Spatial & Functional
Genomics Affinity Group

SFG Publications

Genome-scale Capture C promoter interactions implicate effector genes at GWAS loci for bonemineral density

Alessandra Chesi, Yadav Wagley, Matthew E. Johnson, Elisabetta Manduchi, Chun Su, Sumei Lu, Michelle E. Leonard, Kenyaita M. Hodge, James A. Pippin, Kurt D. Hankenson, Andrew D. Wells, Struan F.A. Grant

NATURE COMMUNICATIONS | (2019)10:1260

PMID: 30890710

Postmenopausal osteoporotic fracture-associated COLIA1 variant impacts bone accretion in girls

Diana L. Cousminer, Shana E. McCormack, Jonathan A. Mitchell, Alessandra Chesi, Joseph M. Kindler, Andrea Kelly, Benjamin F. Voight, Heidi J. Kalkwarf, Joan M. Lappe, John A. Shepherd, Sharon E. Oberfield, Vicente Gilsanz, Babette S. Zemel, Struan F.A. Grant

Bone, 2019.01.026

PMID: 30711642

Genetic And Epigenetic Fine Mapping Of Complex Trait Associated Loci In The Human Liver.

M. Caliskan, E. Manduchi, H.S. Rao, J.A. Segert, M. Holsbach Beltrame, M. Trizzino, Y. Park, S.W. Baker, A. Chesi, M.E. Johnson, K.M. Hodge, M.E. Leonard, B. Loza, D. Xin, A.M. Berrido, N.J. Hand, R.C. Bauer, A.D. Wells, K.M. Olthoff, A. Shaked, D.J. Rader, S.F.A. Grant and C.D. Brown.

BioRxiv, October 8, 2018, doi: https://doi.org/10.1101/432823

PMID: bioRxiv

Distinct Regulation of Th17 and Th1 Cell Differentiation by Glutaminase-Dependent Metabolism.

Johnson MO, Wolf MM, Madden MZ, Andrejeva G, Sugiura A, Contreras DC, Maseda D, Liberti MV, Paz K, Kishton RJ, Johnson ME, de Cubas AA, Wu P, Li G, Zhang Y, Newcomb DC, Wells AD, Restifo NP, Rathmell WK, Locasale JW, Davila ML, Blazar BR, Rathmell JC.
Cell. 2018 Oct 30. pii: S0092-8674(18)31309-6. doi: 10.1016/j.cell.2018.10.001. [Epub ahead of print]

PMID: 30392958

Public resources aid diabetes gene discovery.

D.L. Cousminer and S.F.A. Grant

Nature Genetics Epub ahead of print, October 2018.

PMID: Link

First Genome Wide Association Study of Latent Autoimmune Diabetes in Adults Reveals Novel Insights Linking Immune and Metabolic Diabetes.

D.L. Cousminer*, E. Ahlqvist*, R. Mishra*, M.K. Andersen*, A. Chesi, M.I. Hawa, A. Davis, K.M. Hodge, J.P. Bradfield, K. Zhou, V.C. Guy, M. Åkerlund, M. Wod, L.G. Fritsche, H. Vestergaard, J. Snyder, K. Højlund, A. Linneberg, A. Käräjämäki, I. Brandslund, C.E. Kim, D. Witte, E. Pettersen Sørgjerd, D.J. Brillon, O. Pedersen, H. Beck-Nielsen, N. Grarup, R.E. Pratley, M.R. Rickels, A. Vella, F. Ovalle, O. Melander, R.I. Harris, S. Varvel, V.E.R. Grill, Bone Mineral Density in Childhood Study, H. Hakonarson, P. Froguel, J.T. Lonsdale, D. Mauricio, N.C. Schloot, K. Khunti, C.J. Greenbaum, B.O. Åsvold, K.B. Yderstræde, E.R. Pearson, S. Schwartz, B.F. Voight, T. Hansen, T. Tuomi, B.O. Boehm*, L. Groop*, R.D. Leslie* and S.F.A. Grant*

Diabetes Care Epub ahead of print, September 2018 Notes: *equal contribution.

PMID: Link

Leveraging epigenomics and contactomics data to investigate SNP pairs in GWAS

Elisabetta Manduchi, Scott M. Williams, Alessandra Chesi, Matthew E. Johnson, Andrew D. Wells, Struan F.A. Grant, Jason H. Moore
Hum Genet. 2018 May; 137(5): 413–425. Published online 2018 May 24. doi: 10.1007/s00439-018-1893-0

PMID: 29797095

Leveraging Putative Enhancer-Promoter Interactions to Investigate Two-Way Epistasis in Type 2 Diabetes GWAS

Manduchi E, Chesi A, Hall MA, Grant SFA, Moore JH.
Pac Symp Biocomput. 2018;23:548-558.

PMID: 29218913

The Loss of TET2 Promotes CD8+ T Cell Memory Differentiation

Carty SA, Gohil M, Banks LB, Cotton RM, Johnson ME, Stelekati E, Wells AD, Wherry EJ, Koretzky GA, Jordan MS.
J Immunol. 2018 Jan 1;200(1):82-91.

PMID: 29150566

Antagonism of B Cell Enhancer Networks by STAT5 Drives Leukemia and Poor Patient Survival

Katerndahl CDS, Heltemes-Harris LM, Willette MJL, Henzler CM, Frietze S, Yang R, Schjerven H, Silverstein KAT, Ramsey LB, Hubbard G, Wells AD, Kuiper RP, Scheijen B, van Leeuwen FN, M¸schen M, Kornblau SM, Farrar MA.
Nat Immunol. 2017 Jun;18(6):694-704.

PMID: 28369050

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