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fix more formatting of news
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inodb authored Mar 7, 2024
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## Feb 7, 2024
* **New feature**: The _Datasets Page_ now lists what studies have samples profiled for Structural Variants:

![image](https://github.com/cBioPortal/cbioportal/assets/1334004/0e4e73e4-d9d8-417d-912c-710163480905)

* **New Major Release**: **v6.0.0** includes a major repackaging of the backend software to improve the development experience. The backend has been upgraded to use Java Spring Boot v3.1.4. The CORE and MAF modules have been moved to new repositories. All other modules have been compacted into a single source repository. We have also updated the JVM to 21 and many libraries have been updated to address security and performance issues. See more information in the [v6.0.0 release notes](https://github.com/cBioPortal/cbioportal/releases/tag/v6.0.0).

* **Local Installations Feature**: When mutational signature data is loaded, show COSMIC reference signatures on the _Patient View_:

![image](https://github.com/cBioPortal/cbioportal/assets/1334004/10f73baa-d28c-4bb7-ad62-4751bd7f61cd)

## Dec 29, 2023
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* **New feature**: Change colors of tracks in Oncoprint:

<img src="https://github.com/cBioPortal/cbioportal/assets/1334004/301b0efb-3063-44db-bc4c-86973e7c566a" width="700" />

* **New feature**: Show alteration frequencies per group in OncoPrint. [Example: RTK-RAS alterations in Smokers vs Never Smokers Lung Cancer Cases in MSK-IMPACT Clinical Sequencing Cohort](https://bit.ly/3PwKsDJ)

<img src="https://github.com/cBioPortal/cbioportal/assets/1334004/f2a9576e-c06d-447a-8eac-f0292bd1f935" width="700" />
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<img src="https://github.com/cBioPortal/cbioportal/assets/1334004/141e2817-3300-4af2-a845-005403d75e74" width="700" />

## Sep 5, 2023
* **New feature**: Add gene-specific CNA charts to show all levels of copy number alterations (including gain and hetloss) on _Study View_:
* **New feature**: Add gene-specific CNA charts to show all levels of copy number alterations (including gain and hetloss) on _Study View_:

<img src="https://github.com/cBioPortal/cbioportal/assets/1334004/873401ad-cbcf-4b07-9b80-8487af5abb18" width="700" />

## Aug 30, 2023
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* [Bladder Cancer (Columbia University/MSK, Cell 2018)](https://www.cbioportal.org/study/summary?id=bladder_columbia_msk_2018) *130 samples*
* [Myoepithelial Carcinomas of Soft Tissue (WCM, CSH Molecular Case Studies 2022)](https://www.cbioportal.org/study/summary?id=stmyec_wcm_2022) *12 samples*


* **Gene Tables Update:** Updated tables of genes (main and alias), based on [Apr 1, 2023 HGNC release](http://ftp.ebi.ac.uk/pub/databases/genenames/hgnc/archive/monthly/tsv/). See seedDB release notes [here](https://github.com/cBioPortal/datahub/tree/master/seedDB#latest-seed-database) for details.

## Aug 1, 2023
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## May 2, 2023
* **New Feature**: The mutations tab now shows variant annotations from the [repository of Variant with Unexpected Effects (reVUE)](https://www.cancerrevue.org/).

<img src="https://user-images.githubusercontent.com/16869603/234271379-6a0876ea-8477-426e-a0e4-5e0b0b66aef9.gif" width="700" />

## Apr 25, 2023
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## Apr 4, 2023
* **New Feature**: Allow numeric data type for custom data charts.

<img src="https://user-images.githubusercontent.com/33220871/222459360-9c251f7f-1005-442f-811d-dd1ee1103161.png" width="700" />
<img src="https://user-images.githubusercontent.com/33220871/222460439-ac7007c8-059a-4ecc-816c-90752adff444.png" width="700" />

This also allows to have numerical custom data after we query based on genes (custom data 2 in the image):

<img src="https://user-images.githubusercontent.com/33220871/223729410-03a094f4-7671-453f-b8b8-f7bc10b61c7c.png" width="700" />
<img src="https://user-images.githubusercontent.com/33220871/223729522-fd9e19e2-6218-40d4-b9fb-f253c4faa858.png" width="700" />

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* [Urothelial Carcinoma (BCAN/HCRN 2022)](http://www.cbioportal.org/study/summary?id=blca_bcan_hcrn_2022) *203 samples*

## Sep 6, 2022
* **Enhancement**: Oncoprint can now save clinical tracks after login
* **Enhancement**: Oncoprint can now save clinical tracks after login:

<img src="https://user-images.githubusercontent.com/3323006/188828765-ded10947-7343-49dd-b605-50b58b67a388.png" width="700" />

## Aug 11, 2022
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* [MSK MetTropism (MSK, Cell 2021)](https://www.cbioportal.org/study/summary?id=msk_met_2021) *25,775 samples*
* [Cancer Therapy and Clonal Hematopoiesis (MSK, 2021)](https://www.cbioportal.org/study/summary?id=msk_ch_ped_2021) *657 samples*


* **Added TMB (nonsynonymous) scores** for all studies. [Example: new TMB field for study gbm_cptac_2021](https://www.cbioportal.org/study/clinicalData?id=gbm_cptac_2021)
(Details for the calculation can be found [HERE](https://github.com/cBioPortal/datahub-study-curation-tools/blob/master/tmb/calculate_tmb/Readme.md))
<img width="361" alt="Screen Shot 2022-01-04 at 11 39 20 PM" src="https://user-images.githubusercontent.com/5973438/148133673-a23506e9-7957-4581-99f0-820ca9548672.png">
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