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The Transcriptional Program of Regeneration in the Giant Single Cell, Stentor coeruleus

https://doi.org/10.1101/240788
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Finding Groups in Data
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The effects of actinomycin D and ribonuclease on oral regeneration in Stentor coeruleus
inferredcites →https://doi.org/10.1002/jez.1401670405openalex-snapshot
Synthesis of RNA and protein in relation to oral regeneration in the ciliate Stentor coeruleus
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The Pol α-Primase Complex
inferredcites →https://doi.org/10.1007/s00294-007-0136-zopenalex-snapshot
Sfl1p acts as an activator of the HSP30 gene in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1016/0012-1606(67)90065-6openalex-snapshot
Regeneration and division in Stentor coeruleus: the effects of microinjected and externally applied actinomycin D and puromycin
inferredcites →https://doi.org/10.1016/0014-4827(57)90011-3openalex-snapshot
Reactions of Stentor coeruleus to certain substances added to the medium
inferredcites →https://doi.org/10.1016/j.celrep.2013.08.005openalex-snapshot
LRRC45 Is a Centrosome Linker Component Required for Centrosome Cohesion
inferredcites →https://doi.org/10.1016/j.celrep.2017.06.050openalex-snapshot
Two Sets of Piwi Proteins Are Involved in Distinct sRNA Pathways Leading to Elimination of Germline-Specific DNA
inferredcites →https://doi.org/10.1016/j.cub.2016.12.057openalex-snapshot
The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell
inferredcites →https://doi.org/10.1016/j.devcel.2013.05.016openalex-snapshot
Discovering Regulators of Centriole Biogenesis through siRNA-Based Functional Genomics in Human Cells
inferredcites →https://doi.org/10.1016/j.devcel.2016.01.016openalex-snapshot
Regulation of Golgi Cisternal Progression by Ypt/Rab GTPases
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Cell wounding and repair in ventilator injured lungs
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Basic Local Alignment Search Tool
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Molecular “Vitalism”
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Pattern formation in single cells
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A compendium of RNA-binding motifs for decoding gene regulation
inferredcites →https://doi.org/10.1038/nature12987openalex-snapshot
PIWI proteins and PIWI-interacting RNAs in the soma
inferredcites →https://doi.org/10.1038/nbt.1883openalex-snapshot
Full-length transcriptome assembly from RNA-Seq data without a reference genome
inferredcites →https://doi.org/10.1038/nbt.3172openalex-snapshot
Ballgown bridges the gap between transcriptome assembly and expression analysis
inferredcites →https://doi.org/10.1038/nbt.3519openalex-snapshot
Near-optimal probabilistic RNA-seq quantification
inferredcites →https://doi.org/10.1038/nmeth.4324openalex-snapshot
Differential analysis of RNA-seq incorporating quantification uncertainty
inferredcites →https://doi.org/10.1038/nprot.2013.084openalex-snapshot
De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with Trinity
inferredcites →https://doi.org/10.1038/nrm2180openalex-snapshot
Centrosome biogenesis and function: centrosomics brings new understanding
inferredcites →https://doi.org/10.1038/nrm3085openalex-snapshot
Ciliogenesis: building the cell's antenna
inferredcites →https://doi.org/10.1038/nrm3629openalex-snapshot
Control of cell cycle transcription during G1 and S phases
inferredcites →https://doi.org/10.1073/pnas.0408358102openalex-snapshot
Genome-wide transcriptional analysis of flagellar regeneration in Chlamydomonas reinhardtii identifies orthologs of ciliary disease genes
inferredcites →https://doi.org/10.1073/pnas.1005389107openalex-snapshot
Structural and functional analysis of the interaction between the nucleoporin Nup98 and the mRNA export factor Rae1
inferredcites →https://doi.org/10.1073/pnas.1508520112openalex-snapshot
Regenerative medicine: Current therapies and future directions
inferredcites →https://doi.org/10.1083/jcb.93.3.615openalex-snapshot
Synthesis, transport, and utilization of specific flagellar proteins during flagellar regeneration in Chlamydomonas.
inferredcites →https://doi.org/10.1091/mbc.e08-08-0885openalex-snapshot
Aurora B Kinase Regulates the Postmitotic Endoreduplication Checkpoint via Phosphorylation of the Retinoblastoma Protein at Serine 780
inferredcites →https://doi.org/10.1093/bioinformatics/bti310openalex-snapshot
GMAP: a genomic mapping and alignment program for mRNA and EST sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/nar/gkv1344openalex-snapshot
The Pfam protein families database: towards a more sustainable future
inferredcites →https://doi.org/10.1093/nar/gkw1099openalex-snapshot
UniProt: the universal protein knowledgebase
inferredcites →https://doi.org/10.1101/168187openalex-snapshot
A large kinome in a large cell: Stentor coeruleus possesses highly expanded kinase families and novel domain architectures
inferredcites →https://doi.org/10.1101/232363openalex-snapshot
RNA sequencing of Stentor cell fragments reveals key processes underlying cellular regeneration
inferredcites →https://doi.org/10.1101/cshperspect.a028126openalex-snapshot
Radial Spokes—A Snapshot of the Motility Regulation, Assembly, and Evolution of Cilia and Flagella
inferredcites →https://doi.org/10.1101/gad.13.20.2704openalex-snapshot
Recruitment of Nanos to hunchback mRNA by Pumilio
inferredcites →https://doi.org/10.1101/gr.080622.108openalex-snapshot
E2F in vivo binding specificity: Comparison of consensus versus nonconsensus binding sites
inferredcites →https://doi.org/10.1111/j.1550-7408.1971.tb03308.xopenalex-snapshot
Oral Regeneration in the Ciliate Stentor coeruleus: A Scanning and Transmission Electron Optical Study
inferredcites →https://doi.org/10.1126/science.1214457openalex-snapshot
Centrosome Loss in the Evolution of Planarians
inferredcites →https://doi.org/10.1126/science.aam6496openalex-snapshot
Self-repairing cells: How single cells heal membrane ruptures and restore lost structures
inferredcites →https://doi.org/10.1128/mcb.00346-07openalex-snapshot
A Novel Splicing Factor, Yju2, Is Associated with NTC and Acts after Prp2 in Promoting the First Catalytic Reaction of Pre-mRNA Splicing
inferredcites →https://doi.org/10.1128/mmbr.00019-09openalex-snapshot
The Mcm Complex: Unwinding the Mechanism of a Replicative Helicase
inferredcites →https://doi.org/10.1139/z81-309openalex-snapshot
Ultrastructure et mise en place des organelles buccaux au cours de la régénération orale chez Stentor coeruleus (Cilié Hétérotriche)
inferredcites →https://doi.org/10.1161/circresaha.109.215822openalex-snapshot
Cardioprotection of Ischemia/Reperfusion Injury by Cholesterol-Dependent MG53-Mediated Membrane Repair
inferredcites →https://doi.org/10.1186/gb-2013-14-4-r36openalex-snapshot
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
inferredcites →https://doi.org/10.1242/dev.124.15.3015openalex-snapshot
Nanos and pumilio establish embryonic polarity in Drosophila by promoting posterior deadenylation of hunchback mRNA
inferredcites →https://doi.org/10.1242/dev.129.11.2699openalex-snapshot
An anterior function for theDrosophilaposterior determinant Pumilio
inferredcites →https://doi.org/10.1242/jcs.02811openalex-snapshot
Radial spoke proteins ofChlamydomonasflagella
inferredcites →https://doi.org/10.1242/jcs.11.2.621openalex-snapshot
Evidence that the synchronized production of new basal bodies is not associated with dna synthesis in Stentor coeruleus
inferredcites →https://doi.org/10.1242/jcs.19.3.531openalex-snapshot
Macronuclear differentiation during oral regeneration in Stentor coeruleus
inferredcites →https://doi.org/10.1371/journal.pbio.1001861openalex-snapshot
The Kinase Regulator Mob1 Acts as a Patterning Protein for Stentor Morphogenesis
inferredcites →https://doi.org/10.1371/journal.pgen.1001114openalex-snapshot
Chromatin Landscape Dictates HSF Binding to Target DNA Elements
inferredcites →https://doi.org/10.1508/cytologia.31.80openalex-snapshot
RNA Metabolism during Regeneration in Stentor coeruleus
inferredcites →https://doi.org/10.1534/g3.113.006338openalex-snapshot
Identification of Cilia Genes That Affect Cell-Cycle Progression Using Whole-Genome Transcriptome Analysis in Chlamydomonas reinhardtti
inferredcites →https://doi.org/10.1534/genetics.115.186452openalex-snapshot
Chromosome Duplication in Saccharomyces cerevisiae
inferredcites →https://doi.org/10.2307/1535709openalex-snapshot
REGENERATION OF PROPORTIONATE STRUCTURES IN STENTOR
inferredcites →https://doi.org/10.5962/bhl.title.7444openalex-snapshot
The biology of Stentor
inferredcites →https://doi.org/10.5962/bhl.title.87895openalex-snapshot
Regeneration

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.cub.2018.02.055openalex-snapshot
RNA Sequencing of Stentor Cell Fragments Reveals Transcriptional Changes during Cellular Regeneration
inferred← citeshttps://doi.org/10.1016/j.cub.2019.10.059openalex-snapshot
A Complex Hierarchy of Avoidance Behaviors in a Single-Cell Eukaryote
inferred← citeshttps://doi.org/10.1016/j.gene.2020.144624openalex-snapshot
Proteomic identification and expression of oral apparatus constituents in cell regeneration of giant ciliate Stentor coeruleus (strain WHEL)
inferred← citeshttps://doi.org/10.1098/rstb.2019.0167openalex-snapshot
Reorganization of complex ciliary flows around regenerating Stentor coeruleus
inferred← citeshttps://doi.org/10.1101/2022.01.06.475287openalex-snapshot
Proteomic Dissection of a Giant Cell
inferred← citeshttps://doi.org/10.1101/232363openalex-snapshot
RNA sequencing of Stentor cell fragments reveals key processes underlying cellular regeneration
inferred← citeshttps://doi.org/10.1111/pala.12484openalex-snapshot
Cochleatina: an enigmatic Ediacaran–Cambrian survivor among small carbonaceous fossils (SCF s )
inferred← citeshttps://doi.org/10.1242/jcs.236679openalex-snapshot
Meeting report – Cell dynamics: organelle–cytoskeleton interface
inferred← citeshttps://doi.org/10.3389/fcell.2021.753625openalex-snapshot
Regeneration in Stentor coeruleus
inferred← citeshttps://doi.org/10.3390/microorganisms9010176openalex-snapshot
RNA Interference by Cyanobacterial Feeding Demonstrates the SCSG1 Gene Is Essential for Ciliogenesis during Oral Apparatus Regeneration in Stentor
inferred← citeshttps://doi.org/10.7554/elife.80778openalex-snapshot
Modular, cascade-like transcriptional program of regeneration in Stentor
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