Ni Z - Search Results

1

Serial KinderMiner (SKiM) discovers and annotates biomedical knowledge using co-occurrence and transformer models.

Millikin RJ, Raja K, Steill J, Lock C, Tu X, Ross I, Tsoi LC, Kuusisto F, Ni Z, Livny M, Bockelman B, Thomson J, Stewart R. Millikin RJ, et al. Among authors: ni z. BMC Bioinformatics. 2023 Nov 1;24(1):412. doi: 10.1186/s12859-023-05539-y. BMC Bioinformatics. 2023. PMID: 37915001 Free PMC article.

2

Trendy: segmented regression analysis of expression dynamics in high-throughput ordered profiling experiments.

Bacher R, Leng N, Chu LF, Ni Z, Thomson JA, Kendziorski C, Stewart R. Bacher R, et al. Among authors: ni z. BMC Bioinformatics. 2018 Oct 16;19(1):380. doi: 10.1186/s12859-018-2405-x. BMC Bioinformatics. 2018. PMID: 30326833 Free PMC article.

3

An In Vitro Human Segmentation Clock Model Derived from Embryonic Stem Cells.

Chu LF, Mamott D, Ni Z, Bacher R, Liu C, Swanson S, Kendziorski C, Stewart R, Thomson JA. Chu LF, et al. Among authors: ni z. Cell Rep. 2019 Aug 27;28(9):2247-2255.e5. doi: 10.1016/j.celrep.2019.07.090. Cell Rep. 2019. PMID: 31461642 Free PMC article.

4

CHARTS: a web application for characterizing and comparing tumor subpopulations in publicly available single-cell RNA-seq data sets.

Bernstein MN, Ni Z, Collins M, Burkard ME, Kendziorski C, Stewart R. Bernstein MN, et al. Among authors: ni z. BMC Bioinformatics. 2021 Feb 23;22(1):83. doi: 10.1186/s12859-021-04021-x. BMC Bioinformatics. 2021. PMID: 33622236 Free PMC article.

5

SpatialCorr identifies gene sets with spatially varying correlation structure.

Bernstein MN, Ni Z, Prasad A, Brown J, Mohanty C, Stewart R, Newton MA, Kendziorski C. Bernstein MN, et al. Among authors: ni z. Cell Rep Methods. 2022 Dec 13;2(12):100369. doi: 10.1016/j.crmeth.2022.100369. eCollection 2022 Dec 19. Cell Rep Methods. 2022. PMID: 36590683 Free PMC article.

6

Serial KinderMiner (SKiM) Discovers and Annotates Biomedical Knowledge Using Co-Occurrence and Transformer Models.

Millikin RJ, Raja K, Steill J, Lock C, Tu X, Ross I, Tsoi LC, Kuusisto F, Ni Z, Livny M, Bockelman B, Thomson J, Stewart R. Millikin RJ, et al. Among authors: ni z. bioRxiv [Preprint]. 2023 Jun 1:2023.05.30.542911. doi: 10.1101/2023.05.30.542911. bioRxiv. 2023. PMID: 37397987 Free PMC article. Updated. Preprint.

7

Efficient derivation of transgene-free porcine induced pluripotent stem cells enables in vitro modeling of species-specific developmental timing.

Conrad JV, Meyer S, Ramesh PS, Neira JA, Rusteika M, Mamott D, Duffin B, Bautista M, Zhang J, Hiles E, Higgins EM, Steill J, Freeman J, Ni Z, Liu S, Ungrin M, Rancourt D, Clegg DO, Stewart R, Thomson JA, Chu LF. Conrad JV, et al. Among authors: ni z. Stem Cell Reports. 2023 Dec 12;18(12):2328-2343. doi: 10.1016/j.stemcr.2023.10.009. Epub 2023 Nov 9. Stem Cell Reports. 2023. PMID: 37949072 Free PMC article.

8

Normalization by distributional resampling of high throughput single-cell RNA-sequencing data.

Brown J, Ni Z, Mohanty C, Bacher R, Kendziorski C. Brown J, et al. Among authors: ni z. Bioinformatics. 2021 Nov 18;37(22):4123-4128. doi: 10.1093/bioinformatics/btab450. Bioinformatics. 2021. PMID: 34146085 Free PMC article.

9

CB2 improves power of cell detection in droplet-based single-cell RNA sequencing data.

Ni Z, Chen S, Brown J, Kendziorski C. Ni Z, et al. Genome Biol. 2020 Jun 8;21(1):137. doi: 10.1186/s13059-020-02054-8. Genome Biol. 2020. PMID: 32513247 Free PMC article.

10

The Anna Karenina Model of β-Cell Maturation in Development and Their Dedifferentiation in Type 1 and Type 2 Diabetes.

Nimkulrat SD, Bernstein MN, Ni Z, Brown J, Kendziorski C, Blum B. Nimkulrat SD, et al. Among authors: ni z. Diabetes. 2021 Sep;70(9):2058-2066. doi: 10.2337/db21-0211. Epub 2021 Jun 15. Diabetes. 2021. PMID: 34417264 Free PMC article.

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