STATegra, a comprehensive multi-omics dataset of B-cell differentiation in mouse

被引：25

作者：

Gomez-Cabrero, David ^{[1
,2
,3
,19
]}

Tarazona, Sonia ^{[4
,19
]}

Ferreiros-Vidal, Isabel ^{[5
,19
]}

Ramirez, Ricardo N. ^{[6
,7
,19
]}

Company, Carlos ^{[8
,19
]}

Schmidt, Andreas ^{[9
,19
]}

Reijmers, Theo ^{[10
,19
]}

von Saint Paul, Veronica ^{[11
,19
]}

Marabita, Francesco ^{[2
]}

Rodriguez-Ubreva, Javier ^{[8
]}

Garcia-Gomez, Antonio ^{[8
]}

Carroll, Thomas ^{[5
]}

Cooper, Lee ^{[5
]}

Liang, Ziwei ^{[5
]}

Dharmalingam, Gopuraja ^{[5
]}

van der Kloet, Frans ^{[17
]}

Harms, Amy C. ^{[10
]}

Balzano-Nogueira, Leandro ^{[12
]}

Lagani, Vincenzo ^{[13
,14
]}

Tsamardinos, Ioannis ^{[14
,15
]}

Lappe, Michael ^{[16
]}

Maier, Dieter ^{[11
]}

Westerhuis, Johan A. . ^{[17
,18
]}

Hankemeier, Thomas ^{[10
]}

Imhof, Axel ^{[9
]}

Ballestar, Esteban ^{[8
]}

Mortazavi, Ali ^{[6
,7
]}

Merkenschlager, Matthias ^{[5
]}

Egner, Jesper T. ^{[2
,3
,19
]}

Conesa, Ana ^{[12
]}

机构：

[1] Univ Publ Navarra UPNA, Complejo Hosp Navarra, Navarrabiomed, IdiSNA, Pamplona, Spain

[2] Karolinska Inst, Ctr Mol Med, Dept Med, Unit Computat Med, Stockholm, Sweden

[3] Sci Life Lab, Solna, Sweden

[4] Univ Politecn Valencia, Dept Appl Stat Operat Res & Qual, Valencia, Spain

[5] Imperial Coll London, Fac Med, Inst Clin Sci, MRC London Inst Med Sci, Du Cane Rd, London W12 0NN, England

[6] Univ Calif Irvine, Dept Dev & Cell Biol, Irvine, CA 92717 USA

[7] Univ Calif Irvine, Ctr Complex Biol Syst, Irvine, CA USA

[8] Bellvitge Biomed Res Inst IDIBELL, Canc Epigenet & Biol Programme PEBC, Chromatin & Dis Grp, Barcelona 08908, Spain

[9] Ludwig Maximilians Univ Munchen, Biomed Ctr, Prot Anal Unit, Munich, Germany

[10] Leiden Univ, Leiden Acad Ctr Drug Res, Div Analyt Biosci, Leiden, Netherlands

[11] Biomax Informat AG, Planegg, Germany

[12] Univ Florida, Genet Inst, Inst Food & Agr Res, Microbiol & Cell Sci Dept, Gainesville, FL USA

[13] Univ Crete, Comp Sci Dept, Iraklion, Greece

[14] Ilia State Univ, Inst Chem Biol, Tbilisi, Georgia

[15] Gnosis Data Anal PC, Iraklion, Greece

[16] QIAGEN Aarhus AS, Silkeborgvej 2, DK-8000 Aarhus, Denmark

[17] Northwest Univ, Fac Nat Sci, Ctr Human Metab, Potchefstroom Campus, Potchefstroom, South Africa

[18] Univ Amsterdam, Swammerdam Inst Life Sci, Amsterdam, Netherlands

[19] King Abdullah Univ Sci & Technol, Biol & Environm Sci & Engn Div, Comp Elect & Math Sci & Engn Div, Thuwal, Saudi Arabia

来源：

SCIENTIFIC DATA | 2019年 / 6卷 / 1期

关键词：

RNA-SEQ; TRANSCRIPTOMES; IDENTIFICATION; RESOLUTION; TOPHAT;

D O I：

10.1038/s41597-019-0202-7

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Multi-omics approaches use a diversity of high-throughput technologies to profile the different molecular layers of living cells. Ideally, the integration of this information should result in comprehensive systems models of cellular physiology and regulation. However, most multi-omics projects still include a limited number of molecular assays and there have been very few multi-omic studies that evaluate dynamic processes such as cellular growth, development and adaptation. Hence, we lack formal analysis methods and comprehensive multi-omics datasets that can be leveraged to develop true multi-layered models for dynamic cellular systems. Here we present the STAT egra multi-omics dataset that combines measurements from up to 10 different omics technologies applied to the same biological system, namely the well-studied mouse pre-B-cell differentiation. STATegra includes

引用

页数：15

共 50 条

[31] Multi-omics single-cell analysis
Nicole Rusk
Nature Methods, 2019, 16 : 679 - 679
[32] Galbase: a comprehensive repository for integrating chicken multi-omics data
Fu, Weiwei
Wang, Rui
Xu, Naiyi
Wang, Jinxin
Li, Ran
Asadollahpour Nanaei, Hojjat
Nie, Qinghua
Zhao, Xin
Han, Jianlin
Yang, Ning
Jiang, Yu
BMC GENOMICS, 2022, 23 (01)
[33] Multi-omics single-cell analysis
Rusk, Nicole
NATURE METHODS, 2019, 16 (08) : 679 - 679
[34] ZEAMAP, a Comprehensive Database Adapted to the Maize Multi-Omics Era
Gui, Songtao
Yang, Linfeng
Li, Jianbo
Luo, Jingyun
Xu, Xiaokai
Yuan, Jianyu
Chen, Lu
Li, Wenqiang
Yang, Xin
Wu, Shenshen
Li, Shuyan
Wang, Yuebin
Zhu, Yabing
Gao, Qiang
Yang, Ning
Yan, Jianbing
ISCIENCE, 2020, 23 (06)
[35] Unsupervised Multi-Omics Data Integration Methods: A Comprehensive Review
Vahabi, Nasim
Michailidis, George
FRONTIERS IN GENETICS, 2022, 13
[36] Galbase: a comprehensive repository for integrating chicken multi-omics data
Weiwei Fu
Rui Wang
Naiyi Xu
Jinxin Wang
Ran Li
Hojjat Asadollahpour Nanaei
Qinghua Nie
Xin Zhao
Jianlin Han
Ning Yang
Yu Jiang
BMC Genomics, 23
[37] KARYOTYPIC DIFFERENTIATION IN A SPONTANEOUS MOUSE B-CELL LEUKEMIA
SCHRODER, J
SUOMALAINEN, H
KNAPP, MR
GRONOWICZ, E
STROBER, S
CANCER GENETICS AND CYTOGENETICS, 1979, 1 (01) : 57 - 62
[38] scMoresDB: A comprehensive database of single-cell multi-omics data for human respiratory system
Chen, Kang
Han, Yutong
Wang, Yanni
Zhou, Dingli
Wu, Fanjie
Cai, Wenhao
Zheng, Shikang
Xiao, Qinyuan
Zhang, Haiyue
Li, Weizhong
ISCIENCE, 2024, 27 (04)
[39] Comprehensive multi-omics approaches for identification of genetic alterations in head and neck squamous cell carcinoma
Maclean, Kirsteen
Zha, Qinqin
Chandramohan, Lakshmi
Juncker-Jensen, Anna
CANCER RESEARCH, 2024, 84 (06)
[40] Multi-omics HeCaToS dataset of repeated dose toxicity for cardiotoxic & hepatotoxic compounds
Marcha Verheijen
Ugis Sarkans
Witold Wolski
Danyel Jennen
Florian Caiment
Jos Kleinjans
Scientific Data, 9

← 1 2 3 4 5 →