Genomics Africa photographic exhibition Lifeblood, Durban, 24 Octber 2019, Samora Chapman

SPOTLIGHT


Science and PLoS NTD


Promotion Sanger


KRISP News

KRISP NEWS

International Virus Bioinformatics Meeting 2020

We have been invited to give a keynote speech in the International Virus Bioinformatics Meeting (IVBM) 2020, Bern, Switzerland. IVBM 2020 is jointly organized by the European Virus Bioinformatics Center, the University of Bern and the Swiss Institute of Bioinformatics.


Request for Applications (RFA) Pharmacogenomics in Precision Medicine by SAMRC in collaboration with KRISP & DIPLOMICS labs

The SAMRC, through its Strategic Health Innovation Partnership (SHIP) programme, is seeking to fund five highly collaborative projects in the areas of pharmacogenomics with reference to failure of treatments with drugs (or drug classes) for Non-Communicable diseases, specifically Hypertension, Cardiovascular, Diabetes and Cancer in (South) Africa. Total Budget ZAR 12-14 million, which genomics data generation should be done in a DIPLOMICS laboratory, such as KRISP, in South Africa.


LIFEBLOOD - Photography Exhibition by Samora Chapman, Community Art Gallery, Durban, 24 Oct 2019

KRISP has partnered with a great photographer (Samora Chapman) to highlight the human and biodiversity life in South Africa. The photographic exhibition was curated by Tulio de Oliveira and highlight many of the genomics aspects that make us so similar and interesting at genotypic and phenotypic level.


KRISP Talks: Dr. Helen Malherbe, Estimating the Burden of Congenital Disorders in South Africa: Recommendations for a Relevant Public Health Respo

UKZN African Health Flagship Talks by Dr. Helen Malherbe (Post-Doctoral Fellow at KRISP, UKZN) - Estimating the Burden of Congenital Disorders in South Africa: Recommendations for a Relevant Public Health Response. Wednesday, 23 Oct 2019 (11:00am - 12:00), K-RITH building, Nelson R Mandela School of Medicine, UKZN, Durban, South Africa. All welcome!


KRISP is running a Phylogenetics workshop at the 28th International Workshop on HIV Drug Resistance and Treatment Strategies

KRISP has been invited to present a Phylogenetics workshop as part of the international HIV drug resistance meeting. The workshop will happen in the first day of the conference and will focus on the use of HIV-1 Pol data to identify transmission networks.


KRISP Newsletter Oct 2019: BioDurban & KRISP walkabout to Sydney to participate in the top translational program in the world: the SPARK Global progra

This month, we focus on the launch of we focus on KRISP launching a Biotech Incubator in Durban – BioDurban. KRISP team walkabout to Sydney to participate in the top translational program in the world: the SPARK Global program. In our newsletter, we also highlight some of our fun activities, including three travel blogs, a Photo Exhibition with a great photographer and the publication of a Open Access Book on genomics and bioinformatics for viral outbreaks.


Open Access Book Chapter - Mosquito-Borne Viral Diseases: Control and Prevention in the Genomics Era

We have published together with colleagues from FioCruz Foundation in Brazil a book on the use of genomics to control and prevent viral diseases. This book focus on some of the genomics methods and bioinformatics tools that we have developed for arboviruses (i.e. Zika, Chikungunya, Dengue and Yellow Fever).


Three Blogs from KRISP trip to SPARK Global Meeting in Australia, is this the best and most ethical translational program in the world?

KRISP fantastic team (Dr. Thulile Nlapo, Dr. Benjamin Chimukangara, Dr. Richard Lessells and Gugulethu Mhkize) travel to attend a very inspiring translational science program in Australia. Read these cool blogs and see their personal view on one of the best and most ethical translational science program in the world.


KRISP participation at BioAfrica 2019 in Review

Once again, this three-day conference hosted at the Durban ICC did not disappoint, attracting delegates and exhibitors from over 30 African countries and beyond. Most encouraging was the collective emphasis on innovation and the need to focus Africa’s efforts in harnessing the untapped resources and scientific discoveries that the continent still has to offer.


KRISP Newsletter Sept 2019: KRISP Sale Brochure 2019-2020 and the launch of KRISP Business Development Unit

This month, we focus on the launch of KRISP Sale Brochure 2019-2020 and the launch of KRISP Business Development Unit. These two initiatives aim to provide access to high-quality, output-driven, customer-centric and cost-effective genomics services in Africa.


KRISP PAPERS

Yellow fever virus re-emergence and spread in Southeast Brazil, 2016-2019.
Giovanetti M, Lima de Mendonça MC, Fonseca V, Mares-Guia MA, Fabri A, Xavier J, Goes de Jesus J, Gräf T, Damasceno Dos Santos Rodrigues C, Cardoso Dos Santos C, Alves Sampaio S, Lowen Levy Chalhoub F, Bruycker Nogueira F, Theze J, Pecego Martins Romano A, Garkauskas Ramos D, Luiz de Abreu A, Kleber Oliveira W, do Carmo Said RF, Campelo de Alburque CF, de Oliveira T, Fernandes CA, Ferreira Aguiar S, Chieppe A, Carvalho Sequeira P, Rodrigues Faria N, Venâncio Cunha R, Alcantara LCJ, Bispo de Filippis AM., Journal of Virology (2019), JVI.01623-19. doi: 10.1128/JVI.01623-19:.


Recent levels and trends in HIV incidence rates among adolescent girls and young women in ten high-prevalence African countries: a systematic review and meta-analysis.
Birdthistle I, Tanton C, Tomita A, de Graaf K, Schaffnit SB, Tanser F, Slaymaker E, Lancet Global Health (2019), 7: e1521–40:.


Mosquito-Borne Viral Diseases: Control and Prevention in the Genomics Era.
Fonseca V, Xavier J, James SE, de Oliveira T, de Filippis AMB, Alcantara LCJ, Giovanetti M, Current Topics in the Epidemiology of Vector-Borne (2019), DOI: 10.5772/intechopen.88769:.


Investigating Triorthogonal Chemoselectivity. Effect of Azide Substitution on the Triazine Core..
Sharma A, Sheyi R, Kumar A, El-Faham A, de la Torre BG, Albericio F., Org Lett. (2019), doi: 10.1021/acs.orglett.9b02878:.


The Role of Adverse Childhood Experiences on Perinatal Substance Use Behaviour in KwaZulu-Natal Province, South Africa..
Bhengu BS, Tomita A, Mashaphu S, Paruk S, AIDS Behav. (2019), doi: 10.1007/s10461-019-02661-y:.


KRISP VIDEOS

Human Genome, S5Ion Sequencing & Women in Science in Africa
By: Maryam Fish

KRISP TEAM

KRISP BLOGS


KRISP TOOLS

2019-02-12
Version: 3


REGA HIV Subtyping Tool V3 - Belgium Mirror

Phylogenetic tool to identify the HIV-1 subtypes and recombinants. Query sequences are analysed for recombination using bootscanning methods. The version 3 contains new CRFs (CRF01_AE to CRF47_BF).


2018-12-05
Version:


Booster: a new bootstrap method for construction of large trees

A new version of the phylogenetic bootstrap in which the presence of inferred branches in replications is measured using a gradual 'transfer' distance rather than the binary presence or absence index used in Felsenstein's original version. The resulting supports are higher and do not induce falsely supported branches.


2016-08-21
Version: 3


REGA HIV Subtyping Tool V3 - South African mirror

This tool is designed to use phylogenetic methods in order to identify the HIV-1 subtype of a specific sequence. The sequence is analysed for recombination using bootscanning methods. The version 3 contains new CRFs (CRF01_AE to CRF47_BF).


2016-08-20
Version: 1


ArboTyping: Zika Typing Tool

This is the first version of the Zika typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.


2016-08-20
Version: 1


Genome Detective

This is the first version of our Arbovirus typing tool for Chikungunya, Dengue, Yellow Fever and Zika


2016-08-20
Version: 1


ArboTyping: Chikungunya Typing Tool

This is the first version of the Chikungunya typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.