de Boer CG - Search Results

1

The evolution, evolvability and engineering of gene regulatory DNA.

Vaishnav ED, de Boer CG, Molinet J, Yassour M, Fan L, Adiconis X, Thompson DA, Levin JZ, Cubillos FA, Regev A. Vaishnav ED, et al. Among authors: de boer cg. Nature. 2022 Mar;603(7901):455-463. doi: 10.1038/s41586-022-04506-6. Epub 2022 Mar 9. Nature. 2022. PMID: 35264797 Free PMC article.

2

Natural variation in non-coding regions underlying phenotypic diversity in budding yeast.

Salinas F, de Boer CG, Abarca V, García V, Cuevas M, Araos S, Larrondo LF, Martínez C, Cubillos FA. Salinas F, et al. Among authors: de boer cg. Sci Rep. 2016 Feb 22;6:21849. doi: 10.1038/srep21849. Sci Rep. 2016. PMID: 26898953 Free PMC article.

3

BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization.

de Boer CG, Regev A. de Boer CG, et al. BMC Bioinformatics. 2018 Jul 3;19(1):253. doi: 10.1186/s12859-018-2255-6. BMC Bioinformatics. 2018. PMID: 29970004 Free PMC article.

4

Heterogeneous Responses of Hematopoietic Stem Cells to Inflammatory Stimuli Are Altered with Age.

Mann M, Mehta A, de Boer CG, Kowalczyk MS, Lee K, Haldeman P, Rogel N, Knecht AR, Farouq D, Regev A, Baltimore D. Mann M, et al. Among authors: de boer cg. Cell Rep. 2018 Dec 11;25(11):2992-3005.e5. doi: 10.1016/j.celrep.2018.11.056. Cell Rep. 2018. PMID: 30540934 Free PMC article.

5

Deciphering eukaryotic gene-regulatory logic with 100 million random promoters.

de Boer CG, Vaishnav ED, Sadeh R, Abeyta EL, Friedman N, Regev A. de Boer CG, et al. Nat Biotechnol. 2020 Jan;38(1):56-65. doi: 10.1038/s41587-019-0315-8. Epub 2019 Dec 2. Nat Biotechnol. 2020. PMID: 31792407 Free PMC article.

6

Prioritizing disease and trait causal variants at the TNFAIP3 locus using functional and genomic features.

Ray JP, de Boer CG, Fulco CP, Lareau CA, Kanai M, Ulirsch JC, Tewhey R, Ludwig LS, Reilly SK, Bergman DT, Engreitz JM, Issner R, Finucane HK, Lander ES, Regev A, Hacohen N. Ray JP, et al. Among authors: de boer cg. Nat Commun. 2020 Mar 6;11(1):1237. doi: 10.1038/s41467-020-15022-4. Nat Commun. 2020. PMID: 32144282 Free PMC article.

7

MAUDE: inferring expression changes in sorting-based CRISPR screens.

de Boer CG, Ray JP, Hacohen N, Regev A. de Boer CG, et al. Genome Biol. 2020 Jun 3;21(1):134. doi: 10.1186/s13059-020-02046-8. Genome Biol. 2020. PMID: 32493396 Free PMC article.

8

Author Correction: Deciphering eukaryotic gene-regulatory logic with 100 million random promoters.

de Boer CG, Vaishnav ED, Sadeh R, Abeyta EL, Friedman N, Regev A. de Boer CG, et al. Nat Biotechnol. 2020 Oct;38(10):1211. doi: 10.1038/s41587-020-0665-2. Nat Biotechnol. 2020. PMID: 32792646

9

Hold out the genome: a roadmap to solving the cis-regulatory code.

de Boer CG, Taipale J. de Boer CG, et al. Nature. 2024 Jan;625(7993):41-50. doi: 10.1038/s41586-023-06661-w. Epub 2023 Dec 13. Nature. 2024. PMID: 38093018 Review.

10

Evaluation and optimization of sequence-based gene regulatory deep learning models.

Rafi AM, Nogina D, Penzar D, Lee D, Lee D, Kim N, Kim S, Kim D, Shin Y, Kwak IY, Meshcheryakov G, Lando A, Zinkevich A, Kim BC, Lee J, Kang T, Vaishnav ED, Yadollahpour P; Random Promoter DREAM Challenge Consortium; Kim S, Albrecht J, Regev A, Gong W, Kulakovskiy IV, Meyer P, de Boer C. Rafi AM, et al. bioRxiv [Preprint]. 2024 Feb 17:2023.04.26.538471. doi: 10.1101/2023.04.26.538471. bioRxiv. 2024. PMID: 38405704 Free PMC article. Preprint.

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