86 related articles for article (PubMed ID: 31525460)
1. Transfer of regulatory knowledge from human to mouse for functional genomics analysis.
Holland CH; Szalai B; Saez-Rodriguez J
Biochim Biophys Acta Gene Regul Mech; 2020 Jun; 1863(6):194431. PubMed ID: 31525460
[TBL] [Abstract][Full Text] [Related]
2. Perturbation-response genes reveal signaling footprints in cancer gene expression.
Schubert M; Klinger B; Klünemann M; Sieber A; Uhlitz F; Sauer S; Garnett MJ; Blüthgen N; Saez-Rodriguez J
Nat Commun; 2018 Jan; 9(1):20. PubMed ID: 29295995
[TBL] [Abstract][Full Text] [Related]
3. The Evolution of Gene-Specific Transcriptional Noise Is Driven by Selection at the Pathway Level.
Barroso GV; Puzovic N; Dutheil JY
Genetics; 2018 Jan; 208(1):173-189. PubMed ID: 29097405
[TBL] [Abstract][Full Text] [Related]
4. rPAC: Route based pathway analysis for cohorts of gene expression data sets.
Joshi P; Basso B; Wang H; Hong SH; Giardina C; Shin DG
Methods; 2022 Feb; 198():76-87. PubMed ID: 34628030
[TBL] [Abstract][Full Text] [Related]
5. Identifying significantly impacted pathways: a comprehensive review and assessment.
Nguyen TM; Shafi A; Nguyen T; Draghici S
Genome Biol; 2019 Oct; 20(1):203. PubMed ID: 31597578
[TBL] [Abstract][Full Text] [Related]
6. PathExNET: A tool for extracting pathway expression networks from gene expression statistics.
Minadakis G; Muñoz-Pomer Fuentes A; Tsouloupas G; Papatheodorou I; Spyrou GM
Comput Struct Biotechnol J; 2021; 19():4336-4344. PubMed ID: 34429851
[TBL] [Abstract][Full Text] [Related]
7. Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data.
Holland CH; Tanevski J; Perales-Patón J; Gleixner J; Kumar MP; Mereu E; Joughin BA; Stegle O; Lauffenburger DA; Heyn H; Szalai B; Saez-Rodriguez J
Genome Biol; 2020 Feb; 21(1):36. PubMed ID: 32051003
[TBL] [Abstract][Full Text] [Related]
8. Integrated analysis of multimodal single-cell data.
Hao Y; Hao S; Andersen-Nissen E; Mauck WM; Zheng S; Butler A; Lee MJ; Wilk AJ; Darby C; Zager M; Hoffman P; Stoeckius M; Papalexi E; Mimitou EP; Jain J; Srivastava A; Stuart T; Fleming LM; Yeung B; Rogers AJ; McElrath JM; Blish CA; Gottardo R; Smibert P; Satija R
Cell; 2021 Jun; 184(13):3573-3587.e29. PubMed ID: 34062119
[TBL] [Abstract][Full Text] [Related]
9. Spatial multi-omic map of human myocardial infarction.
Kuppe C; Ramirez Flores RO; Li Z; Hayat S; Levinson RT; Liao X; Hannani MT; Tanevski J; Wünnemann F; Nagai JS; Halder M; Schumacher D; Menzel S; Schäfer G; Hoeft K; Cheng M; Ziegler S; Zhang X; Peisker F; Kaesler N; Saritas T; Xu Y; Kassner A; Gummert J; Morshuis M; Amrute J; Veltrop RJA; Boor P; Klingel K; Van Laake LW; Vink A; Hoogenboezem RM; Bindels EMJ; Schurgers L; Sattler S; Schapiro D; Schneider RK; Lavine K; Milting H; Costa IG; Saez-Rodriguez J; Kramann R
Nature; 2022 Aug; 608(7924):766-777. PubMed ID: 35948637
[TBL] [Abstract][Full Text] [Related]
10. clusterProfiler 4.0: A universal enrichment tool for interpreting omics data.
Wu T; Hu E; Xu S; Chen M; Guo P; Dai Z; Feng T; Zhou L; Tang W; Zhan L; Fu X; Liu S; Bo X; Yu G
Innovation (Camb); 2021 Aug; 2(3):100141. PubMed ID: 34557778
[TBL] [Abstract][Full Text] [Related]
11. decoupleR: ensemble of computational methods to infer biological activities from omics data.
Badia-I-Mompel P; Vélez Santiago J; Braunger J; Geiss C; Dimitrov D; Müller-Dott S; Taus P; Dugourd A; Holland CH; Ramirez Flores RO; Saez-Rodriguez J
Bioinform Adv; 2022; 2(1):vbac016. PubMed ID: 36699385
[TBL] [Abstract][Full Text] [Related]
12. The spatial transcriptomic landscape of the healing mouse intestine following damage.
Parigi SM; Larsson L; Das S; Ramirez Flores RO; Frede A; Tripathi KP; Diaz OE; Selin K; Morales RA; Luo X; Monasterio G; Engblom C; Gagliani N; Saez-Rodriguez J; Lundeberg J; Villablanca EJ
Nat Commun; 2022 Feb; 13(1):828. PubMed ID: 35149721
[TBL] [Abstract][Full Text] [Related]
13. Fast, sensitive and accurate integration of single-cell data with Harmony.
Korsunsky I; Millard N; Fan J; Slowikowski K; Zhang F; Wei K; Baglaenko Y; Brenner M; Loh PR; Raychaudhuri S
Nat Methods; 2019 Dec; 16(12):1289-1296. PubMed ID: 31740819
[TBL] [Abstract][Full Text] [Related]
14. TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data.
Song L; Cohen D; Ouyang Z; Cao Y; Hu X; Liu XS
Nat Methods; 2021 Jun; 18(6):627-630. PubMed ID: 33986545
[TBL] [Abstract][Full Text] [Related]
15. Biological and Medical Importance of Cellular Heterogeneity Deciphered by Single-Cell RNA Sequencing.
Gupta RK; Kuznicki J
Cells; 2020 Jul; 9(8):. PubMed ID: 32707839
[TBL] [Abstract][Full Text] [Related]
16. FADD and Caspase-8 Regulate Gut Homeostasis and Inflammation by Controlling MLKL- and GSDMD-Mediated Death of Intestinal Epithelial Cells.
Schwarzer R; Jiao H; Wachsmuth L; Tresch A; Pasparakis M
Immunity; 2020 Jun; 52(6):978-993.e6. PubMed ID: 32362323
[TBL] [Abstract][Full Text] [Related]
17. Spatial transcriptomics reveals gene interactions and signaling pathway dynamics in rat embryos with anorectal malformation.
Wang CY; Li MY; Li SY; Wei XG; Yuan ZW; Tang XB; Bai YZ
Cell Biol Toxicol; 2024 May; 40(1):34. PubMed ID: 38769159
[TBL] [Abstract][Full Text] [Related]
18. PGE
Lacher SB; Dörr J; de Almeida GP; Hönninger J; Bayerl F; Hirschberger A; Pedde AM; Meiser P; Ramsauer L; Rudolph TJ; Spranger N; Morotti M; Grimm AJ; Jarosch S; Oner A; Gregor L; Lesch S; Michaelides S; Fertig L; Briukhovetska D; Majed L; Stock S; Busch DH; Buchholz VR; Knolle PA; Zehn D; Dangaj Laniti D; Kobold S; Böttcher JP
Nature; 2024 May; 629(8011):417-425. PubMed ID: 38658748
[TBL] [Abstract][Full Text] [Related]
19. Di-(2-ethylhexyl) phthalate exposure induces premature testicular senescence by disrupting mitochondrial respiratory chain through STAT5B-mitoSTAT3 in Leydig cell.
Cao H; Xie Q; Luo P; Chen J; Xia K; Ma L; Chen D; Deng C; Wan Z
Geroscience; 2024 Mar; ():. PubMed ID: 38499958
[TBL] [Abstract][Full Text] [Related]
20. A transfer learning framework to elucidate the clinical relevance of altered proximal tubule cell states in kidney disease.
Legouis D; Rinaldi A; Malpetti D; Arnoux G; Verissimo T; Faivre A; Mangili F; Rinaldi A; Ruinelli L; Pugin J; Moll S; Clivio L; Bolis M; de Seigneux S; Azzimonti L; Cippà PE
iScience; 2024 Mar; 27(3):109271. PubMed ID: 38487013
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
