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Regulatory networks of gene silencing
Chromatin boundaries and identity
Nuclear organization and gene repression
Epigenetic plasticity and genome stability
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Protocols & Methods
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Selection of protocols & methods we frequently use
ChIP, RT-qPCR and RNA-seq
ChIP
RT-qPCR
cDNA library for RNAseq
RNAseq analysis with Galaxy
Live-cell imaging
Pombe microscopy (agarose pads)
Pombe microscopy (sample preparation, imaging, analysis)
Ubiquitin pulldown and protein extracts
Ni-Ub pulldown under denat. conditions
Protein extraction w/ NaOH/TCA
Preparation of chromatin-enriched fraction
Large-scale protein purification of chromatin-associated proteins
Large-scale IP for MS
Small-scale IP
co-IP
Large-scale protein purification of chromatin-associated proteins
Cloning & PCR
Sequence- & ligation-independent cloning (SLIC)
Primer design for KOs, tagging and qPCR
Perl script for KO primers (coming soon)
Yeast methods
Yeast transformation
Pombe transformation
Random spore analysis
Colony PCR w zymolyase
Yeast DNA prep (‘smash & grab’)
large-scale genomic DNA preparation
Yeast plating assays with pin-frogger (serial dilutions)
SGA with Singer RoToR HDA
RoToR SGA protocol for S. pombe
Plates & pads cleaning