Template:ListUserTasks

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Task Name	Start Date	End Date	Description	Hours	Task Status	Request	Request Status
Great work	10 July 2011	11 July 2011	Ieaaa!		Finished	One example of Request	Discarded
Another try	12 July 2011	13 July 2011	Done a lot		Finished	One example of Request	Discarded
MET0027	26 July 2011	26 July 2011	MET0027 project QC analysis for Illumina Infinium Methylation array 27k.		Finished	MET0027	Closed
Filtering reads	1 July 2011	31 July 2011	Filtering reads by quality. This is necessary to improve the quality of the De novo transcriptome assembly		Finished	Lynx transcriptome assemby	Closed
Ensembl Genome/Proteome/Transcriptome: Scripts implementation	1 July 2011	31 July 2011	Implementation of the scripts to the Ensembl mirror of Genome/Proteome/Transcriptome		Finished	Database mirroring	Closed
Standard chipseq	27 July 2011	5 August 2011	Standard chipseq of 2 samples vs 1 control (Ig)		Finished	Sarah Kinkley's chipseq (spok1)	Closed
sitepro and custom sitepro	30 July 2011	5 August 2011	We used sitepro on peaks and we developed another strategy to implement a similar analysis but normalizing the signal. We compared against random TSS and random portion of the genome.		Finished	Lange's chipseq (phf19)	Closed
chipseq 1	1 August 2011	8 August 2011	Chipseq using Cosma IgG as control. Sample analyzed were Cbx6, RING_1B_KO_Cbx7 and EED_KO_Cbx7. We provided a special annotation extending the peaks to 5 kb.		Finished	Lluis Morey's chipseq (jul-2011)	Closed
Standard chipseq	27 July 2011	10 August 2011	2 sample vs 1 control		Finished	Lange's chipseq (phf19)	Closed
Gene annotation of peaks	10 August 2011	10 August 2011			Finished	Sarah Kinkley's chipseq (spok1)	Closed
venn diagram	5 September 2011	5 September 2011	Venn diagram for 3 list of genes		Finished	Lluis Morey's chipseq (jul-2011)	Closed
chipseq	6 September 2011	7 September 2011	- Zrf1-FLAG_24 vs Ctrl-FLAG_24 - Zrf1-FLAG_0 vs Ctrl-FLAG_0 - gene annotation x2 - gene ontology x2		Finished	Aloia's chipseq (ZRF1)	Closed
Chipseq 1	1 August 2011	8 September 2011	Custom chipseq analysis following a Cell stem cell paper (Karimi MM et al. 2011)		Finished	Cosma Chipseq	Closed
QC of input file	21 September 2011	21 September 2011	QC was performed by using fastQC tool.		Finished	Assembly of Fly genomes	Closed
fastq filtering	22 September 2011	22 September 2011	creating perl script to filter fastq file according to phred qual		Finished	Assembly of Fly genomes	Closed
The whole analysis	10 September 2011	29 September 2011			Finished	Mympn gene re-annotation	Closed
NCBI mirrors: Scripts implementation	1 September 2011	30 September 2011	Mirror of files at ftp://ftp.ncbi.nlm.nih.gov/blast/db/FASTA/. Format for Blast. Implementation of the scripts		Finished	Database mirroring	Closed
QC on filtered reads	1 October 2011	5 October 2011	QC was done with fastqc		Finished	Assembly of Fly genomes	Closed
fastq filtering 2	28 September 2011	10 October 2011	Creating scripts for fastq filtering and removing "single" mate pairs		Finished	Assembly of Fly genomes	Closed
Chip-seq basic analysis	12 October 2011	13 October 2011	4 samples + 1 control		Finished	DYP30 chipseq	Closed
Chipseq 1	1 September 2011	17 October 2011	Standard chipseq on 2 samples vs 2 KO		Finished	Lopez chipseq	Closed
De novo transcriptome assembly (tissue-based)	31 July 2011	1 November 2011	De novo transcriptome assembly using Trinity for each tissue independently		Finished	Lynx transcriptome assemby	Closed
retrieve genes on TSS	31 October 2011	3 November 2011	Researchers asked to retrieve genes with TSS overlapping the peaks and to overlap them.		Finished	DYP30 chipseq	Closed
Chipseq standard	21 November 2011	23 November 2011	Standard chipseq of 2 saples vs IgG		Finished	LOX chipseq	Closed
Peak annotation	25 November 2011	25 November 2011	standard analysis		Finished	LOX chipseq	Closed

... further results

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