modENCODE Blog » chromatin binding sites

D. melanogaster Data Release Report for 8/24-8/30, 2009

nicole — Mon, 31 Aug 2009 18:43:04 +0000

This week we’ve released 1 D. melanogaster data sets:
White – 1 ChIP-chip data sets
on the following kinds of samples:
antibodys: h3k9ac, no antibody control
stage: pupal stage
strain: y; cn bw sp
tissue: whole organism

Here’s the breakdown by project:

White Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding sites (GFF) signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: pupal stage Antibodies: H3K9Ac, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

D. melanogaster Data Release Report for 7/27-8/2, 2009

nicole — Mon, 03 Aug 2009 20:58:52 +0000

This week we’ve released 21 D. melanogaster data sets:
Lai – 1 RNA-seq (small RNAs) data sets
White – 20 ChIP-chip data sets
on the following kinds of samples:
antibodies: h3k27me3, h3k4me1, h3k4me3, h3k9ac, h3k9me3, no antibody control
stages: adult stage, embryonic stage 10, embryonic stage 11, embryonic stage 12, embryonic stage 15, embryonic stage 16, embryonic stage 17, embryonic stage 9, first instar larval stage, second instar larval stage
strains: Canton-S, y; cn bw sp
tissues: adult head, whole organism

Here’s the breakdown by project:

Lai Project

Data Type	Experiment type	Details	Links	Comments
alignments (SAM)	RNA-seq (small RNAs)	Tissues: whole organism, adult head Strains: Canton-S Stages: adult stage Embargoed until 9 months from 2008-09-19	ChadoXML \| Tracks \| Stanza \| Raw Data	details… small RNAs captured, single read alignments, repeat regions not masked (some sequences align to more than 1 genomic location)

White Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: adult stage Antibodies: H3K27me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: first instar larval stage Antibodies: H3K27me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: first instar larval stage Antibodies: H3K9me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: second instar larval stage Antibodies: H3K9me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K27me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K9me3, No Antibody Control Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: second instar larval stage Antibodies: H3K9Ac, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: second instar larval stage Antibodies: H3K4me3, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: first instar larval stage Antibodies: H3K9Ac, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: first instar larval stage Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 10, embryonic stage 11, embryonic stage 12, embryonic stage 9 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 17 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 15, embryonic stage 16 Antibodies: H3K9Ac, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 15, embryonic stage 16 Antibodies: H3K4me3, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 15, embryonic stage 16 Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: adult stage Antibodies: H3K4me3, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: adult stage Antibodies: H3K4me1, No Antibody Control Embargoed until 9 months from 2009-03-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

D. melanogaster Data Release Report for 7/20-7/26, 2009

nicole — Mon, 27 Jul 2009 20:50:23 +0000

This week we’ve released 5 D. melanogaster data sets:
MacAlpine – 4 RNA tiling array data sets
White – 1 ChIP-chip data sets
on the following kinds of samples:
antibodys: h3k27me3, no antibody control
cell line: S2-DRSC
stages: cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, third instar larval stage
strains: Oregon-R-modENCODE, Oregon-R_Orr-Weaver, w[1118], y; cn bw sp
tissues: embryo-derived cell-line, larval salivary gland, oocyte associated follicle cell, whole organism

Here’s the breakdown by project:

MacAlpine Project

Data Type	Experiment type	Details	Links	Comments
signal data (WIG)	CGH	Tissues: embryo-derived cell-line, whole organism Strains: w[1118] Lines: S2-DRSC Stages: cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, and 9 more… Embargoed until 9 months from 2009-07-20	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
copy number variation (GFF), signal data (WIG)	CGH	Tissues: oocyte associated follicle cell, whole organism Strains: Oregon-R_Orr-Weaver Stages: cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, and 8 more… Embargoed until 9 months from 2009-07-20	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
copy number variation (GFF), signal data (WIG)	CGH	Tissues: larval salivary gland, whole organism Strains: Oregon-R_Orr-Weaver Stages: cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, and 8 more… Embargoed until 9 months from 2009-07-20	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
copy number variation (GFF), signal data (WIG)	CGH	Tissues: oocyte associated follicle cell Strains: Oregon-R-modENCODE Stages: cleavage stage, early extended germ band stage, embryonic stage, embryonic stage 1, embryonic stage 2, embryonic stage 3, and 8 more… Embargoed until 9 months from 2009-07-20	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

White Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding peaks (GFF), chromatin binding signal (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: third instar larval stage Antibodies: H3K27me3, No Antibody Control Embargoed until 9 months from 2009-03-06	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

C. elegans Data Release Report for 6/1-6/7, 2009

nicole — Mon, 08 Jun 2009 18:58:03 +0000

This week we’ve released 7 C. elegans data sets:
Snyder – 7 ChIP-seq data sets
on the following kinds of samples:

antibodys: daf-16, pha-4, RNA pol II
stages: embryo, l1 larva, l4 larva, l4-adult molt, newly molted young adult hermaphrodite
strains: OP37, TJ356
tissue: whole organism

Here’s the breakdown by project:

Snyder Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: L1 larva Antibodies: pha-4 (via anti_GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: L1 larva Antibodies: pha-4 (via anti-GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: embryo Antibodies: RNA pol II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: L1 larva Antibodies: RNA pol II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: L1 larva Antibodies: RNA pol II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: TJ356 Stages: L4 larva, L4-adult molt, newly molted young adult hermaphrodite Antibodies: daf-16 (via anti-GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site peaks (GFF), chromatin binding signal (WIG)	ChIP-seq	Tissues: whole organism Strains: TJ356 Stages: L4 larva, L4-adult molt, newly molted young adult hermaphrodite Antibodies: RNA pol II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

D. melanogaster Data Release Report for 5/25-5/31, 2009

nicole — Mon, 01 Jun 2009 18:28:50 +0000

This week we’ve released 11 D. melanogaster data sets:
Celniker – 1 Computational annotation and 6 RNA sample creation and 3 RNA tiling array data sets
Karpen – 1 ChIP-chip data sets
on the following kinds of samples:

antibody: h3k27ac
cell lines: 1182-4H, CME L1, CME W1 Cl.8+, CME W2, G2, GM2, Kc167, ML-DmBG1-c1, ML-DmBG2-c2, ML-DmBG3-c2, ML-DmD11, ML-DmD16-c3, ML-DmD17-c3, ML-DmD20-c2, ML-DmD20-c5, ML-DmD21, ML-DmD23-c4, ML-DmD32, ML-DmD4-c1, ML-DmD8, ML-DmD9, S1, S2-DRSC, S2R+, S3, Sg4, mbn2
stages: adult stage, cleavage stage, dorsal closure stage, early extended germ band stage, egg stage, embryonic stage, embryonic stage 1, larval stage, late embryonic stage, third instar larval stage
strains: Oregon-R-modENCODE, y; cn bw sp
tissues: antenna disc-derived cell-line, blastoderm cell, cns-derived cell-line, dorsal mesothoracic disc, early embryonic cell, embryo-derived cell-line, embryonic/larval hemocyte, eye-antenna disc-derived cell-line, gastrula cell, imaginal disc-derived cell-line, ventral prothoracic disc, whole organism

Here’s the breakdown by project:

Celniker Project

Data Type	Experiment type	Details	Links	Comments
gene models (GFF)	Computational annotation	Embargoed until 9 months from 2009-04-21	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
transcriptional fragments (GFF), transcriptional signals (WIG)	RNA tiling array	Tissues: whole organism Strains: y; cn bw sp Stages: larval stage, third instar larval stage Embargoed until 9 months from 2009-04-29	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
transcriptional fragments (GFF), transcriptional signals (WIG)	RNA tiling array	Tissues: whole organism Strains: y; cn bw sp Stages: larval stage Embargoed until 9 months from 2009-04-29	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
transcriptional fragments (GFF), transcriptional signals (WIG)	RNA tiling array	Tissues: whole organism Strains: y; cn bw sp Stages: larval stage Embargoed until 9 months from 2009-04-29	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
metadata only (chadoxml)	RNA sample creation	Tissues: embryo-derived cell-line, dorsal mesothoracic disc, CNS-derived cell-line Lines: Kc167, S2-DRSC, CME W1 Cl.8+, ML-DmBG3-c2 Stages: late embryonic stage, third instar larval stage Embargoed until 9 months from 2009-04-23	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions
metadata only (chadoxml)	RNA sample creation	Tissues: embryo-derived cell-line, embryonic/larval hemocyte, dorsal mesothoracic disc, ventral prothoracic disc, CNS-derived cell-line, imaginal disc-derived cell-line, eye-antenna disc-derived cell-line, antenna disc-derived cell-line Lines: Kc167, GM2, S2-DRSC, S2R+, S1, 1182-4H, mbn2, ML-DmD21, CME W1 Cl.8+, ML-DmD9, CME L1, G2, S3, ML-DmD23-c4, ML-DmBG1-c1, ML-DmBG3-c2, ML-DmD16-c3, ML-DmD4-c1, ML-DmD32, ML-DmD11, ML-DmD20-c2, ML-DmD20-c5, ML-DmD17-c3, Sg4, ML-DmD8, CME W2, ML-DmBG2-c2 Stages: late embryonic stage, third instar larval stage Embargoed until 9 months from 2009-05-05	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions
metadata only (chadoxml)	RNA sample creation	Tissues: embryo-derived cell-line, CNS-derived cell-line, dorsal mesothoracic disc Lines: Kc167, S2-DRSC, ML-DmBG3-c2, CME W1 Cl.8+ Stages: late embryonic stage, third instar larval stage Embargoed until 9 months from 2009-05-05	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions
metadata only (chadoxml)	RNA sample creation	Tissues: embryo-derived cell-line, CNS-derived cell-line, dorsal mesothoracic disc Lines: G2, Kc167, S2-DRSC, ML-DmBG3-c2, CME W1 Cl.8+ Stages: late embryonic stage, third instar larval stage Embargoed until 9 months from 2009-05-05	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions
metadata only (chadoxml)	RNA sample creation	Tissues: whole organism Strains: Oregon-R-modENCODE, y; cn bw sp Stages: adult stage, cleavage stage, dorsal closure stage, early extended germ band stage, egg stage, embryonic stage, and 39 more… Embargoed until 9 months from 2009-05-06	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions
metadata only (chadoxml)	RNA sample creation	Tissues: whole organism, early embryonic cell, blastoderm cell, gastrula cell Strains: y; cn bw sp Stages: cleavage stage, dorsal closure stage, early extended germ band stage, egg stage, embryonic stage, embryonic stage 1, and 22 more… Embargoed until 9 months from 2009-05-06	ChadoXML \| Tracks \| Stanza \| Raw Data	details… these metadata to be referenced in future submissions

Karpen Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding signal (WIG), chromatin binding sites (GFF)	ChIP-chip	Tissues: embryo-derived cell-line Lines: S2-DRSC Stages: late embryonic stage Antibodies: H3K27ac Embargoed until 9 months from 2009-02-12	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding signal (WIG), chromatin binding sites (GFF)

ChIP-chip

Tissues: embryo-derived cell-line
Lines: S2-DRSC
Stages: late embryonic stage
Antibodies: H3K27ac

Embargoed until 9 months from 2009-02-12

ChadoXML | Tracks | Stanza | Raw Data

details…

C. elegans Data Release Report for 5/25-5/31, 2009

nicole — Mon, 01 Jun 2009 18:10:35 +0000

This week we’ve released 8 C. elegans data sets:
Lieb – 3 ChIP-chip data sets
Snyder – 5 ChIP-seq data sets
on the following kinds of samples:

antibodies: ama-1, dpy-27, mab-5, pha-4, sdc-3, RNA Polymerase II
stages: embryo, l3 larva, l4 larva, l4-adult molt, newly molted young adult hermaphrodite
strains: N2, OP26, OP34, OP37
tissue: whole organism

Here’s the breakdown by project:

Lieb Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding signal (WIG), chromatin binding peaks (GFF)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: SDC-3 Embargoed until 9 months from 2009-05-05	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: SDC-3 Embargoed until 9 months from 2009-05-06	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: DPY-27 Embargoed until 9 months from 2009-05-07	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding signal (WIG), chromatin binding peaks (GFF)

ChIP-chip

Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: SDC-3

Embargoed until 9 months from 2009-05-05

ChadoXML | Tracks | Stanza | Raw Data

details…

chromatin binding site signal (WIG), chromatin binding peaks (GFF)

ChIP-chip

Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: SDC-3

Embargoed until 9 months from 2009-05-06

ChadoXML | Tracks | Stanza | Raw Data

details…

chromatin binding site signal (WIG), chromatin binding peaks (GFF)

ChIP-chip

Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: DPY-27

Embargoed until 9 months from 2009-05-07

ChadoXML | Tracks | Stanza | Raw Data

details…

Snyder Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-seq	Tissues: whole organism Strains: OP37 Stages: embryo Antibodies: pha-4 (via anti-GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details… unc-119(ed3) III; wgIs37 [unc-119(+) pha-4::TY1::EGFP::3xFLAG]
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-seq	Tissues: whole organism Strains: OP34 Stages: L4 larva, L4-adult molt, newly molted young adult hermaphrodite Antibodies: ama-1 (via anti-GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details… unc-119(ed3) III; wgIs34 [unc-119(+) ama-1::TY1::EGFP::3xFLAG]
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-seq	Tissues: whole organism Strains: OP34 Stages: L4 larva, L4-adult molt, newly molted young adult hermaphrodite Antibodies: RNA Polymerase II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details… unc-119(ed3) III; wgIs34 [unc-119(+) ama-1::TY1::EGFP::3xFLAG]
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-seq	Tissues: whole organism Strains: OP26 Stages: L3 larva Antibodies: mab-5 (via anti-GFP) Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details… unc-119(ed3) III; wgIs26 [unc-119(+) mab-5::TY1::EGFP::3xFLAG]
chromatin binding site signal (WIG), chromatin binding peaks (GFF)	ChIP-seq	Tissues: whole organism Strains: OP26 Stages: L3 larva Antibodies: RNA Polymerase II Embargoed until 9 months from 2009-05-27	ChadoXML \| Tracks \| Stanza \| Raw Data	details… unc-119(ed3) III; wgIs26 [unc-119(+) mab-5::TY1::EGFP::3xFLAG]

D. melanogaster Data Release Report for 4/6-4/12, 2009

nicole — Mon, 13 Apr 2009 17:56:16 +0000

This week we’ve released 8 D. melanogaster data sets:
Karpen – 1 ChIP-chip data sets
Lai – 4 RNA-seq data sets
White – 3 ChIP-chip data sets
on the following kinds of samples:

antibodies: h3k27me3, h4actetra
cell line: S2-DRSC
stages: adult stage, embryonic stage 1, embryonic stage 10, embryonic stage 11, embryonic stage 12, embryonic stage 13, embryonic stage 15, embryonic stage 16, embryonic stage 2, embryonic stage 9, late embryonic stage
strains: Canton-S, y; cn bw sp
tissues: adult head, embryo-derived cell-line, whole organism

Here’s the breakdown by project:

Karpen Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site (GFF), chromatin binding signal (WIG)	ChIP-chip	Tissues: embryo-derived cell-line Lines: S2-DRSC Stages: late embryonic stage Antibodies: H4AcTetra Embargoed until 9 months from 2008-08-15	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding site (GFF), chromatin binding signal (WIG)

ChIP-chip

Tissues: embryo-derived cell-line
Lines: S2-DRSC
Stages: late embryonic stage
Antibodies: H4AcTetra

Embargoed until 9 months from 2008-08-15

ChadoXML | Tracks | Stanza | Raw Data

details…

Lai Project

Data Type	Experiment type	Details	Links	Comments
alignments (SAM)	RNA-seq	Tissues: whole organism, adult head Strains: Canton-S Stages: adult stage Embargoed until 9 months from 2008-10-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
alignments (SAM)	RNA-seq	Tissues: whole organism, adult head Strains: Canton-S Stages: adult stage Embargoed until 9 months from 2008-10-09	ChadoXML \| Tracks \| Stanza \| Raw Data	details… small RNAs, single read alignments, no repeat masking, sequences may align to >>1 genomic location
alignments (SAM)	RNA-seq	Tissues: whole organism Strains: Canton-S Stages: embryonic stage 11, embryonic stage 12, embryonic stage 13 Embargoed until 9 months from 2008-09-19	ChadoXML \| Tracks \| Stanza \| Raw Data	details… small RNAs, single read alignments, no repeat masking, sequences may align to >>1 genomic location
alignments (SAM)	RNA-seq	Tissues: whole organism Strains: Canton-S Stages: embryonic stage 1, embryonic stage 2 Embargoed until 9 months from 2008-09-22	ChadoXML \| Tracks \| Stanza \| Raw Data	details… small RNAs, single read alignments, no repeat masking, sequences may align to >>1 genomic location

White Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site (GFF), chromatin binding signal (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: adult stage Antibodies: H3K27me3 Embargoed until 9 months from 2009-03-03	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), chromatin binding signal (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 15, embryonic stage 16 Antibodies: H3K27me3 Embargoed until 9 months from 2009-03-08	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), chromatin binding signal (WIG)	ChIP-chip	Tissues: whole organism Strains: y; cn bw sp Stages: embryonic stage 10, embryonic stage 11, embryonic stage 12, embryonic stage 9 Antibodies: H3K27me3 Embargoed until 9 months from 2009-02-02	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding site (GFF), chromatin binding signal (WIG)

ChIP-chip

Tissues: whole organism
Strains: y; cn bw sp
Stages: adult stage
Antibodies: H3K27me3
Embargoed until 9 months from 2009-03-03

ChadoXML | Tracks | Stanza | Raw Data

details…

chromatin binding site (GFF), chromatin binding signal (WIG)

ChIP-chip

Tissues: whole organism
Strains: y; cn bw sp
Stages: embryonic stage 15, embryonic stage 16

Antibodies: H3K27me3

Embargoed until 9 months from 2009-03-08

ChadoXML | Tracks | Stanza | Raw Data

details…

chromatin binding site (GFF), chromatin binding signal (WIG)

ChIP-chip

Tissues: whole organism
Strains: y; cn bw sp
Stages: embryonic stage 10, embryonic stage 11, embryonic stage 12, embryonic stage 9
Antibodies: H3K27me3

Embargoed until 9 months from 2009-02-02

ChadoXML | Tracks | Stanza | Raw Data

details…

C. elegans Data Release Report for 4/6-4/12, 2009

nicole — Mon, 13 Apr 2009 17:48:05 +0000

This week we’ve released 1 C. elegans data sets:
Lieb – 1 ChIP-chip data sets
on the following kinds of samples:

antibody: no antibody control
stage: embryo
strain: SS0881
tissue: whole organism

Here’s the breakdown by project:

Lieb Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site (GFF), chromatin binding signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: SS0881 (mes-4::GFP) Stages: embryo Antibodies: No Antibody Control Embargoed until 9 months from 2009-01-15	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding site (GFF), chromatin binding signal data (WIG)

ChIP-chip

Tissues: whole organism

Strains: SS0881 (mes-4::GFP)

Stages: embryo

Antibodies: No Antibody Control

Embargoed until 9 months from 2009-01-15

ChadoXML | Tracks | Stanza | Raw Data

details…

C. elegans Data Release Report for 3/23-3/29, 2009

nicole — Mon, 30 Mar 2009 17:43:33 +0000

This week we’ve released 1 C. elegans data sets:
Lieb – 1 ChIP-chip data sets
on the following kinds of samples:
antibody: sdc-2
stage: embryo
strain: N2
tissue: whole organism

Here’s the breakdown by project:

Lieb Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding sites (GFF), chromatin signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: SDC-2 Embargoed until 9 months from 2009-02-24	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

C. elegans Data Release Report for 3/16-3/22, 2009

nicole — Mon, 23 Mar 2009 17:40:32 +0000

This week we’ve released 2 C. elegans data sets:
Lieb – 2 ChIP-chip data sets
on the following kinds of samples:

antibodys: dpy-26, mix-1
stage: embryo
strain: N2
tissue: whole organism

Here’s the breakdown by project:

Lieb Project

Data Type	Experiment type	Details	Links	Comments
chromatin binding site (GFF), chromatin binding signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: DPY-26 Embargoed until 9 months from 2009-02-17	ChadoXML \| Tracks \| Stanza \| Raw Data	details…
chromatin binding site (GFF), chromatin binding signal data (WIG)	ChIP-chip	Tissues: whole organism Strains: N2 Stages: embryo Antibodies: MIX-1 Embargoed until 9 months from 2009-02-18	ChadoXML \| Tracks \| Stanza \| Raw Data	details…

Data Type

Experiment type

Details

Links

Comments

chromatin binding site (GFF), chromatin binding signal data (WIG)

ChIP-chip

Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: DPY-26

Embargoed until 9 months from 2009-02-17

ChadoXML | Tracks | Stanza | Raw Data

details…

chromatin binding site (GFF), chromatin binding signal data (WIG)

ChIP-chip

Tissues: whole organism
Strains: N2
Stages: embryo
Antibodies: MIX-1

Embargoed until 9 months from 2009-02-18

ChadoXML | Tracks | Stanza | Raw Data

details…