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Data

This page lists all data sources loaded along with the date the data was downloaded and related publication. NOTE: All external links open in a new window.

Data Category Description Organism Source PubMed Link

Genes

Consortium Official Gene Set A. echinatior aech_OGSv3.8 Nygard et al PubMed: 21719571 HGD Ant Genomes
A. mellifera amel_OGSv3.2

Elsik et al PubMed: 24479613

Honeybee Genome Sequencing Consortium. PubMed: 17073008

HGD BeeBase
B. impatiens Bombus_impatiens_v1.2 Sadd et al PubMed: 25908251 HGD BeeBase
C. floridanus cflo_OGSv3.3
 
Bonasio et al PubMed: 20798317 HGD Ant Genomes
C. obscurior cobs_OGSv1.4 Schrader et al PubMed: 25510865 HGD Ant Genomes
C. biroi armyant.OGS.V1.8.6 Oxley PR et al PubMed: 24508170 HGD Ant Genomes
D. novaeangliae Dufourea_novaeangliae_v1.1 Kapheim KM et al PubMed: 25977371 HGD BeeBase
E. mexicana Eufriesea_mexicana_v1.1 Kapheim KM et al PubMed: 25977371 HGD BeeBase
H. laboriosa Habropoda_laboriosa_v1.2 Kapheim KM et al PubMed: 25977371 HGD BeeBase
H. saltator
 
 
hsal_OGSv3.3
 
Bonasio et al PubMed: 20798317 HGD Ant Genomes
L. albipes lalb_OGSv5.42 Kocher et al PubMed: 24359881 HGD BeeBase
L. humile lhum_OGSv1.2 Smith et al PubMed: 21282631 HGD Ant Genomes
M. rotundata Megachile_rotundata_v1.1 Kapheim KM et al PubMed: 25977371 HGD BeeBase
M. quadrifasciata Melipona_quadrifasciata_v1.1 Kapheim KM et al PubMed: 25977371 HGD BeeBase
N. vitripennis nvit_OGSv1.2 Werren JH et al PubMed: 20075255 HGD NasoniaBase
N. vitripennis nvit2_evigenes_pub11u Rago A et al PubMed: 27561358 HGD NasoniaBase
P. barbatus pbar_OGSv1.2 Smith et al PubMed: 21282651 HGD Ant Genomes
S. invicta sinv_OGSv2.2.3 Wurm et al PubMed: 21282665 HGD Ant Genomes
NCBI Annotation (RefSeq and Gene) A. echinatior RefSeq-Release 100

O'Leary NA et al - PubMed: 26553804

NCBI ftp
A. cerana RefSeq-Release 100 NCBI ftp
A. dorsata RefSeq-Release 100 NCBI ftp
A. florea RefSeq-Release 101 NCBI ftp
A. mellifera RefSeq-Release 102 NCBI ftp
A. cephalotes RefSeq-Release 100 NCBI ftp
B. impatiens RefSeq-Release 101 NCBI ftp
B. terrestris RefSeq-Release 101 NCBI ftp
C. floridanus RefSeq-Release 100 NCBI ftp
C. biroi RefSeq-Release 100 NCBI ftp
C. calcarata RefSeq-Release 100 NCBI ftp
D. novaeangliae RefSeq-Release 100 NCBI ftp
H. saltator RefSeq-Release 100 NCBI ftp
L. humile RefSeq-Release 100 NCBI ftp
M. rotundata RefSeq-Release 101 NCBI ftp
M. pharaonis RefSeq-Release 100 NCBI ftp
N. vitripennis RefSeq-Release 101 NCBI ftp
P. barbatus RefSeq-Release 100 NCBI ftp
S. invicta RefSeq-Release 100 NCBI ftp
W. auropunctata RefSeq-Release 100 NCBI ftp

Homology

Orthologue relationships from OrthoDB

A. echinatior

A. dorsata

A. florea

A. mellifera

B. impatiens

B. terrestris

C. floridanus

C. obscurior

C. biroi

D. melanogaster

D. novaeangliae

E. mexicana

H. laboriosa

H. saltator

L. albipes

L. humile

M. rotundata

M. quadrifasciata

N. vitripennis

P. barbatus

S. invicta

W. auropunctata

OrthoDB Version 9 Zdobnov EM et al - PubMed: 27899580 OrthoDB ftp
Orthologue relationships from Ensembl Compara

A. mellifera

A. cephalotes

B. impatiens

D. melanogaster

N. vitripennis

S. invicta

Ensembl Metazoa release 36 Aken BL et al - PubMed 27899575 Ensembl Metazoa

Proteins

Protein Annotations from UniProt A. echinatior UniProt Release 2017_01 UniProt Consortium PubMed: 27899622 UniProt FTP
A. dorsata
A. florea
A. mellifera
B. impatiens
B. terrestris
C. floridanus
C. biroi
D. melanogaster
D. novaeangliae
H. saltator
L. humile
M. rotundata
N. vitripennis
P. barbatus
S. invicta
Protein family and domain assignments to proteins from InterPro A. echinatior InterPro Version 61 Finn RD et al PubMed: 27899635 InterPro ftp
A. dorsata
A. florea
A. mellifera
B. impatiens
B. terrestris
C. floridanus
C. biroi
D. melanogaster
D. novaeangliae
H. saltator
L. humile
M. rotundata
N. vitripennis
P. barbatus
S. invicta

Gene Ontology

GO Annotations A. echinatior UniProt Release 2015_08

UniProt Consortium - PubMed: 27899622

UniProt-GOA -Huntley RP et al - PubMed: 25378336

Gene Ontology C - PubMed: 25428369

UniProt FTP

GO Ontology FTP

A. dorsata
A. florea
A. mellifera
B. impatiens
B. terrestris
C. floridanus
C. biroi
D. melanogaster
D. novaeangliae
H. saltator
L. humile
M. rotundata
N. vitripennis
P. barbatus
S. invicta

Expression

RNA-seq gene expression computed on reference gene set OGSv3.2 A. mellifera NCBI-SRA-Sept 2014, HGD Kodama et al PubMed: 22009675 NCBI SRA

Genome Assembly

Chromosome Assembly A. echinatior Aech_3.9 (GCF_000204515.1) Nygard et al PubMed: 21719571 NCBI ftp
A. cerana acer_ACSNU-2.0(GCF_001442555.1)
 
NCBI ftp
A. dorsata Ador_1.3(GCF_000469605.1) Suen et al PubMed: 21347285 NCBI ftp
A. florea Aflo_1.0(GCF_000184785.2)
 
NCBI ftp
A. mellifera Amel_4.5 (GCF_000002195.4) Elsik et al PubMed: 24479613 NCBI ftp
A. cephalotes acep_1.0(GCF_000143395.1)
 
NCBI ftp
B. impatiens BIMP_2.0 (GCF_000188095.1) Sadd et al PubMed: 25908251
 
NCBI ftp
B. terrestris Bter_1.0 (GCF_000214255.1) Sadd et al PubMed: 25908251
 
NCBI ftp
C. floridanus CamFlo_1.0 (GCF_000147175.1) Bonasio et al PubMed: 20798317 NCBI ftp
C. obscurior Cobs_1.4 Schrader et al PubMed: 25510865
 
HGD Ant Genomes
C. biroi armyant.OGS.V1.8.6(GCF_000611835.1)
 
NCBI ftp
C. calcarata Ccal_ASM165200v1(GCF_001652005.1)
 
NCBI ftp
D. novaeangliae ASM127255v1(GCF_001272555.1)
 
NCBI ftp
E. mexicana emex_1.1
 
HGD BeeBase
H. laboriosa hlab_1.2
 
HGD BeeBase
H. saltator HarSal_1.0 (GCF_000147195.1) Bonasio et al PubMed: 20798317 NCBI ftp
L. albipes Lalb_v2 Kocher et al PubMed: 24359881 HGD BeeBase
L. humile Lhum_UMD_V04 (GCF_000217595.1) Smith et al PubMed: 21282631 NCBI ftp
M. rotundata mrot_1.0(GCF_000220905.1)
 
HGD BeeBase NCBI ftp
M. quadrifasciata mqua_1.1
 
HGD BeeBase
M. pharaonis mpha_v2.0(GCF_000980195.1)
 
NCBI ftp
N. vitripennis Nvit_2.1 (GCF_000002325.3) Werren et al PubMed: 20075255
 
NCBI ftp
P. barbatus Pbar_UMD_V03 (GCF_000187915.1) Smith et al PubMed: 21282651 NCBI ftp
S. invicta Si_gnG (GCF_000188075.1) Wurm et al PubMed: 21282665
 
NCBI ftp
W. auropunctata wasmannia.A_1.0(GCF_000956235.1)
 
NCBI ftp

Publications

Gene versus publications A. echinatior NCBI PubMed - Dec 2014 NCBI Resource Coordinators PubMed: 27899561 NCBI FTP
A. florea
A. mellifera
B. impatiens
B. terrestris
C. floridanus
C. biroi
D. melanogaster
H. saltator
L. humile
N. vitripennis
P. barbatus
S. invicta

Pathways

Pathway information inferred through orthologues from curated human pathways

D. melanogaster

Reactome - version 59, January 2017 Croft et al - PubMed 24243840 Reactome Download
Pathway information

D. melanogaster

Fly Reactome Fabregat A et al - PubMed 26656494 Flyreactome
Pathway information

A. echinator

A. mellifera

A. cephalotes

B. impatiens

B. terestris

C. floridanus

D. melanogaster

H. saltator

L. humile

N. vitripennis

S. invicta

KEGG Kanehisa M et al - PubMed 22080510 Kegg

Variant

dbSNP data A. mellifera dbSNP Build ID=127 Sherry ST et al - PubMed 11125122 NCBI dbsnp

Interactions

Interactions

D. melanogaster

BioGRID - Version 3.4.144 Chatr-Aryamontri et al - PubMed 27980099 BioGRID Download
Interactions

D. melanogaster

IntAct Release 203 Hermjakob H et al - PubMed 14681455 IntAct FTP