Literature DB >> 31464566

Transcribing the heart: faithfully interpreting cardiac transcriptional insights.

Oscar Echeagaray1, Mark A Sussman1.   

Abstract

Transcriptional profiling continues to produce phenotypical data essential for understanding of basic cardiac biology and required to improve efficiency of cardiac regenerative and therapeutic approaches after injury. Accurate interpretation of cardiac transcriptional data comes with the unique challenges of heart biology including cardiomyocyte morphology, cryopreservation of limited samples and adequate selection of transcriptional platform at a single-cell resolution. Consequently, development and implementation of novel transcriptional platforms and creative bioinformatic analysis are essential to resolve standing questions in the field of cardiac regenerative medicine. Targeted bioinformatic approaches, advancing technological access, increase technical availability and fostering communication between interdisciplinary groups is critical to improve therapeutic approaches and to overcome challenges inherent to transcriptomic cardiac research.

Keywords:  bioinformatics; cardiac; single-cell RNA-Seq; transcriptional profiling; transcriptome

Mesh:

Year:  2019        PMID: 31464566      PMCID: PMC6770408          DOI: 10.2217/rme-2019-0063

Source DB:  PubMed          Journal:  Regen Med        ISSN: 1746-0751            Impact factor:   3.806


  33 in total

1.  Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution.

Authors:  Samuel G Rodriques; Robert R Stickels; Aleksandrina Goeva; Carly A Martin; Evan Murray; Charles R Vanderburg; Joshua Welch; Linlin M Chen; Fei Chen; Evan Z Macosko
Journal:  Science       Date:  2019-03-28       Impact factor: 47.728

2.  Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons.

Authors:  Naomi Habib; Yinqing Li; Matthias Heidenreich; Lukasz Swiech; Inbal Avraham-Davidi; John J Trombetta; Cynthia Hession; Feng Zhang; Aviv Regev
Journal:  Science       Date:  2016-07-28       Impact factor: 47.728

3.  Pathologic Stimulus Determines Lineage Commitment of Cardiac C-kit+ Cells.

Authors:  Zhongming Chen; Wuqiang Zhu; Ingrid Bender; Wuming Gong; Il-Youp Kwak; Amritha Yellamilli; Thomas J Hodges; Natsumi Nemoto; Jianyi Zhang; Daniel J Garry; Jop H van Berlo
Journal:  Circulation       Date:  2017-10-11       Impact factor: 29.690

4.  Single-Cell RNA-Seq of Bone Marrow-Derived Mesenchymal Stem Cells Reveals Unique Profiles of Lineage Priming.

Authors:  Brian T Freeman; Jangwook P Jung; Brenda M Ogle
Journal:  PLoS One       Date:  2015-09-09       Impact factor: 3.240

5.  Single-cell transcriptome conservation in cryopreserved cells and tissues.

Authors:  Amy Guillaumet-Adkins; Gustavo Rodríguez-Esteban; Elisabetta Mereu; Maria Mendez-Lago; Diego A Jaitin; Alberto Villanueva; August Vidal; Alex Martinez-Marti; Enriqueta Felip; Ana Vivancos; Hadas Keren-Shaul; Simon Heath; Marta Gut; Ido Amit; Ivo Gut; Holger Heyn
Journal:  Genome Biol       Date:  2017-03-01       Impact factor: 13.583

6.  Multicellular Transcriptional Analysis of Mammalian Heart Regeneration.

Authors:  Gregory A Quaife-Ryan; Choon Boon Sim; Mark Ziemann; Antony Kaspi; Haloom Rafehi; Mirana Ramialison; Assam El-Osta; James E Hudson; Enzo R Porrello
Journal:  Circulation       Date:  2017-07-21       Impact factor: 29.690

7.  Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis.

Authors:  Sayed Mohammad Ebrahim Sahraeian; Marghoob Mohiyuddin; Robert Sebra; Hagen Tilgner; Pegah T Afshar; Kin Fai Au; Narges Bani Asadi; Mark B Gerstein; Wing Hung Wong; Michael P Snyder; Eric Schadt; Hugo Y K Lam
Journal:  Nat Commun       Date:  2017-07-05       Impact factor: 14.919

8.  Transcriptomic landscape of the blastema niche in regenerating adult axolotl limbs at single-cell resolution.

Authors:  Nicholas D Leigh; Garrett S Dunlap; Kimberly Johnson; Rachelle Mariano; Rachel Oshiro; Alan Y Wong; Donald M Bryant; Bess M Miller; Alex Ratner; Andy Chen; William W Ye; Brian J Haas; Jessica L Whited
Journal:  Nat Commun       Date:  2018-12-04       Impact factor: 14.919

9.  Definition of a cell surface signature for human cardiac progenitor cells after comprehensive comparative transcriptomic and proteomic characterization.

Authors:  José Luis Torán; Juan Antonio López; Patricia Gomes-Alves; Susana Aguilar; Carlos Torroja; Marco Trevisan-Herraz; Isabel Moscoso; Maria João Sebastião; Margarida Serra; Catarina Brito; Francisco Miguel Cruz; Juan Carlos Sepúlveda; José Luis Abad; Carlos Galán-Arriola; Borja Ibanez; Fernando Martínez; María Eugenia Fernández; Francisco Fernández-Aviles; Itziar Palacios; Luis R-Borlado; Jesús Vázquez; Paula M Alves; Antonio Bernad
Journal:  Sci Rep       Date:  2019-03-15       Impact factor: 4.379

10.  Cardiac interstitial tetraploid cells can escape replicative senescence in rodents but not large mammals.

Authors:  Kathleen M Broughton; Tiffany Khieu; Nicky Nguyen; Michael Rosa; Sadia Mohsin; Pearl Quijada; Bingyan J Wang; Oscar H Echeagaray; Dieter A Kubli; Taeyong Kim; Fareheh Firouzi; Megan M Monsanto; Natalie A Gude; Robert M Adamson; Walter P Dembitsky; Michael E Davis; Mark A Sussman
Journal:  Commun Biol       Date:  2019-06-13
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