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Richard Irving Sherwood, Ph.D.

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Mentoring
Available: 07/14/17, Expires: 08/30/19

We seek a student to become involved in a new program at Brigham and Women’s Hospital and Harvard Medical School in stem cell biology-based regenerative medicine, focusing on using novel methods to direct stem cells into therapeutically relevant cell types such as pancreatic beta cells and intestinal cell types. Using new computational methods and the direct synthesis of thousands of genomic constructs this new research program seeks to understand how transcription factors dictate embryonic stem cell (ES cell) fate determination.
The student would use a high-throughput genomic screening platform to understand and manipulate transcription factor activity in differentiating embryonic stem cells. The work is experimental in nature but highly collaborative with computational biologists at MIT.


Research
The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
  1. K01DK101684 (SHERWOOD, RICHARD I) May 1, 2014 - Feb 28, 2019
    NIH/NIDDK
    Predictive transcription factor modeling to program endodermal cell fates
    Role: Principal Investigator

Bibliographic
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Shen MW, Arbab M, Hsu JY, Worstell D, Culbertson SJ, Krabbe O, Cassa CA, Liu DR, Gifford DK, Sherwood RI. Predictable and precise template-free CRISPR editing of pathogenic variants. Nature. 2018 11; 563(7733):646-651. PMID: 30405244.
    Citations:    Fields:    
  2. Betancur PA, Abraham BJ, Yiu YY, Willingham SB, Khameneh F, Zarnegar M, Kuo AH, McKenna K, Kojima Y, Leeper NJ, Ho P, Gip P, Swigut T, Sherwood RI, Clarke MF, Somlo G, Young RA, Weissman IL. A CD47-associated super-enhancer links pro-inflammatory signalling to CD47 upregulation in breast cancer. Nat Commun. 2017 04 05; 8:14802. PMID: 28378740.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  3. Banerjee B, Sherwood RI. A CRISPR view of gene regulation. Curr Opin Syst Biol. 2017 Feb; 1:1-8. PMID: 28966990.
    Citations:    
  4. Arbab M, Sherwood RI. Self-Cloning CRISPR. Curr Protoc Stem Cell Biol. 2016 08 17; 38:5B.5.1-5B.5.16. PMID: 27532819.
    Citations:    Fields:    Translation:HumansAnimalsCells
  5. Hashimoto T, Sherwood RI, Kang DD, Rajagopal N, Barkal AA, Zeng H, Emons BJ, Srinivasan S, Jaakkola T, Gifford DK. A synergistic DNA logic predicts genome-wide chromatin accessibility. Genome Res. 2016 10; 26(10):1430-1440. PMID: 27456004.
    Citations: 6     Fields:    Translation:HumansAnimalsCells
  6. Ferreira LM, Meissner TB, Mikkelsen TS, Mallard W, O'Donnell CW, Tilburgs T, Gomes HA, Camahort R, Sherwood RI, Gifford DK, Rinn JL, Cowan CA, Strominger JL. A distant trophoblast-specific enhancer controls HLA-G expression at the maternal-fetal interface. Proc Natl Acad Sci U S A. 2016 May 10; 113(19):5364-9. PMID: 27078102; PMCID: PMC4868469.
    Citations: 12     Fields:    Translation:HumansCells
  7. Barkal AA, Srinivasan S, Hashimoto T, Gifford DK, Sherwood RI. Cas9 Functionally Opens Chromatin. PLoS One. 2016; 11(3):e0152683. PMID: 27031353; PMCID: PMC4816323.
    Citations: 4     Fields:    Translation:AnimalsCells
  8. Rajagopal N, Srinivasan S, Kooshesh K, Guo Y, Edwards MD, Banerjee B, Syed T, Emons BJ, Gifford DK, Sherwood RI. High-throughput mapping of regulatory DNA. Nat Biotechnol. 2016 Feb; 34(2):167-74. PMID: 26807528.
    Citations: 44     Fields:    Translation:Animals
  9. Arbab M, Srinivasan S, Hashimoto T, Geijsen N, Sherwood RI. Cloning-free CRISPR. Stem Cell Reports. 2015 Nov 10; 5(5):908-917. PMID: 26527385; PMCID: PMC4649464.
    Citations: 4     Fields:    Translation:HumansAnimalsCells
  10. Wamaitha SE, del Valle I, Cho LT, Wei Y, Fogarty NM, Blakeley P, Sherwood RI, Ji H, Niakan KK. Gata6 potently initiates reprograming of pluripotent and differentiated cells to extraembryonic endoderm stem cells. Genes Dev. 2015 Jun 15; 29(12):1239-55. PMID: 26109048; PMCID: PMC4495396.
    Citations: 15     Fields:    Translation:HumansAnimalsCells
  11. Mahony S, Edwards MD, Mazzoni EO, Sherwood RI, Kakumanu A, Morrison CA, Wichterle H, Gifford DK. An integrated model of multiple-condition ChIP-Seq data reveals predeterminants of Cdx2 binding. PLoS Comput Biol. 2014 Mar; 10(3):e1003501. PMID: 24675637; PMCID: PMC3967921.
    Citations: 17     Fields:    Translation:AnimalsCells
  12. Nissim S, Sherwood RI, Wucherpfennig J, Saunders D, Harris JM, Esain V, Carroll KJ, Frechette GM, Kim AJ, Hwang KL, Cutting CC, Elledge S, North TE, Goessling W. Prostaglandin E2 regulates liver versus pancreas cell-fate decisions and endodermal outgrowth. Dev Cell. 2014 Feb 24; 28(4):423-37. PMID: 24530296.
    Citations: 14     Fields:    Translation:AnimalsCells
  13. Sherwood RI, Hashimoto T, O'Donnell CW, Lewis S, Barkal AA, van Hoff JP, Karun V, Jaakkola T, Gifford DK. Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape. Nat Biotechnol. 2014 Feb; 32(2):171-178. PMID: 24441470; PMCID: PMC3951735.
    Citations: 109     Fields:    Translation:Cells
  14. Chen AE, Borowiak M, Sherwood RI, Kweudjeu A, Melton DA. Functional evaluation of ES cell-derived endodermal populations reveals differences between Nodal and Activin A-guided differentiation. Development. 2013 Feb 01; 140(3):675-86. PMID: 23293299; PMCID: PMC3561793.
    Citations: 16     Fields:    Translation:HumansAnimalsCells
  15. Arbab M, Mahony S, Cho H, Chick JM, Rolfe PA, van Hoff JP, Morris VW, Gygi SP, Maas RL, Gifford DK, Sherwood RI. A multi-parametric flow cytometric assay to analyze DNA-protein interactions. Nucleic Acids Res. 2013 Jan; 41(2):e38. PMID: 23143268; PMCID: PMC3554230.
    Citations:    Fields:    Translation:AnimalsCells
  16. Cho LT, Wamaitha SE, Tsai IJ, Artus J, Sherwood RI, Pedersen RA, Hadjantonakis AK, Niakan KK. Conversion from mouse embryonic to extra-embryonic endoderm stem cells reveals distinct differentiation capacities of pluripotent stem cell states. Development. 2012 Aug; 139(16):2866-77. PMID: 22791892.
    Citations: 22     Fields:    Translation:AnimalsCells
  17. Sherwood RI, Maehr R, Mazzoni EO, Melton DA. Wnt signaling specifies and patterns intestinal endoderm. Mech Dev. 2011 Sep-Dec; 128(7-10):387-400. PMID: 21854845; PMCID: PMC3223331.
    Citations: 39     Fields:    Translation:AnimalsCells
  18. Niakan KK, Ji H, Maehr R, Vokes SA, Rodolfa KT, Sherwood RI, Yamaki M, Dimos JT, Chen AE, Melton DA, McMahon AP, Eggan K. Sox17 promotes differentiation in mouse embryonic stem cells by directly regulating extraembryonic gene expression and indirectly antagonizing self-renewal. Genes Dev. 2010 Feb 01; 24(3):312-26. PMID: 20123909; PMCID: PMC2811832.
    Citations: 96     Fields:    Translation:AnimalsCells
  19. Sherwood RI, Chen TY, Melton DA. Transcriptional dynamics of endodermal organ formation. Dev Dyn. 2009 Jan; 238(1):29-42. PMID: 19097184; PMCID: PMC3756511.
    Citations: 65     Fields:    Translation:AnimalsCells
  20. Anderson WJ, Zhou Q, Alcalde V, Kaneko OF, Blank LJ, Sherwood RI, Guseh JS, Rajagopal J, Melton DA. Genetic targeting of the endoderm with claudin-6CreER. Dev Dyn. 2008 Feb; 237(2):504-12. PMID: 18213590.
    Citations: 20     Fields:    Translation:Animals
  21. Sherwood RI, Jitianu C, Cleaver O, Shaywitz DA, Lamenzo JO, Chen AE, Golub TR, Melton DA. Prospective isolation and global gene expression analysis of definitive and visceral endoderm. Dev Biol. 2007 Apr 15; 304(2):541-55. PMID: 17328885.
    Citations: 54     Fields:    Translation:AnimalsCells
  22. Sherwood RI, Wagers AJ. Harnessing the potential of myogenic satellite cells. Trends Mol Med. 2006 May; 12(5):189-92. PMID: 16595190.
    Citations: 2     Fields:    Translation:AnimalsCells
  23. Sherwood RI, Christensen JL, Conboy IM, Conboy MJ, Rando TA, Weissman IL, Wagers AJ. Isolation of adult mouse myogenic progenitors: functional heterogeneity of cells within and engrafting skeletal muscle. Cell. 2004 Nov 12; 119(4):543-54. PMID: 15537543.
    Citations: 170     Fields:    Translation:AnimalsCells
  24. Sherwood RI, Christensen JL, Weissman IL, Wagers AJ. Determinants of skeletal muscle contributions from circulating cells, bone marrow cells, and hematopoietic stem cells. Stem Cells. 2004; 22(7):1292-304. PMID: 15579647.
    Citations: 21     Fields:    Translation:AnimalsCells
  25. Wagers AJ, Sherwood RI, Christensen JL, Weissman IL. Little evidence for developmental plasticity of adult hematopoietic stem cells. Science. 2002 Sep 27; 297(5590):2256-9. PMID: 12215650.
    Citations: 309     Fields:    Translation:AnimalsCells
  26. Sherwood RJ. Cause and control: education and training of professional industrial hygienists for 2020. Am Ind Hyg Assoc J. 1992 Jun; 53(6):398-403. PMID: 1605113.
    Citations:    Fields:    Translation:Humans
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Funded by the NIH/NCATS Clinical and Translational Science Award (CTSA) program, grant number UL1TR001102, and through institutional support from Harvard University, Harvard Medical School, Harvard T.H. Chan School of Public Health, Beth Israel Deaconess Medical Center, Boston Children's Hospital, Brigham and Women's Hospital, Massachusetts General Hospital and the Dana Farber Cancer Institute.