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Protocols

PBDB specifications

Information


Unique identifier OMICS_31124
Name PBDB
Alternative name PaleoBiology DataBase
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Registration required No
Maintained Yes
Availability Yes

Documentation


Maintainer


  • person_outline PBDB Team

Additional information


https://paleobiodb.org/#/faq

PBDB citations

 (23)
call_split

Quantifying ecological impacts of mass extinctions with network analysis of fossil communities

2018
Proc Natl Acad Sci U S A
PMCID: 5960297
PMID: 29686079
DOI: 10.1073/pnas.1719976115
call_split See protocol

[…] Data on fossil occurrences, taxonomy, and diversity over time were accessed from the Paleobiology Database on various dates in spring 2017 (https://paleobiodb.org/#/). Taxonomic data were revised to correct for inconsistently ranked clades, update classification schemes, and fill in e […]

call_split

Wing bone geometry reveals active flight in Archaeopteryx

2018
Nat Commun
PMCID: 5849612
PMID: 29535376
DOI: 10.1038/s41467-018-03296-8
call_split See protocol

[…] Mesozoic topology and timing used in this study (Supplementary Data  and Supplementary Fig. ) were derived from the Paleobiology Database (PaleoDB; https://paleobiodb.org) on 29 January 2016. Divergence nodes were adopted as the older bound date for the oldest report of a taxon nested beyond the respective split. M […]

library_books

A workflow and protocol describing the field to digitization process for new project‐based fossil leaf collections

2018
Appl Plant Sci
PMCID: 5851561
PMID: 29732256
DOI: 10.1002/aps3.1025

[…] titutional practices, whether hosted by the museum's online collections records and/or other collections databases such as iDigBio (https://www.idigbio.org), PaleoPortal (http://paleoportal.org), the Paleobiology Database (https://paleobiodb.org/), and Specify (http://specifysoftware.org/). Digital measurements: (optional) Depending on project goals, specimen images can be used for digital measur […]

library_books

Dated phylogeny and dispersal history of the butterfly subfamily Nymphalinae (Lepidoptera: Nymphalidae)

2017
Sci Rep
PMCID: 5562872
PMID: 28821757
DOI: 10.1038/s41598-017-08993-w

[…] e priors used in the divergence dating here are based on the following fossil dates: Vanessa amerindica and Prodryas persephone , both from the Florissant Formation dated at 37.2–33.9 Ma according to Paleobiology Database (www.fossilworks.org), representing the divergence of Vanessa and its sister group (Node C1, Fig. ) and that between Hypanartia and its sister group (Node C2, Fig. ), respectivel […]

library_books

Muroid rodent phylogenetics: 900 species tree reveals increasing diversification rates

2017
PLoS One
PMCID: 5559066
PMID: 28813483
DOI: 10.1371/journal.pone.0183070

[…] []. Criteria for the confidence intervals for the 14 new calibrations can be found in . Minimum and maximum ages corresponded to the 95% confidence limits from the Marshall index [] as calculated by Paleobiology Database [] (PBDB; accessed June 29, 2016), except when there was a large and significant correlation between rank age and gap size, in which case we used the 90% interval using the metho […]

call_split

Genetic evidence for subspecies differentiation of the Himalayan marmot, Marmota himalayana, in the Qinghai Tibet Plateau

2017
PLoS One
PMCID: 5557547
PMID: 28809943
DOI: 10.1371/journal.pone.0183375
call_split See protocol

[…] ubstitution model. Three calibrations were used. The 1st was a fossil calibration regarding Marmota minor as the oldest marmot fossil at 10.3 mya (J. Alroy, Macquarie University, Sydney, pers. comm.; Paleobiology Database, http://www.paleodb.org, accessed 1 January 2010). Following the protocol of Steppan et al. (2011) [], a prior normal distribution with a mean of 10.3 mya and a standard deviatio […]

Citations

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PBDB funding source(s)
Supported by NSF grants from EAR, ICER, and DUE.

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