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Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows.
Nat Microbiol. 2022 Jan;7(1):108-119. doi: 10.1038/s41564-021-01019-2. Epub 2021 Dec 14.
Nat Microbiol. 2022.
PMID: 34907347
Free PMC article.
Direct characterization of cis-regulatory elements and functional dissection of complex genetic associations using HCR-FlowFISH.
Reilly SK, Gosai SJ, Gutierrez A, Mackay-Smith A, Ulirsch JC, Kanai M, Mouri K, Berenzy D, Kales S, Butler GM, Gladden-Young A, Bhuiyan RM, Stitzel ML, Finucane HK, Sabeti PC, Tewhey R.
Reilly SK, et al. Among authors: berenzy d.
Nat Genet. 2021 Aug;53(8):1166-1176. doi: 10.1038/s41588-021-00900-4. Epub 2021 Jul 29.
Nat Genet. 2021.
PMID: 34326544
Free PMC article.
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Author Correction: Direct characterization of cis-regulatory elements and functional dissection of complex genetic associations using HCR-FlowFISH.
Reilly SK, Gosai SJ, Gutierrez A, Mackay-Smith A, Ulirsch JC, Kanai M, Mouri K, Berenzy D, Kales S, Butler GM, Gladden-Young A, Bhuiyan RM, Stitzel ML, Finucane HK, Sabeti PC, Tewhey R.
Reilly SK, et al. Among authors: berenzy d.
Nat Genet. 2021 Oct;53(10):1517. doi: 10.1038/s41588-021-00943-7.
Nat Genet. 2021.
PMID: 34497403
No abstract available.
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Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA.
Earnest R, Uddin R, Matluk N, Renzette N, Turbett SE, Siddle KJ, Loreth C, Adams G, Tomkins-Tinch CH, Petrone ME, Rothman JE, Breban MI, Koch RT, Billig K, Fauver JR, Vogels CBF, Bilguvar K, De Kumar B, Landry ML, Peaper DR, Kelly K, Omerza G, Grieser H, Meak S, Martha J, Dewey HB, Kales S, Berenzy D, Carpenter-Azevedo K, King E, Huard RC, Novitsky V, Howison M, Darpolor J, Manne A, Kantor R, Smole SC, Brown CM, Fink T, Lang AS, Gallagher GR, Pitzer VE, Sabeti PC, Gabriel S, MacInnis BL; New England Variant Investigation Team; Tewhey R, Adams MD, Park DJ, Lemieux JE, Grubaugh ND.
Earnest R, et al. Among authors: berenzy d.
Cell Rep Med. 2022 Mar 11;3(4):100583. doi: 10.1016/j.xcrm.2022.100583. eCollection 2022 Apr 19.
Cell Rep Med. 2022.
PMID: 35480627
Free PMC article.
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Widespread perturbation of ETS factor binding sites in cancer.
Carrasco Pro S, Hook H, Bray D, Berenzy D, Moyer D, Yin M, Labadorf AT, Tewhey R, Siggers T, Fuxman Bass JI.
Carrasco Pro S, et al. Among authors: berenzy d.
Nat Commun. 2023 Feb 17;14(1):913. doi: 10.1038/s41467-023-36535-8.
Nat Commun. 2023.
PMID: 36808133
Free PMC article.
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Whole-genome functional characterization of RE1 silencers using a modified massively parallel reporter assay.
Mouri K, Dewey HB, Castro R, Berenzy D, Kales S, Tewhey R.
Mouri K, et al. Among authors: berenzy d.
Cell Genom. 2022 Dec 16;3(1):100234. doi: 10.1016/j.xgen.2022.100234. eCollection 2023 Jan 11.
Cell Genom. 2022.
PMID: 36777181
Free PMC article.
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Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA.
Earnest R, Uddin R, Matluk N, Renzette N, Siddle KJ, Loreth C, Adams G, Tomkins-Tinch CH, Petrone ME, Rothman JE, Breban MI, Koch RT, Billig K, Fauver JR, Vogels CBF, Turbett S, Bilguvar K, De Kumar B, Landry ML, Peaper DR, Kelly K, Omerza G, Grieser H, Meak S, Martha J, Dewey HH, Kales S, Berenzy D, Carpenter-Azevedo K, King E, Huard RC, Smole SC, Brown CM, Fink T, Lang AS, Gallagher GR, Sabeti PC, Gabriel S, MacInnis BL; New England Variant Investigation Team; Tewhey R, Adams MD, Park DJ, Lemieux JE, Grubaugh ND.
Earnest R, et al. Among authors: berenzy d.
medRxiv [Preprint]. 2021 Oct 7:2021.10.06.21264641. doi: 10.1101/2021.10.06.21264641.
medRxiv. 2021.
PMID: 34642698
Free PMC article.
Updated.
Preprint.
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