Catalogue of Romanian Bioinformatic Services - CaRoBioS

Under development - provisional page

This upcoming section will feature a comprehensive list of services developed by Romanian research groups in the life sciences. These services will encompass:

Data resources designed for reuse by Romanian and international research groups.

Bioinformatics software and pipelines.

Training resources, including training portals and event series.

A review process will be organized to assess the resources for inclusion on the CRB website. The evaluation criteria will include the potential to increase the number of users, interoperability, and sustainability.

Please contact CRB at contact_crb@bioinfocluster.ro for futher information.

Services List

Choice of subject

Type of Service

Name of service	Description	Type of services
NLRscape - an Atlas of plant NOD like receptors	NLRscape is an interactive atlas of plant NLRs equipped with a collection of easy, ready to use bioinformatic tools aimed for the exploration of the complex sequence landscape of this class of receptors in plants.	Tools
Robosample - Molecular Simulation Program based on high-speed robot mechanics	Reliable and user-friendly simulation package for fast biomolecular sampling that does not require extensive expertise in mechanical engineering or in the statistical mechanics of reduced coordinates.	Tools
LRRpred - a ML program for accurate detection of LRR motifs in Leucine Rich Repeat proteins and domains	An open-source tool for detecting LRR motifs within leucine rich repeats proteins. It resides on secondary structure, relative solvent accessibility and disorder predictions that are performed using RaptorX-Property and sequence variability profiles generated using HH-suite on Uniprot20 sequence database.	Tools
NLRexpress - a ML program for swift detection of Nod Like Receptors: NLR/CNL/TNL	NLRexpress is a collection of plant NLR related motif ML predictors. It includes the following modules: CCexpress, TIRexpress, NBSexpress, LRRexpress. Not limited to plant NLRs, the LRR module was developed to be also used for screening other LRR-containing protein classes regardless of their taxonomy.	Tools
molecularmodels.ro	Colection of 3D printable models of various protein and complexes with relevance for teaching biomolecular structure. Instructions on how to convert a pdb file to a printable stl file, as well as how to print molecular models are provided also. Details available in: Mihasan, M. A Beginner’s Guideline for Low-cost 3D Printing of Macromolecules Usable for Teaching and Demonstration. Biochem. Mol. Biol. Educ. 2021, bmb.21493.	Data and instructions
Registry of bioinformatics resources developed by Romanian research groups		Documents
Moodle	The eLearning course provided by the CONNECT Strategic Partnership is based on the adaptation of the eHealth Interdisciplinary Curriculum developed under IO1 into Moodle modules. The course covers various aspects of eHealth, aiming to equip students with a comprehensive understanding of the field and its applications. The course modules include Telemedicine, eLearning in Health, mHealth, Health Analytics & Big Data, Innovation in Health, Social Media in eHealth, Electronic Health Records, and Human Resources in Health & e-Professionalism.	Data
Plastic Raman Database – A Raman spectral database of aged plastics	Plastic Raman database comprises Raman spectra of naturally aged plastics, both macro- and microplastics, including standard plastics. It comprises plastics aged for years both in terrestrial or aquatic conditions and characteristic spectral information, images of samples and relevant description of various plastic waste samples collected from natural environment. It covers 6 recyclable types of plastic: polyethylene terephthalate (PET), high-density polyethylene (HDPE), polyvinyl chloride (PVC), low-density polyethylene (LDPE), polypropylene (PP), and polystyrene (PS).	Data
GitHub - TracyRage/muddy_mine	A mining pipeline - muddy_mine, which could engage NLP technology in the niche environmental topics such as mud volcanoes. This pipeline is able to mine taxonomy (bacterial, archaeal), methods or any other tokens of interest from the Open Access articles. Articles available in the S2ORC database, CC BY-NC 2.0, unmodified (Lo et al. 2020). muddy_mine output represents a csv table with all the relevant data regarding mud volcanoes.	Data
muddy_db - mud volcano database	Interdiciplinary muddy volcano database	Data

* Related links take you to the related pages in three ELIXIR registries:

bio.tools : a registry of software metadata and descriptions.
FAIRsharing : a registry of databases, standards and policies.
Tess : a registry of events, training courses and training materials.