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Index of /EvidentialGene/arthropods/deertick/ixotick19evg

      Name                                Last modified       Size  

[DIR] Parent Directory 31-Dec-2019 15:25 - [DIR] rnasamples/ 31-Dec-2019 15:22 - [TXT] ixotick19evg_selenogenes.txt 31-Dec-2019 22:55 3k [TXT] ixotick19evg_readme.txt 31-Dec-2019 15:36 2k [TXT] ixotick19evg_genesets_compared.html 31-Dec-2019 15:01 26k


EvidentialGene reconstruction of Ixodes scapularis deer tick gene set,
  2019 December.


Homology Comparisons of Ixodes scapularis gene sets
	Ixodes scapularis x I. ricinis aligned genes
Source           nHit        nBest     %Aln %pairAln  nConserved 
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Ixosc19Evigene  97%,62619   91%,58471   77%   85%    1059/1066   
Ixosc14Evigene  71%,45396   63%,40933   76%   81%    1043/1066
Ixosc19NCBI     52%,33649   20%,13039   81%   81%    1030/1066
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Ixodes_scapularis gene sets
  Evigene 2019 RNA assembly (Ixosc19Evigene update w/ tr2aacds4, Ixos9fEV set, 3 SRA prj)
  Evigene 2014 RNA assembly (Ixosc14Evigene update w/ tr2aacds4, 1 SRA project)
  NCBI 2019 genome models (Ixosc19NCBI), 
Ref  = ixodes_ricinis (Ixoric18TSA), 
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Gene set reconstruction with EvidentialGene  SRA2Genes and tr2aacds v4,
updates described at doi:10.7717/peerj.6374 and doi:10.1101/829184 

Public genome data for Ticks,  2019 Nov
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Ixodidae
+-Ixodes                                       NCBI Data (gn,chr,prot,sra)
| \-Ixodes scapularis   (black-legged tick)    49859 1 54299 755
| \-Ixodes ricinus (castor bean tick,european)    37 1 46788 184   
+-Amblyomma
| \-Amblyomma americanum   (Lone Star tick)       37 1 3789 257  (1 genome=mitochondria)
| \-Amblyomma maculatum (Gulf Coast tick)          0 0 4894 101
+-Dermacentor
| \-Dermacentor andersoni (Rocky Mountain tick)    0  0  17 197
| \-Dermacentor variabilis (American dog tick)     0  0  514 70 
+-Rhipicephalus
| \-Rhipicephalus    (zebra,cattle,dog ticks)      50 2 25442 114 

NCBI Data numbers are genes, genomes, proteins, SRAdata
Haemaphysalis longicornis (longhorned tick) has chr assembly
Other tick species with data are not listed
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Developed at the Genome Informatics Lab of Indiana University Biology Department