|
|
## **2019** Timetable
|
|
|
**Date** |**Location** |**Speaker #1** |**Title** |**Speaker #2** |**Title**
|
|
|
:------------|:-------------:|:---------|:---------|:---------|:----------
|
|
|
`02 Jan` |T-00-006 | `no` | `meeting` | |
|
|
|
`09 Jan` |T-00-006 | Sander B. | BWA versus minimap2 | Yahya | 2018 Evaluation
|
|
|
`16 Jan` |T-00-006 | Bpexa Students | Bpexa Students | Ioannis Moustakas | attempt to remove batch effects in single cell analysis
|
|
|
`23 Jan` |T-00-006 | Liana Grieken (HUID) | 10x longranger pipeline |Igno Maggio (CCB/KJC) | CRISPR-CAS9 introduction and study on on-target efficiency
|
|
|
`30 Jan` |T-00-006 | Sander Tuit | Identification of tumor-associated genes for targeted T-cell therapy | Szymon M. Kiełbasa | Single Cell Sample Matcher |
|
|
|
`06 Feb` |P-00-112 | Ivo Fokkema | Population-based MAF and variant prioritization | David | Ruben Vorderman, simple testing of workflows
|
|
|
`13 Feb` |P-00-112 | Davy Cats | KeyGenes (classifying sample tissues from RNAseq counts) | Dani |
|
|
|
`20 Feb` |P-00-112 | Mario Cangiano | Network analysis of prostate cancer xenografts | Peter Taschner | Monitoring of training effects using gene expression profiles
|
|
|
`27 Feb` |P-00-112 | Dina Ruano | Neoantigen detection in low mutation rate tumors | Jihed Chouaref | Introduction|
|
|
|
`06 Mar` |P-00-112 | Brian Piepenbroek | Metagenomic analysis of cutaneous T- and B-cell lymphomas using Centrifuge | Leon/Cedrick | SV calling, merging, with test case from Project MinE
|
|
|
`13 Mar` |P-00-112 | Dani Borras | New ATACseq results for Acla homologs | Johan den Dunnen | *title*
|
|
|
`20 Mar` |P-00-112 | Ioannis Moustakas | Batch effect correction in single cell RNAseq experiments | Ellen Carbo | The rediscovery of MERS and SARS
|
|
|
`27 Mar` |P-00-112 | | *title* | Floyd Wittink (HL) | Nanopore sequencing in the LCAB
|
|
|
`03 Apr` |P-00-112 | [**BioSB 2019 Conference**](https://www.aanmelder.nl/biosb2019) | - - - - - | - - - - - | - - - - -
|
|
|
`10 Apr` |P-00-112 | Roberta Menafra | An update on the RNGS19 VIB conference | David |
|
|
|
`17 Apr` |P-00-112 | Ioannis Moustakas | Dimensionality reduction as a means of noise reduction in sc RNA-seq datasets | Leon Mei | Update on (1) running CRISPResso for CRISPR-CAS9 analysis and (2) HLA typing tools
|
|
|
`24 Apr` |P-00-112 | Bastian Hornung | Contamination everywhere | Ellen Carbo | The rediscovery of MERS and SARS
|
|
|
`01 May` |P-00-112 | Stef Janson | *title* | |
|
|
|
`08 May` |P-00-112 | [**SMRTLeiden 2019 Conference**](https://www.lgtc.nl/SMRTLeiden/) | - - - - - | - - - - - | - - - - -
|
|
|
`15 May` |P-00-112 | David San Leon Granado | FHSD and methylation | |
|
|
|
`22 May` |P-00-112 | Julieta Sepulveda Yanez | Germline variants in Diffuse large B-cell lymphoma (DLBCL) | Arjen Speksnijder (Naturalis) | Moleculair identification of plant pollen in air samples
|
|
|
`29 May` |P-00-112 | Amrish Mahes | *title* | Jorrit van Uhm (Derm internship) | Using WES data to discover CNVs, SNVs and indels in cutaneous anaplastic large cell lymphoma
|
|
|
`05 Jun` |P-00-112 | Ruben Vorderman | Singularity | |
|
|
|
`12 Jun` |P-00-112 | Bas Verbruggen | *title* | | |
|
|
|
`19 Jun` |P-00-112 | Jihed Chouaref | Morc3 single cell ATAC-seq | Sander Bollen | Index hopping on the Illumina NovaSeq |
|
|
|
`26 Jun` |P-00-112 | Ruben | smallRNA pipeline in biowdl | Jan Oosting | Pathway directed transcription analysis |
|
|
|
`03 Jul` |P-00-112 | Leon | CRISPR efficiency analysis using CRISPResso & Discussion about /exports/genomes/species/H.sapiens/ on SHARK | David San Leon | FSHD2 classifications |
|
|
|
`10 Jul` |P-00-112 | Ioannis | methylation analysis | Sander Bollen | Fast fastq archiving with fastqube |
|
|
|
`17 Jul` |P-00-112 | | | |
|
|
|
`24 Jul` |P-00-112 | | | |
|
|
|
`31 Jul` |P-00-112 | | | |
|
|
|
`07 Aug` |P-00-112 | | | |
|
|
|
`14 Aug` |P-00-112 | | | |
|
|
|
`21 Aug` |P-00-112 | | | |
|
|
|
`28 Aug` |P-00-112 | | | |
|
|
|
`04 Sep` |P-00-112 | Jasper Boom | Long read pipeline Talon | Leon Mei | SASC update and future plans
|
|
|
`11 Sep` |P-00-112 | Tom Metz (HG) | scRNA experiment and data analysis update | Ruben Vorderman | use of xWiki
|
|
|
`18 Sep` |P-00-112 | | | |
|
|
|
`25 Sep` |P-00-112 | Mark (& Jonathan) | Variant Frequency Database | Davy Cats | release of bioWDL
|
|
|
`02 Oct` |P-00-112 | Dina Ruano | Inclusion of ALT contigs in bwa alignment | Tom Kuipers | R-Shiny based differential gene expression analysis platform
|
|
|
`09 Oct` |P-00-112 | Ioannis Moustakas | scRNA-seq quantification with [Kallisto Bustools](https://github.com/BUStools/bustools) | Pietro Spitali | Multi-omics: from biomarkers to drug repurposing
|
|
|
`16 Oct` |P-00-112 | Myrthe van Baardwijk (Dermatology intern) and Cedrick Agaser| Prioritizing clinically relevant genomic variants for cutaneous melanoma out of a pile of variant calls (approaches and results) | Rick de Leeuw (FLDO) | Optimizing STR analysis using Massively Parallel Sequencing
|
|
|
`23 Oct` |P-01-020 | Dani Borras | More drugs, more fun | Roberta Menafra | SCT transformation and data integration in scRNAseq |
|
|
|
`~~30 Oct~~ CANCELLED` |P-01-020 | Julian van Toledo (Dermatology intern) | | Vered Raz | PI talk
|
|
|
`06 Nov` |T-00-008 | Julieta Sepulveda Yanez | Germline Variants in DLBCL | Mike Puijk (Generade intern) | Accurately Characterizing the Microbiome in low-biomass environments
|
|
|
`13 Nov` |P-01-020 | Chiel Wevers | Implementation of an improved (diagnostic) workflow for variant analysis and interpretation in a commercial setting | Julian van Toledo (Dermatology intern) | The genomic and genetic identification of PCALCL
|
|
|
`20 Nov` |P-01-020 | Mario Cangiano | A transcription factors profiling method to predict tumour progression in localised prostate cancers | Sam Nooij | Whole-Genome Sequencing of Multi-Drug Resistant Organisms in a nursing home
|
|
|
`27 Nov` |P-01-020 | Ruben Vorderman | To understand X-inactivation with variant analysis (background and plan) | |
|
|
|
`04 Dec` |P-01-020 |Peter Taschner | PI talk "Check the test" | Stef Janson | Basics and implementation of unique molecular identifiers (UMI).
|
|
|
`11 Dec` |P-01-020 |Siemen Brussee (Pathology intern) |Automate pathogenicity (re)classification of variants found in oncological diagnostics | Amrish Mahes | Identification of insert sequences in CHO samples
|
|
|
`18 Dec` |P-01-020 | Jan Oosting | | Ingrid Tomljanovic | |
|
|
\ No newline at end of file |