modENCODE Blog » pathogen exposure http://blog.modencode.org weblog of the modENCODE Data Coordination Center Wed, 01 Feb 2012 16:46:47 +0000 http://wordpress.org/?v=2.8.1 en hourly 1 C. elegans Data Release Report for 8/3-8/9, 2009 http://blog.modencode.org/c-elegans-data-release-report-8-9 http://blog.modencode.org/c-elegans-data-release-report-8-9#comments Mon, 10 Aug 2009 21:28:23 +0000 nicole http://blog.modencode.org/?p=296 This week we’ve released 24 C. elegans data sets:
Lieb – 7 ChIP-chip data sets
Waterston – 17 RNA tiling array data sets
on the following kinds of samples:
antibodies: dpy-27, no antibody control, rna polii ctd domain unphosophorylated, sdc-2, sdc-3, trimethylated lys-9 on histone h3
stages: blastula embryo, elongating embryo, embryo, enclosing embryo, fully-elongated embryo, gastrulating embryo, l1 larva, l2 larva, l3 larva, l4 larva, l4 larva male, late cleavage stage embryo, newly molted young adult hermaphrodite
strains: 11dh, CB4689, JK1107, N2, YPT41, YPT47
tissues: hermaphrodite gonad, whole organism

Here’s the breakdown by project:

Lieb Project

Data Type Experiment type Details Links Comments
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: SDC-2, SDC-2
Embargoed until 9 months from 2009-06-17 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: RNA polII CTD domain unphosophorylated
Embargoed until 9 months from 2009-06-26 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data W(G) ChIP-chip Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: Trimethylated Lys-9 on histone H3
Embargoed until 9 months from 2009-07-06 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: 11dh
Stages: embryo
Antibodies: DPY-27, No Antibody Control
Embargoed until 9 months from 2009-07-08 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: YPT41
Stages: embryo
Antibodies: DPY-27, No Antibody Control
Embargoed until 9 months from 2009-07-08 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: YPT47
Stages: embryo
Antibodies: DPY-27, No Antibody Control
Embargoed until 9 months from 2009-07-09 		ChadoXML | Tracks | Stanza | Raw Data details…
chromatin binding site (GFF) signal data (WIG) ChIP-chip Tissues: whole organism
Strains: YPT47
Stages: embryo
Antibodies: SDC-3, No Antibody Control
Embargoed until 9 months from 2009-07-10 		ChadoXML | Tracks | Stanza | Raw Data details…

Waterston Project

Data Type Experiment type Details Links Comments
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: L2 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details… developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: L4 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details… developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: L3 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details… developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: blastula embryo, gastrulating embryo
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: L2 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: CB4689 (him-8), N2
Stages: L4 larva male
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: elongating embryo, enclosing embryo, fully-elongated embryo, late cleavage stage embryo
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism, hermaphrodite gonad
Strains: N2
Stages: newly molted young adult hermaphrodite
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: L1 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: JK1107 (gonad-less)
Stages: L4 larva
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
developmental time course
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: P. luminscens, 24h
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: E. faecalis, 48h
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: S. marcescans, 48h
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: S. marcescans, 24h
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: OP50, 48h (control)
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
transcriptional signal (WIG), transcriptional fragments (GFF) RNA tiling array Tissues: whole organism
Strains: N2
Stages: newly molted young adult hermaphrodite
Pathogen: OP50, 24h (control)
Embargoed until 9 months from 2009-03-23 		ChadoXML | Tracks | Stanza | Raw Data details…
pathogen set
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