On the public citation graph

The giant sequoia genome and proliferation of disease resistance genes

https://doi.org/10.1101/2020.03.17.995944

0 signed · 76 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.

Claim with ORCID

Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.

See reference health

What this work says

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

inferredcites →https://doi.org/10.1002/adma.201603738openalex-snapshot

A Simple Thermoplastic Substrate Containing Hierarchical Silica Lamellae for High‐Molecular‐Weight DNA Extraction

inferredcites →https://doi.org/10.1002/ajb2.1143openalex-snapshot

An overview of extant conifer evolution from the perspective of the fossil record

inferredcites →https://doi.org/10.1002/ece3.2122openalex-snapshot

Long‐term demographic decline and late glacial divergence in a Californian paleoendemic: Sequoiadendron giganteum (giant sequoia)

inferredcites →https://doi.org/10.1002/j.1537-2197.1939.tb09314.xopenalex-snapshot

THE GENERIC SEGREGATION OF THE SEQUOIAS

inferredcites →https://doi.org/10.1007/978-1-4939-9173-0_5openalex-snapshot

Whole-Genome Annotation with BRAKER

inferredcites →https://doi.org/10.1007/bf00984578openalex-snapshot

Cytotaxonomy and phylogeny in certain species ofTaxodiaceae

inferredcites →https://doi.org/10.1007/s00438-004-0990-zopenalex-snapshot

Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes

inferredcites →https://doi.org/10.1007/s12686-013-0039-xopenalex-snapshot

Development and characterization of microsatellite markers for giant sequoia, Sequoiadendron giganteum (Cupressaceae)

inferredcites →https://doi.org/10.1016/j.foreco.2017.10.053openalex-snapshot

Patterns and correlates of giant sequoia foliage dieback during California’s 2012–2016 hotter drought

inferredcites →https://doi.org/10.1016/j.gpb.2019.04.002openalex-snapshot

gFACs: Gene Filtering, Analysis, and Conversion to Unify Genome Annotations Across Alignment and Gene Prediction Frameworks

inferredcites →https://doi.org/10.1016/j.infsof.2005.09.005openalex-snapshot

Engineering a software tool for gene structure prediction in higher organisms

inferredcites →https://doi.org/10.1038/nbt.2050openalex-snapshot

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

inferredcites →https://doi.org/10.1038/nmeth.3317openalex-snapshot

HISAT: a fast spliced aligner with low memory requirements

inferredcites →https://doi.org/10.1038/nprot.2011.455openalex-snapshot

Preparation of megabase-sized DNA from a variety of organisms using the nuclei method for advanced genomics research

inferredcites →https://doi.org/10.1038/s41477-017-0097-2openalex-snapshot

A genome for gnetophytes and early evolution of seed plants

inferredcites →https://doi.org/10.1038/s41598-019-47950-7openalex-snapshot

The large repertoire of conifer NLR resistance genes includes drought responsive and highly diversified RNLs

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/btn013openalex-snapshot

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot

BEDTools: a flexible suite of utilities for comparing genomic features

inferredcites →https://doi.org/10.1093/bioinformatics/btq057openalex-snapshot

Fast and SNP-tolerant detection of complex variants and splicing in short reads

inferredcites →https://doi.org/10.1093/bioinformatics/btr011openalex-snapshot

A fast, lock-free approach for efficient parallel counting of occurrences of k -mers

inferredcites →https://doi.org/10.1093/bioinformatics/btt476openalex-snapshot

The MaSuRCA genome assembler

inferredcites →https://doi.org/10.1093/bioinformatics/btu031openalex-snapshot

InterProScan 5: genome-scale protein function classification

inferredcites →https://doi.org/10.1093/bioinformatics/btu033openalex-snapshot

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

inferredcites →https://doi.org/10.1093/bioinformatics/btv351openalex-snapshot

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

inferredcites →https://doi.org/10.1093/bioinformatics/btv661openalex-snapshot

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS

inferredcites →https://doi.org/10.1093/bioinformatics/bty191openalex-snapshot

Minimap2: pairwise alignment for nucleotide sequences

inferredcites →https://doi.org/10.1093/database/bay084openalex-snapshot

Growing and cultivating the forest genomics database, TreeGenes

inferredcites →https://doi.org/10.1093/database/bay131openalex-snapshot

ConTEdb: a comprehensive database of transposable elements in conifers

inferredcites →https://doi.org/10.1093/molbev/mst100openalex-snapshot

Estimating Gene Gain and Loss Rates in the Presence of Error in Genome Assembly and Annotation Using CAFE 3

inferredcites →https://doi.org/10.1093/molbev/mst166openalex-snapshot

Presence–Absence Variation in A. thaliana Is Primarily Associated with Genomic Signatures Consistent with Relaxed Selective Constraints

inferredcites →https://doi.org/10.1093/nar/27.2.573openalex-snapshot

Tandem repeats finder: a program to analyze DNA sequences

inferredcites →https://doi.org/10.1093/nar/gkv1189openalex-snapshot

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

inferredcites →https://doi.org/10.1093/nar/gkw290openalex-snapshot

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

inferredcites →https://doi.org/10.1093/nar/gky1049openalex-snapshot

UniProt: a worldwide hub of protein knowledge

inferredcites →https://doi.org/10.1093/nar/gkz890openalex-snapshot

Ensembl Genomes 2020—enabling non-vertebrate genomic research

inferredcites →https://doi.org/10.1101/339424openalex-snapshot

Physical and transcriptional organisation of the bread wheat intracellular immune receptor repertoire

inferredcites →https://doi.org/10.1101/gr.193474.115openalex-snapshot

Chromosome-scale shotgun assembly using an in vitro method for long-range linkage

inferredcites →https://doi.org/10.1101/gr.213405.116openalex-snapshot

Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii , a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm

inferredcites →https://doi.org/10.1111/1755-0998.13106openalex-snapshot

EnTAP : Bringing faster and smarter functional annotation to non‐model eukaryotic transcriptomes

inferredcites →https://doi.org/10.1111/j.1601-5223.1941.tb03257.xopenalex-snapshot

COLCHICINE-INDUCED TETRAPLOIDY IN SEQUOIA GIGANTEA

inferredcites →https://doi.org/10.1111/nph.13930openalex-snapshot

Whole genome duplication in coast redwood ( Sequoia sempervirens ) and its implications for explaining the rarity of polyploidy in conifers

inferredcites →https://doi.org/10.1111/tpj.12886openalex-snapshot

Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism

inferredcites →https://doi.org/10.1111/tpj.13773openalex-snapshot

Plant–arthropod interactions: who is the winner?

inferredcites →https://doi.org/10.1126/science.1241089openalex-snapshot

The Amborella Genome and the Evolution of Flowering Plants

inferredcites →https://doi.org/10.1146/annurev-phyto-080417-045817openalex-snapshot

Structural, Functional, and Genomic Diversity of Plant NLR Proteins: An Evolved Resource for Rational Engineering of Plant Immunity

inferredcites →https://doi.org/10.1186/1471-2105-7-62openalex-snapshot

Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources

inferredcites →https://doi.org/10.1186/1471-2164-12-372openalex-snapshot

Detection of copy number variations in rice using array-based comparative genomic hybridization

inferredcites →https://doi.org/10.1186/1471-2164-13-75openalex-snapshot

Identification and localisation of the NB-LRR gene family within the potato genome

inferredcites →https://doi.org/10.1186/gb-2011-12-11-r114openalex-snapshot

Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor)

inferredcites →https://doi.org/10.1186/gb-2014-15-3-r59openalex-snapshot

Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies

inferredcites →https://doi.org/10.1186/preaccept-2784872521277375openalex-snapshot

Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa , document novel gene space of aus and indica

inferredcites →https://doi.org/10.1186/s13059-015-0721-2openalex-snapshot

OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy

inferredcites →https://doi.org/10.1186/s13059-019-1727-yopenalex-snapshot

Performance of neural network basecalling tools for Oxford Nanopore sequencing

inferredcites →https://doi.org/10.1186/s13059-019-1832-yopenalex-snapshot

OrthoFinder: phylogenetic orthology inference for comparative genomics

inferredcites →https://doi.org/10.1186/s13742-016-0154-1openalex-snapshot

Draft genome of the living fossil Ginkgo biloba

inferredcites →https://doi.org/10.1371/journal.pgen.1008571openalex-snapshot

Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing

inferredcites →https://doi.org/10.1508/cytologia.66.307openalex-snapshot

Flow Cytometric Determination of Genome Size in the Taxodiaceae, Cupressaceae sensu stricto and Sciadopityaceae.

inferredcites →https://doi.org/10.1534/g3.117.300078openalex-snapshot

The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae

inferredcites →https://doi.org/10.1534/g3.119.400083openalex-snapshot

A Reference Genome Sequence for the European Silver Fir (Abies albaMill.): A Community-Generated Genomic Resource

inferredcites →https://doi.org/10.1534/genetics.113.159715openalex-snapshot

Sequencing and Assembly of the 22-Gb Loblolly Pine Genome

inferredcites →https://doi.org/10.1534/genetics.113.159996openalex-snapshot

Unique Features of the Loblolly Pine (Pinus taeda L.) Megagenome Revealed Through Sequence Annotation

inferredcites →https://doi.org/10.1534/genetics.116.193227openalex-snapshot

Sequence of the Sugar Pine Megagenome

inferredcites →https://doi.org/10.1890/14-1016.1openalex-snapshot

How do tree structure and old age affect growth potential of California redwoods?

inferredcites →https://doi.org/10.3389/fpls.2013.00166openalex-snapshot

ARP2/3-dependent growth in the plant kingdom: SCARs for life

inferredcites →https://doi.org/10.3389/fpls.2019.00813openalex-snapshot

Cyberinfrastructure to Improve Forest Health and Productivity: The Role of Tree Databases in Connecting Genomes, Phenomes, and the Environment

inferredcites →https://doi.org/10.48550/arxiv.1207.3907openalex-snapshot

Haplotype-based variant detection from short-read sequencing

inferredcites →https://doi.org/10.5962/bhl.title.21707openalex-snapshot

Climatic cycles and tree-growth

inferredcites →https://doi.org/10.6084/m9.figshare.963153.v1openalex-snapshot

Aligning sequence reads, clone sequences and assembly con*gs with BWA-MEM

What points at this work

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

inferred← citeshttps://doi.org/10.1038/s41587-021-01108-xopenalex-snapshot

Nanopore sequencing technology, bioinformatics and applications

inferred← citeshttps://doi.org/10.1038/s42003-021-02697-8openalex-snapshot

Taxus yunnanensis genome offers insights into gymnosperm phylogeny and taxol production

inferred← citeshttps://doi.org/10.1093/g3journal/jkac304openalex-snapshot

A long-read and short-read transcriptomics approach provides the first high-quality reference transcriptome and genome annotation for Pseudotsuga menziesii (Douglas-fir)

inferred← citeshttps://doi.org/10.1371/journal.pone.0261274openalex-snapshot

Genomic prediction using low-coverage portable Nanopore sequencing

inferred← citeshttps://doi.org/10.3390/genes11121478openalex-snapshot

The Future of Livestock Management: A Review of Real-Time Portable Sequencing Applied to Livestock

inferred← citeshttps://doi.org/10.70675/0b3fded9z0768z4976z9f7cz8b7e4a9f1114openalex-snapshot

Phylogenomics and comparative genomics in ant-eating mammals

inferred← citeshttps://doi.org/10.7554/elife.63167openalex-snapshot

High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.