Evidence map›Paper›PMID 28807036›Full record

ArticleBMC research notes2017

T-Time: A data repository of T cell and calcium release-activated calcium channel activation imagery.

Cody Arbuckle, Milton Greenberg, Adrienne Bergh, Rene German, Nick Sirago, Erik Linstead

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC research notes, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
0.1field-weighted citation impact, top 56% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed, 1 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 1 institution in 2 countries.

Cody ArbuckleSchmid College of Science and Technology, Chapman University, One University Drive, Orange, CA, 92866, USA.
Milton GreenbergSchmid College of Science and Technology, Chapman University, One University Drive, Orange, CA, 92866, USA.
Adrienne BerghSchmid College of Science and Technology, Chapman University, One University Drive, Orange, CA, 92866, USA.
Rene GermanSchmid College of Science and Technology, Chapman University, One University Drive, Orange, CA, 92866, USA.
Nick SiragoAnivive Life Sciences Incorporated, Long Beach, CA, 90808, USA.
Erik LinsteadSchmid College of Science and Technology, Chapman University, One University Drive, Orange, CA, 92866, USA. linstead@chapman.edu.ORCID http://orcid.org/0000-0003-0174-7002
Chapman University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundA fundamental understanding of live-cell dynamics is necessary in order to advance scientific techniques and personalized medicine. For this understanding to be possible, image processing techniques, probes, tracking algorithms and many other methodologies must be improved. Currently there are no large open-source datasets containing live-cell imaging to act as a standard for the community. As a result, researchers cannot evaluate their methodologies on an independent benchmark or leverage such a dataset to formulate scientific questions.

findingsHere we present T-Time, the largest free and publicly available data set of T cell phase contrast imagery designed with the intention of furthering live-cell dynamics research. T-Time consists of over 40 GB of imagery data, and includes annotations derived from these images using a custom T cell identification and tracking algorithm. The data set contains 71 time-lapse sequences containing T cell movement and calcium release activated calcium channel activation, along with 50 time-lapse sequences of T cell activation and T reg interactions. The database includes a user-friendly web interface, summary information on the time-lapse images, and a mechanism for users to download tailored image datasets for their own research. T-Time is freely available on the web at http://ttime.mlatlab.org .

conclusionsT-Time is a novel data set of T cell images and associated metadata. It allows users to study T cell interaction and activation.

Indexed as

Databases, FactualCalciumCalcium Release Activated Calcium ChannelsCell CommunicationCell MovementCells, CulturedCell TrackingHumansInternetLymphocyte ActivationMicroscopy, FluorescenceTime-Lapse ImagingT-LymphocytesT-Lymphocytes, RegulatoryCalciumCalcium Release Activated Calcium ChannelsLive-cell dynamicsPhase contrast imageryT cell

Identifiers

PMID28807036
PMCPMC5557281
OpenAlexW2750379941

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.