Analysis Search
| Name Sort descending | Description | |
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| Germplasm Image Acquisition for SCRI Project - 2019 | Images from carrot roots grown in 2019 used by the SCRI Project. Grown at the University of California - Desert Research and Extension Center (32.816363, -115.441595) from October 2018 to March 2019 |
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| Marker Development and and Linkage Map for Y₂, the Gene That Conditions β-Carotene Accumulation in Carrot | The F4 population 74,146 was derived from a cross between USDA carrot inbred line B493, an orange-rooted line, and QAL (Queen Anne’s Lace), a wild-type white-rooted carrot from the United States. The TASSEL-GBS pipeline version 4.3.7 was… |
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| Nantaise transcriptome assembly Arias et al. 2020 | Plants of commercially acquired carrot (Daucus carota L.) cultivar Nantaise were harvested 8 weeks after sowing. RNA was sequenced by OMIC Solution (Santiago, Chile) using the Ion Torrent PGM technology (chip P1.1.17)… |
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| Nantaise transcriptome assembly Arias et al. 2020 blast to DCARv2 | The assembled sequences from the 2020 transcriptome assembly were mapped to the carrot genome assembly DCARv2 using blastn. Resulting hits were converted to gff3 format for use in the CarrotOmics JBrowse. This file can be downloaded from the link… |
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| NCBI Daucus carota subsp. sativus Annotation Release GCF_001625215.2-RS_2024_03 | The genome sequence records for Daucus carota subsp. sativus RefSeq assembly GCF_001625215.2 (DH1… |
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| NCBI peptide blastp to SwissProt and TrEMBL without DCAR | This analysis is a blastp search of all of the NCBI Daucus carota subsp. sativus Annotation Release 100 polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to… | |
| NCBI Taxonomy | This analysis represents taxonomy derived from National Center for Biotechnology Information (NCBI) Taxonomy. |
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| Pathogen Receptor Genes in carrot genome assembly V2 | PRGdb is an open and updated space about Pathogen Receptor Genes (PRGs), in which all information available about these genes is stored, curated and discussed. The purpose of our work is creating a worldwide community working on… |
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| Repeat Explorer 2013 Analysis | A RepeatExplorer (http://repeatexplorer.org/) analysis performed on Illumina reads of the carrot doubled haploid line used for genome assembly. 1,018,607 Illumina reads trimmed to a uniform 90nt length were used for clustering. Data… |
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| Stowaway miniature inverted repeat transposable elements 2019 | 18,518 DcSto insertion sites were identified across 31 genomes of D. carota. To identify insertion sites of 14 DcSto families we used RelocaTE with consensus sequences representing DcSto families. RelocaTE… |
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| TreeBASE Tree Tr115096 | TreeBASE Tree Tr115096 from study S23618. This tree corresponds to figure 1 in the referenced publication. Strict consensus maximum parsimony tree of 48 trees (tree length 8341) constructed with ten nuclear orthologous gene sequences of allele… |
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| TreeBASE Tree Tr119314 | TreeBASE Tree Tr119314 from study S24902. Life form and life span evolution in Daucinae reconstructed using maximum parsimony (branch colors) and maximum likelihood estimates of ancestral states (pie charts represent relative likelihoods). Time… |
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| TreeBASE Tree Tr1693 | TreeBASE Tree Tr1693 from study S1104. Fig. 1. Strict consensus tree of 32 minimal length 524-step trees derived from equally weighted maximum parsimony analysis of 88 ITS sequences (CI’s 5 0.66 and 0.64, with and without uninformative positions,… | |
| TreeBASE Tree Tr1694 | TreeBASE Tree Tr1694 from study S1105. Fig. 1. Strict consensus of 20,000 minimal length 881-step trees derived from equally-weighted maximum parsimony analysis of aligned ITS-1 and ITS-2 sequences from 150 terminals (159 accessions) of Apiaceae… | |
| TreeBASE Tree Tr2083 | TreeBASE Tree Tr2083 from study S1328. Fig. 2. Strict consensus of 192 shortest trees resulting from the maximum parsimony analysis of 33 ITS sequences of 673 characters; tree length = 190 steps; CI = 0.680; RI = 0.853. | |
| TreeBASE Tree Tr2084 | TreeBASE Tree Tr2084 from study S1328. Fig. 3. The single shortest tree resulting from the maximum parsimony analysis of 24 ETS sequences of 394 characters; tree length = 126 steps; CI = 0.717; RI = 0.869. | |
| TreeBASE Tree Tr2085 | TreeBASE Tree Tr2085 from study S1328. Fig. 4a. Strict consensus trees resulting from separate analyses of ITS and ETS data, each with an identical 21-taxon sampling. A. ITS analysis: strict consensus of 64 shortest trees resulting from the maximum… | |
| TreeBASE Tree Tr2086 | TreeBASE Tree Tr2086 from study S1328. Fig. 4b. Strict consensus trees resulting from separate analyses of ITS and ETS data, each with an identical 21-taxon sampling. B. ETS analysis: the single shortest tree resulting from the maximum parsimony… | |
| TreeBASE Tree Tr237 | TreeBASE Tree Tr237 from study S1328. Fig. 5. Strict consensus of 4 shortest trees resulting from the maximum parsimony analysis of the combined (ITS + ETS) data set from 21 sequences of 1,067 characters; tree length = 288 steps; CI = 0.685; RI = 0.… | |
| TreeBASE Tree Tr2761 | TreeBASE Tree Tr2761 from study S1799. Figure 2. Majority-rule consensus tree obtained from Bayesian analysis of 159 terminals representing Cryptotaenia and most major clades of Apiaceae subfamily Apioideae using a GTR + G + I substitution model. | |
| TreeBASE Tree Tr2924 | TreeBASE Tree Tr2924 from study S1957. Figure 1. Strict consensus of 350 minimal length 843-step trees derived from equally weighted maximum parsimony analysis of 147 ITS sequences represented by 83 terminals (CI = 0.5475, without uninformative… | |
| TreeBASE Tree Tr3014 | TreeBASE Tree Tr3014 from study S2028. Figure 1. Majority-rule consensus tree obtained from Bayesian analysis of 49 terminals representing Ferula and most major clades of Apiaceae subfamily Apioideae using a GTR + G + I nucleotide substitution model. | |
| TreeBASE Tree Tr3015 | TreeBASE Tree Tr3015 from study S2028. Figure 2. Majority-rule consensus tree obtained from Bayesian analysis of 76 terminals representing Ferula s.l., major clades of tribe Scandiceae, and outgroups using a GTR + G substitution model. | |
| TreeBASE Tree Tr4547 | TreeBASE Tree Tr4547 from study S1418. Fig. 4A. Maximum likelihood (ML) and Bayesian phylogenies. (A) Single ML tree derived under the GTR + G model of nucleotide substitution (–lnL = 3153.10211). | |
| TreeBASE Tree Tr4594 | TreeBASE Tree Tr4594 from study S1524. Fig. 1. Majority-rule consensus of 33408 shortest trees (each of length 507 steps; CI = 0.641, excluding uninformative characters; RI = 0.890) obtained from maximum parsimony heuristic searches using a 59-… |