phase transition. Zhang H, Emerson DJ, Gilgenast TG, Titus KR, Lan Y, Huang P, Zhang D, Wang H, Keller CA, Giardine B, Hardison RC, Phillips-Cremins JE, Blobel GA. Nature. 2019 Dec;576(7785):158-162. doi: 10.1038/s41586-019-1778-y. Epub 2019 Nov 27. PMID: 31776509 Free PMC article.

Systematic integration of GATA transcription factors and epigenomes via IDEAS paints the regulatory landscape of hematopoietic cells. Hardison RC, Zhang Y, Keller CA, Xiang G, Heuston EF, An L, Lichtenberg J, Giardine BM, Bodine D, Mahony S, Li Q, Yue F, Weiss MJ, Blobel GA, Taylor J, Hughes J, Higgs DR, Göttgens B. IUBMB Life. 2020 Jan;72(1):27-38. doi: 10.1002/iub.2195. Epub 2019 Nov 25. PMID: 31769130 Free PMC article. Review. The E3 ligase adaptor molecule SPOP regulates fetal hemoglobin levels in adult erythroid cells.

Lan X, Khandros E, Huang P, Peslak SA, Bhardwaj SK, Grevet JD, Abdulmalik O, Wang H, Keller CA, Giardine B, Baeza J, Duffner ER, El Demerdash O, Wu XS, Vakoc CR, Garcia BA, Hardison RC, Shi J, Blobel GA. Blood Adv. 2019 May 28;3(10):1586-1597. doi: 10.1182/bloodadvances.2019032318. PMID: 31126914 Free PMC article.

Interrogating Histone Acetylation and BRD4 as Mitotic Bookmarks of Transcription. Behera V, Stonestrom AJ, Hamagami N, Hsiung CC, Keller CA, Giardine B, Sidoli S, Yuan ZF, Bhanu NV, Werner MT, Wang H, Garcia BA, Hardison RC, Blobel GA. Cell Rep. 2019 Apr 9;27(2):400-415.e5. doi: 10.1016/j.celrep.2019.03.057. PMID: 30970245 Free PMC article.

2018

Transcriptional Burst Initiation and Polymerase Pause Release Are Key Control Points of Transcriptional Regulation. Bartman CR, Hamagami N, Keller CA, Giardine B, Hardison RC, Blobel GA, Raj A. Mol Cell. 2019 Feb 7;73(3):519-532.e4. doi: 10.1016/j.molcel.2018.11.004. Epub 2018 Dec 13. PMID: 30554946 Free PMC article.

The interdependence of gene-regulatory elements and the 3D genome. Vermunt MW, Zhang D, Blobel GA. J Cell Biol. 2019 Jan 7;218(1):12-26. doi: 10.1083/jcb.201809040. Epub 2018 Nov 15. PMID: 30442643 Free PMC article. Review. Charting a noncoding gene for γ-globin activation.Blobel GA, Crossley M. Blood. 2018 Nov 1;132(18):1865-1867. doi: 10.1182/blood-2018-09-873620. PMID: 30385490 No abstract available.

Robust erythroid differentiation system for rhesus hematopoietic progenitor cells allowing preclinical screening of genetic treatment strategies for the hemoglobinopathies. Demirci S, Bhardwaj SK, Uchida N, Haro-Mora JJ, Ryu B, Blobel GA, Tisdale JF. Cytotherapy. 2018 Oct;20(10):1278-1287. doi: 10.1016/j.jcyt.2018.07.002. Epub 2018 Sep 22. PMID: 30249524

Domain-focused CRISPR screen identifies HRI as a fetal hemoglobin regulator in human erythroid cells. Grevet JD, Lan X, Hamagami N, Edwards CR, Sankaranarayanan L, Ji X, Bhardwaj SK, Face CJ, Posocco DF, Abdulmalik O, Keller CA, Giardine B, Sidoli S, Garcia BA, Chou ST, Liebhaber SA, Hardison RC, Shi J, Blobel GA. Science. 2018 Jul 20;361(6399):285-290. doi: 10.1126/science.aao0932. PMID: 30026227 Free PMC article.

The BRD3 ET domain recognizes a short peptide motif through a mechanism that is conserved across chromatin remodelers and transcriptional regulators. Wai DCC, Szyszka TN, Campbell AE, Kwong C, Wilkinson-White LE, Silva APG, Low JKK, Kwan AH, Gamsjaeger R, Chalmers JD, Patrick WM, Lu B, Vakoc CR, Blobel GA, Mackay JP. J Biol Chem. 2018 May 11;293(19):7160-7175. doi: 10.1074/jbc.RA117.000678. Epub 2018 Mar 22. PMID: 29567837 Free PMC article.

Exploiting genetic variation to uncover rules of transcription factor binding and chromatin accessibility. Behera V, Evans P, Face CJ, Hamagami N, Sankaranarayanan L, Keller CA, Giardine B, Tan K, Hardison RC, Shi J, Blobel GA. Nat Commun. 2018 Feb 22;9(1):782. doi: 10.1038/s41467-018-03082-6. PMID: 29472540 Free PMC article.

2016

Bartman C.R., Hsu S.C., Hsiung C.C.-S., Raj A., and Blobel G.A. (2016) Enhancer regulation of transcriptional bursting parameters revealed by forced chromatin looping. Molecular Cell. 62(2):237-47

Paralkar V.R., Taborda C.C., Huang P., Yao Y., Kossenkov A.V., Prasad R., Luan J., Davies J.O.J., Hughes J.R., Hardison R.C., Blobel G.A., Weiss M.J. (2016) Unlinking a lncRNA from its associated cis element. Molecular Cell. 62:104-110  (Preview in Molecular Cell)

Edwards C.R., Middleton R., Ritchie W., An X., Mohandas N., Rasko J.E.J., Blobel G.A. (2016) A Dynamic Intron Retention Program in the Mammalian Megakaryocyte and Erythrocyte Lineages. Blood 01-692764

Naraparaju K., Kolla V., Zhuang T., Higashi M., Iyer R., Kolla S., Okawa E.R., Blobel G.A., and Brodeur G.M. (2016) Role of microRNAs in Epigenetic Silencing of the CHD5 Tumor Suppressor Gene in Neuroblastomas. Oncotarget. [Epub ahead of print]

2015

Lee K., Hsiung C.C.-S., Huang P., Raj A. and Blobel G.A. (2015) Dynamic enhancer-gene body contacts during transcription elongation. Genes Dev., 29:1992-1997.

Bartman C.R., Blobel G.A. (2015) Perturbing chromatin structure to understand mechanisms of gene expression. Cold Spring Harb Symp Quant Biol. [Epub ahead of print]

Blobel G.A., Bodine D., Brand M., Crispino J., De Bruijn M., Nathan D., Pappayannopoulou T., Porcher C., Strouboulis J., Zon L., Higgs D.R., Stamatoyannopoulos G., and Engel J.D. (2015) An international effort to cure a global health problem: a report on the 19th hemoglobin switching conference. Exp Hematol. 43:821-837

Dogan N., Wu W., Morrissey C.S., Chen K.B., Stonestrom A., Long M., Keller C.A., Cheng Y., Jain D., Visel A., Pennacchio L.A., Weiss M.J., Blobel G.A., and Hardison R.C. (2015) Occupancy by key transcription factors is a more accurate predictor of enhancer activity than histone modifications or chromatin accessibility. Epigenetics and Chromatin: 8:16.

Kolla V., Naraparaju K., Zhuang T., Higashi M., Kolla S., Blobel G.A., and Brodeur G.M. (2015) The tumor suppressor CHD5 forms a NuRD-type chromatin remodeling complex. Biochem J. 468:345-52. 

Bryant J.M., Donahue G., Wang X., Meyer-Ficca M., Otte G.L., Luense L.J., Bartolomei M.S., Blobel G.A., Meyer R.G., Garcia B.A., and Berger S.L. (2015) Characterization of BRD4 during mammalian postmeiotic sperm development. Mol. Cell. Biol. 35:1433-1448.

Stonestrom A.J., Hsu S.C., Jahn K.S., Huang P., Keller C.A., Giardine B.M., Kadauke S., Campbell A.E., Evans P., Hardison R.C., and Blobel G.A. (2015) Function of BET proteins in erythroid gene expression. Blood. 125:2825-34. (highlighted in Blood preview)

Byrska-Bishop M., VanDorn D., Campbell A.E., Betensky M., Arca P.R., Yao Y., Gadue P., Costas F.F., Nemiroff R.L., Blobel G.A., French D.L., Hardison R.C., Weiss M.J., Chou S.T. (2015) Role for the GATA1 amino terminus in erythroid differentiation revealed through pluripotent stem cells. J Clin Invest. 125:993-1005.

Hsiung C. C.-S., Morrissey C., Udugama M., Frank C.L., Keller C.A., Baek S., Giardine B., Crawford G.E., Sung M.-H., Hardison R.C., Blobel G.A. (2015) Genome accessibility is widely preserved and locally modulated during mitosis. Genome Research, 2:213-25.

2014

Grevet J.D., Blobel G.A. (2014) Keeping fetal hemoglobin in the loop. Cell Cycle 13:3153-3154. 

The mouse ENCODE Consortium. Cheng Y., et al. (2014) Principles of regulatory information conservation between mouse and human. Nature, 515:371-375.

The mouse ENCODE Consortium. Yue F., Cheng Y., et al. (2014) A Comparative Encyclopedia of DNA Elements in the Mouse Genome. Nature, 515:355-364.

Yashiro-Ohtani Y., Wang H., Zang C., Arnett K.L., Bailis W., Ho Y., Knoechel B., Lanauze C., Louis L., Chung Y., Schug J., Blobel G.A., Liebhaber S.A., Bernstein B.E., Stephen C. Blacklow S.C., Shirley Liu X.S., Aster J.C., Pear W.S. (2014) Long-range enhancer activity determines Myc sensitivity to Notch inhibitors in T cell leukemia. PNAS, 111:E4946-4953.

Pimkin M., Kossenkov A.V., Mishra T., Morrissey C.S., Wu W., Keller C.A., Blobel G.A., Lee D., Beer M.A., Hardison R.C., Weiss M.J. (2014) Divergent functions of hematopoietic transcription factors in lineage priming and differentiation during erythro-megakaryopoiesis. Genome Research, 2014 Oct 15. pii: gr.164178.113. [Epub ahead of print].

Wu W., Morrissey C.S., Keller C.A., Mishra T., Pimkin M., Blobel G.A., Weiss M.J., Hardison R.C. (2014) Dynamic shifts in occupancy by TAL1 are guided by GATA factors and drive large-scale reprogramming of gene expression during hematopoiesis. Genome Research, 24:1945-1962

Clifton M.K.; Westman B.J.; Thong S.Y.; O'Connell M.R.; Webster M.W.; Shepherd N.E.; Quinlan K.G.; Crossley M.; Blobel G.A.; Mackay J. (2014) The identification and structure of an N-terminal PR domain show that FOG1 is a member of the PRDM family of proteins. PLoS One 9(8):e106011.

Deng W., Rupon J.W., Krivega, I., Breda L., Motta, I., Jahn K.S., Reik A., Gregory P.D., Rivella S., Dean A., Blobel G.A. (2014) Reactivation of developmentally silenced globin gene expression by forced chromatin looping. Cell 158:849-860. Selected by Faculty of 1000, and highlighted in Nature Genetics.

Alqarni S.S.M., Murthy A., Zhang W., Przewloka M.R., Silva A.P.G., Watson A.A., Lejon S., Pei X.Y., Wang H., Shephard N.E., Stokes P.H., Blobel G.A., Glover D.M., Mackay J.P., Laue E.D. (2013) Insight into the architecture of the NuRD complex: Structure of the RbAp48-MTA1 sub-complex. J. Biol. Chem. 289:21844-55.

Deng W. and Blobel G.A. (2014) Manipulating nuclear architecture. Curr Opin Genet Dev, 25:1-7.

Campbell A.E., Hsiung C. C.-S., Blobel G.A. (2014) Comparative analysis of mitosis specific antibodies for bulk purification of mitotic populations by fluorescence activated cell sorting. Biotechniques 56:90-94. (Cover story)

Posters and Presentations

Lectures by Invitation

2016

5-25-16 Vanderbilt University. “Functions, mechanisms, and therapeutic potential of chromatin looping.”

2-21-16 Keystone Symposium on Enhancer Malfunction in Cancer. Session Chair, speaker: “A hyperactive transcriptional state marks genome reactivation during mitotic exit.” 

1-20-16 Molecular Medicine Seminar speaker, University of Connecticut Health Center: “Functions, mechanisms, and therapeutic potential of chromatin looping."

1-11-16 Distinguished Seminar Speaker: Perelman School of Medicine at the University of Pennsylvania Epigenetics program, Philadelphia, PA “Mechanisms, functions and therapeutic potential of chromatin looping."

2015

12-18-15 Danny Thomas Lecture. St. Jude Children's Hospital, Memphis TN. “’Editing’ genome architecture to treat hemoglobinopathies.”

12-14-15 Joint Seminar Series, Department and Cancer Biology’s and Department of Biochemistry & Molecular Biology, Thomas Jefferson University, Philadelphia, PA “Propagating transcriptional patterns through mitosis.”

2-5-15 American Society of Hematology Annual Meeting Orlando, FL “A Hyperactive Transcriptional State Marks Genome Reactivation during Mitotic Exit.”

11-20-15 Pfizer, Cambridge, MA, “Editing genome architecture to treat hemoglobinopathies.”

11-18-15 The Children's Hospital of Philadelphia Grand Rounds “Editing genome architecture to treat disease.”

11-10-15 Distinguished Speaker Seminar Series. Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research at University of Southern California “Propagating transcriptional patterns through mitosis.”

10-23-15 Pasteur Institute, Paris. “Propagating transcriptional patterns through mitosis.”

10-1-15 Blue Top Seminar Series, Harvard Medical School: “Propagating transcriptional patterns through mitosis.”

9-10-15 Transcription Imaging Consortium, HHMI Janelia Farm Research campus: “Influence of mitosis on transcriptional control.”

 9-9-15 Cardeza Foundation for Hematologic Research, Thomas Jefferson University, Philadelphia, PA: ”Editing" genome folding to alter gene expression.

6-29-15 Gordon Research Conference on Red Cells. Holderness, NH “Propagating transcriptional patterns through mitosis.”

6-28-15 Gordon Research Seminars. Holderness, NH “Developing a career as a scientist.”

6-11-15 Biogen Cambridge, MA. ”Editing” genome folding to alter gene expression.

5-26-15 The 80th Cold Spring Harbor Laboratory Symposium on Quantitative Biology on 21st Century Genetics: Genes at Work.” Editing genome folding to alter gene expression.

5-6-15 EMBO Conference on Chromatin and Epigenetics, Heidelberg, Germany: “Propagating transcription patterns through mitosis.”

3-6-15 Weatherall Institute of Molecular Medicine, Oxford, UK: “Functions, mechanisms and therapeutic potential of chromatin looping.”

1-22-15 Department of Biology, Johns Hopkins University, Baltimore, MD: “Functions, mechanisms and therapeutic potential of chromatin looping.”

1-21-15 Translational Research Conference Johns Hopkins University Sidney Kimmel Comprehensive Cancer Center, Baltimore, MD: “Functions, mechanisms and therapeutic potential of chromatin looping.”

2014

12-6-14 American Society of Hematology Annual Meeting, New Orleans: “Mechanistic Insights into Forced Chromatin Looping Mediated Activation of Fetal Globin Gene Expression.”

11-6-14 Michigan State University, Lansing, MI: “Functions, mechanisms and therapeutic potential of chromatin looping.”

10-19-14 Transcription Imaging Consortium Meeting, HHMI, Janelia Farm "Reactivating the silent genome after mitosis."

9-24-14 New York Blood Center “Activation of fetal globin expression by forced chromatin looping."

9-19-14 Keynote speaker, Biochemistry and Molecular Biology retreat, Penn State University. “Functions, mechanisms and therapeutic potential of chromatin looping.”

9-5-14 The 19th Conference on Hemoglobin Switching, Oxford, UK. Session Chair. Speaker: “Activation of fetal globin expression by forced chromatin looping.”

8-21-14 Cold Spring Harbor Conference on The Dynamic Organization of Nuclear Function. Chris Hsiung presenter: “The chromatin accessibility landscape of the mitotic genome.”

6-22-14 FASEB conference on Technologies for Controlling Gene Expression, Nassau, Bahamas, Session Chair; Speaker: “Controlling long range chromatin interactions.”

4-10-14 University of Virginia, Charlottesville VA: "Function and regulation of higher order chromatin interactions."

4-4-14 Interurban Clinical Club, Philadelphia, PA “Reactivation of developmentally silenced globin genes by forced chromatin looping.”

3-9-14 Conference on Long-Range Genome Organization and Transcription Dynamics, HHMI Janelia Farm Research campus "Exploring long range chromatin loops."

2-24-14 Department of Biochemistry, University of Sydney: “Propagating Transcriptional Patterns Through Mitosis.”

2-19-14 Asian Conference of Transcription. Melbourne, Australia, Plenary speaker: “Reprogramming the β-globin locus by forced chromatin looping." 

2-11-14 Distinguished Lecturer for the Leading Edge of Cell Biology Seminar Series at UT Southwestern, Dallas, TX. “Organization and function of chromatin loops.”

1-22-14 University of California Irvine: “Functions and mechanisms of long range chromatin interactions."