# Reference Manager

## Overview

References management software is software for scholars and authors to use for recording and utilizing bibliographic citations (references) as well as managing project references either as a company or an individual.

Many widgets have been developed to utilize PubMed APIs.

| Category | Widget          | Type    | Description                                  |
| -------- | --------------- | ------- | -------------------------------------------- |
| PubMed   | PMID            | Column  | Store PMID and sync other fields with PubMed |
| PubMed   | PubMed Abstract | Section | Display the abstract of a PMID               |
| PubMed   | PubMed Citation | Section | Display summary of PMIDs                     |

## PubMed

[PubMed](https://en.wikipedia.org/wiki/PubMed) is a free search engine accessing primarily the MEDLINE database of references and abstracts on life sciences and biomedical topics. The United States National Library of Medicine at the National Institutes of Health maintains the database as part of the Entrez system of information retrieval.

While servicing to document the new scientific data, [Labii ELN & LIMS](https://www.labii.com) can also help you manage the published papers from PubMed.

## PMID

PMID widget has been replaced with [API widget](https://docs.labii.com/column-widgets/advanced#api).

**PMID** is a Column type widget to store PubMed id and sync other fields with PubMed.

PMID have to work with other fields, here are the fields that needed:

| Column           | Widget | Description       |
| ---------------- | ------ | ----------------- |
| PMID             | PMID   | PubMed id         |
| journal          | Text   | Journal title     |
| volume           | Number | Journal volume    |
| issue            | Number | Journal issue     |
| pages            | Text   | Journal pages     |
| authors          | Text   | The authors       |
| pubdate          | Text   | Published date    |
| pmc              | Text   | PMC id            |
| doi              | Text   | DOI               |
| full\_text\_link | Text   | Link of full text |

{% hint style="info" %}
Note: The name of PMID have to be named as **PMID**.
{% endhint %}

#### Sync column data

The value of the above fields can be updated directly. To do that, 1) update the value of PMID, 2) click the sync icon next to the PMID.

![PMID Widget](https://github.com/Labii/labii-gitbook-docs/blob/gitbook/widgets/section-widgets/broken-reference)

{% hint style="info" %}
**Note**: Error message will be generated if the PMID is not correct.
{% endhint %}

The title of paper will be updated in the name field, no additional settings needed.

For all other columns, if the column is added in the table settings, the field will be updated, otherwise, it will be ignored.

![Other fields of the PMID](https://github.com/Labii/labii-gitbook-docs/blob/gitbook/widgets/section-widgets/broken-reference)

## PubMed Abstract

The **PubMed Abstract** widget displays the abstract of a paper. If it is not already stored in the database, it will automatically be downloaded and saved for retrieval.

#### Configure:

In order to enable the widget to work, you must define the column containing the PMID. To do this, simply click the **Edit** button and select the column marked PMID.

#### Update abstract

After configuration, the abstract should download automatically. If you need to update the abstract due to a change in the PMID, click the **Update Abstract** button.

**Requirement:**

This widget reply on the **PMID** widget to query the abstract. If the field is missing, an error message will be provided.

<figure><img src="https://3607108856-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2F-LHVg57XIRcjV-Vbubtn%2Fuploads%2Fgit-blob-78bba7e3a8a11a63ba0e30df88c51f04d886bb9e%2Fwidget-section-abstract.webp?alt=media" alt=""><figcaption></figcaption></figure>

## PubMed Citation

**PubMed Citation** is a section widget to display summary for multiple PMIDs. It can be inserted into any experiments or protocols, and it does not reply on **PMID** widget.

To add a list of PMIDs, click the *edit* icon and paste a list of PMIDs separated by "," or one PMID per line.

![Edit PubMed Citation](https://github.com/Labii/labii-gitbook-docs/blob/gitbook/widgets/section-widgets/broken-reference)

Once submitted, the summary will be displayed:

![PubMed Citation](https://github.com/Labii/labii-gitbook-docs/blob/gitbook/widgets/section-widgets/broken-reference)

## To-do

There are more PubMed related widgets we are going to develop. Please contacts <help@labii.com> to provide your suggestions.

* [ ] Request full text
* [ ] PubMed Summary
* [ ] PubMed Full Text
