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Small RNA identification

experiment: Small RNA identification project: Small and microRNAs PI: Eric Lai Labs: Eric Lai, Gregory Hannon
We plan to generate a comprehensive catalog of expressed and functional microRNAs, and generate biological evidence for their regulatory activity. We plan also to delineate the primary transcription units of microRNA genes. Finally, we plan to annotate other classes of non-miRNA expressed small RNAs, as least some of which may define novel classes of small RNA genes.

NO FEATURES GENERATED BY THIS EXPERIMENT All GBrowse tracks generated for this experiment:
GBrowse tracks: by chromosome
All entries in public repositories generated by this experiment
There are 71 RNA-seq submissions for this experiment:
DCC id Name developmental stage cell line strain tissue Embargoed until Features, GBrowse and Data Files
modENCODE_773

Dm y[1]; cn[1] bw[1] sp[1] Ovary smallRNA RNA-Seq Adult Female [ALL]
yellow cinnabar brown speck [ALL]
Adult ovaries [ALL]
embargo expired
GBrowse tracks: YA02_GSM280082.sam.bam.sorted
adult_ovaries
GEO: GSM280082


1 files Download data files
modENCODE_2376

Lai GSM399105 imaginal-disc Imaginal disc [ALL]
embargo expired
GBrowse tracks: ID_GSM399105.sam.bam.sorted
imaginal_disc_brain
GEO: GSM399105


1 files Download data files
modENCODE_774

Dm Loqs[f00791] Ovary smallRNA RNA-Seq Adult Female [ALL]
w[1118]; PBac{w[+mC]=WH}loqs[f00791]/CyO [ALL]
Adult ovaries [ALL]
embargo expired
GBrowse tracks: YA_GSM280084.sam.bam.sorted
loqs_ovaries
GEO: GSM280084


1 files Download data files
modENCODE_762

Dm Canton-S 1st Instar Larvae smallRNA RNA-Seq 1st instar larvae [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: L1_submission_762.gff.sam.bam.sorted
1stInstarLarvae
GEO: GSM360256
GEO: GSM360257


2 files Download data files
modENCODE_2379

Lai GSM280087 S2cells Ago2IP S2-DRSC [ALL]
embargo expired
GBrowse tracks: S22_GSM280087.sam.bam.sorted
S2cells_Ago2IP
GEO: GSM280087


1 files Download data files
modENCODE_772

Dm Oregon-R Adult Male Testis smallRNA RNA-Seq Adult Male [ALL]
Oregon-R-modENCODE [ALL]
Adult testis [ALL]
embargo expired
GBrowse tracks: YA02_GSM280085.sam.bam.sorted
adult_testes
GEO: GSM280085


1 files Download data files
modENCODE_2380

Lai GSM280088 S2cells Ago1IP S2-DRSC [ALL]
embargo expired
GBrowse tracks: S21_GSM280088.sam.bam.sorted
S2cells_Ago1IP
GEO: GSM280088


1 files Download data files
modENCODE_755

Dm Canton-S Embryo 0-1h smallRNA RNA-Seq Embryo 0-1 h [ALL]
embargo expired
GBrowse tracks: E00_submission_755.gff.sam.bam.sorted
Embryo0-1h
GEO: GSM286604
GEO: GSM286613


2 files Download data files
modENCODE_757

Dm Canton-S Pupae 2-4d smallRNA RNA-Seq 2-4 day old pupae [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: P02_submission_757.gff.sam.bam.sorted
Pupae2-4d
GEO: GSM322219
GEO: GSM322338


2 files Download data files
modENCODE_750

Canton-S Adult Female Head smallRNA RNA-Seq Adult Female [ALL]
Canton-S [ALL]
Female Heads [ALL]
embargo expired
GBrowse tracks: YAF_submission_750.sorted.gff.sam.bam.sorted
AdultFemaleHead
GEO: GSM240749
GEO: GSM322533


2 files Download data files
modENCODE_2374

Kc167 Rubin smallRNA RNA-Seq Kc-GMR [ALL]
embargo expired
GBrowse tracks: KC167_submission_2374.bam.sorted
Kc167_Rubin
GEO: GSM399110
GEO: GSM982081
SRA: SRR016855
SRA: SRR069831


2 files Download data files
modENCODE_752

Dm Canton-S Embryo 2-6h smallRNA RNA-Seq Embryo 2-6 h [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: E02_submission_752.gff.sam.bam.sorted
Embryo2-6h
GEO: GSM286605
GEO: GSM286606


2 files Download data files
modENCODE_754

Dm Canton-S Embryo 6-10h smallRNA RNA-Seq Embryo 6-10 h [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: E06_submission_754.gff.sam.bam.sorted
Embryo6-10h
GEO: GSM286607
GEO: GSM286611


2 files Download data files
modENCODE_2375

Lai GSM371638 S2-NP S2 [ALL]
embargo expired
GBrowse tracks: S2_GSM371638.sam.gz.bam.sorted
S2_NP
GEO: GSM371638


1 files Download data files
modENCODE_747

Dm Canton-S Adult Male Head smallRNA RNA-Seq Adult Male [ALL]
Canton-S [ALL]
Male heads [ALL]
embargo expired
GBrowse tracks: YAM_submission_747.gff.sam.bam.sorted
AdultMaleHead
GEO: GSM286601
GEO: GSM322543


2 files Download data files
modENCODE_748

Dm Canton-S 3rd Instar Larvae smallRNA RNA-Seq 3rd instar larvae [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: L3_submission_748.gff.sam.bam.sorted
3rdInstarLarvae
GEO: GSM322208
GEO: GSM322245


2 files Download data files
modENCODE_741

S2/Kc167 + Ecdysone exposure smallRNA RNA-Seq Kc167 [ALL]
S2-DRSC [ALL]
embargo expired
GBrowse tracks: S2_GSM272651.gff.sam.bam.sorted
S2_Kc167_Ecdysone
GEO: GSM272651


1 files Download data files
modENCODE_526

Dm Dcr-2[L811fsX] Ovary smallRNA RNA-Seq Adult ovaries [ALL]
embargo expired
GBrowse tracks: YA2_GSM280083.sam.bam.sorted
dcr_2_ovaries
GEO: GSM280083


1 files Download data files
modENCODE_4788

Lai OSCcell V144.M031 OSC [ALL]
embargo expired
GBrowse tracks: submission_4788.sorted
OSCcell_V144_M031
GEO: GSM915695
GEO: GSM915697
SRA: SRR488723
SRA: SRR514862


2 files Download data files
modENCODE_742

Dm Canton-S Imaginal Disk smallRNA RNA-Seq Imaginal disc [ALL]
embargo expired
GBrowse tracks: ID_GSM275691.gff.sam.bam.sorted
Imaginal_disc
GEO: GSM275691


1 files Download data files
modENCODE_4771

Lai S3cell V074.V128 S3 [ALL]
embargo expired
GBrowse tracks: submission_4771.sorted
S3cell_V074_V128
GEO: GSM915679
GEO: GSM915693
SRA: SRR488717
SRA: SRR488719


2 files Download data files
modENCODE_2742


Related to: modENCODE_574

Lai embryo 14-24hr Bs61-64-67-73 Embryo 14-16 h [ALL]
Embryo 16-18 h [ALL]
Embryo 18-20 h [ALL]
Embryo 22-24 h [ALL]
yellow cinnabar brown speck [ALL]
embargo expired
GBrowse tracks: E12_V082.sam.gz.bam.sorted
12-24hr_embryo_BS61-64-67-73
GEO: GSM609229


1 files Download data files
modENCODE_2743


Related to: modENCODE_574

Lai embryo 2-6hr BS43-46 Embryo 2-4 h [ALL]
Embryo 4-6 h [ALL]
yellow cinnabar brown speck [ALL]
embargo expired
GBrowse tracks: E02_V081.sam.gz.bam.sorted
2-6hr_embryo_BS43-46
GEO: GSM609238


1 files Download data files
modENCODE_4785

Lai CME L1cell V126 CME L1 [ALL]
embargo expired
GBrowse tracks: submission_4785.sorted
CME_L1cell_V126
GEO: GSM915694


1 files Download data files
modENCODE_4787

Lai S1cell V146 S1 [ALL]
embargo expired
GBrowse tracks: submission_4787.sorted
S1cell_V146
GEO: GSM915696


1 files Download data files
modENCODE_4780

Lai fGS OSScell V091 fGS/OSS [ALL]
embargo expired
GBrowse tracks: submission_4780.sorted
fGS_OSScell_V091
GEO: GSM915680


1 files Download data files
modENCODE_2008


Related to: modENCODE_574

Lai one day adult male-ENCODE/BS149 Adult male eclosion+1 day [ALL]
yellow cinnabar brown speck [ALL]
embargo expired
GBrowse tracks: YAM01_V083.sam.gz.bam.sorted
1day_AdultFemale_BS152
GEO: GSM609223


1 files Download data files
modENCODE_4782

Lai G2cell V127 G2 [ALL]
embargo expired
GBrowse tracks: submission_4782.sorted
G2cell_V127
GEO: GSM915681


1 files Download data files
modENCODE_2009


Related to: modENCODE_574

Lai one day adult female-ENCODE/BS152 Adult virgin female eclosion+1 day [ALL]
yellow cinnabar brown speck [ALL]
embargo expired
GBrowse tracks: YAF01_V084.sam.bam.sorted
1day_AdultMale_BS149
GEO: GSM609224


1 files Download data files
modENCODE_3195

Lai Female Head Aged V013 Adult Female [ALL]
Canton-S [ALL]
Female Heads [ALL]
embargo expired
GBrowse tracks: V013.sam.gz.bam.sorted
CantonSAdultFemaleHeadAged
GEO: GSM609251


1 files Download data files
modENCODE_3318

Lai DTT-4h S2-HDR [ALL]
embargo expired
GBrowse tracks: V014.sam.gz.bam.sorted
S2-DRSC_DTT-4h


1 files Download data files
modENCODE_3314

Lai r2d2 ovary totalRNA v2 Adult ovaries [ALL]
embargo expired
GBrowse tracks: Lai_r2d2_ovary
r2d2_ovaries_totalRNA
GEO: GSM609232
GEO: GSM628271


2 files Download data files
modENCODE_3315

Lai Ago2-414 ovary v2 Adult ovaries [ALL]
embargo expired
GBrowse tracks: Lai_ago2_ovary.sorted
Ago2-414_ovaries_total_RNA
GEO: GSM609237
GEO: GSM628272


2 files Download data files
modENCODE_2973

Lai S2 Rubin Ecdysone S2-DRSC [ALL]
embargo expired
GBrowse tracks: 2973_merged_sam
S2_Rubin_Ecdysone
GEO: GSE24542
GEO: GSE24543


2 files Download data files
modENCODE_2972

Lai CantonS Embryo Irradiated 2-18hr Embryo [ALL]
w[1118] [ALL]
embargo expired
GBrowse tracks: V002.sam.gz.bam.sorted
2-18hr_embryos_irradiated
GEO: GSE24541


1 files Download data files
modENCODE_2976

Lai CantonS ovary Adult ovaries [ALL]
embargo expired
GBrowse tracks: V097.sam.gz.bam.sorted
CantonS_Adult_ovaries
GEO: GSE24545


1 files Download data files
modENCODE_3190

Lai Female Head HeatShocked V007 Adult Female [ALL]
Canton-S [ALL]
Female Heads [ALL]
embargo expired
GBrowse tracks: V007.sam.gz.bam.sorted
CantonSAdultFemaleHeadHeatShocked
GEO: GSM609247


1 files Download data files
modENCODE_2820


Related to: modENCODE_555

Lai CMEL1 BS28 CME L1 [ALL]
embargo expired
GBrowse tracks: CMEL1_V009.sam.gz.bam.sorted
CMEL1_BS28
GEO: GSM609235


1 files Download data files
modENCODE_2974

Lai Kc Rubin Ecdysone Kc-GMR [ALL]
embargo expired
GBrowse tracks: 2974_merged_sam
Kc_Rubin_Ecdysone
GEO: GSE24543
GEO: GSE24544


2 files Download data files
modENCODE_2975

Lai Dcr-2 L811fsX ovary Adult ovaries [ALL]
embargo expired
GBrowse tracks: V098.sam.gz.bam.sorted
Dcr-2_L811fsX_Ovary
GEO: GSE24544


1 files Download data files
modENCODE_3506


Related to: modENCODE_555

Lai Sg4 Sg4 [ALL]
embargo expired
GBrowse tracks: Lai_Sg4.sorted
Sg4
GEO: GSM609218
GEO: GSM980232


2 files Download data files
modENCODE_2721


Related to: modENCODE_555

Lai CMEW1 Cl 8 CME W1 Cl.8+ [ALL]
embargo expired
GBrowse tracks: CMEW1_Cl_8.sam.bam.sorted
CMEW1_Cl_8
GEO: GSM609226
GEO: GSM609227


2 files Download data files
modENCODE_2749

Lai r2d2 ovary Ago1IP Adult ovaries [ALL]
embargo expired
GBrowse tracks: R2O_V066.sam.bam.sorted
r2d2_ovaries_Ago1IP
GEO: GSM609233


1 files Download data files
modENCODE_2751

Lai CantonS male Adult Male [ALL]
Canton-S [ALL]
Male body [ALL]
embargo expired
GBrowse tracks: YAM_submission_2751.sam.bam.sorted
AdultMaleBody
GEO: GSM286602
GEO: GSM399107
GEO: GSM609234


3 files Download data files
modENCODE_2746

Lai Ago2-414 ovary Ago1IP Adult ovaries [ALL]
embargo expired
GBrowse tracks: O_V064.sam.bam.sorted
Ago2-414_ovaries_Ago1IP
GEO: GSM609231


1 files Download data files
modENCODE_2833

Lai Dcr-2 L811fsX ovary Ago1IP Adult ovaries [ALL]
embargo expired
GBrowse tracks: OR2_V065.sam.bam.sorted
Dcr-2_L811fsX_ovaries_Ago1IP
GEO: GSM609236


1 files Download data files
modENCODE_2971

Lai CantonS Embryo Non-irradiated 2-18hr Embryo [ALL]
w[1118] [ALL]
embargo expired
GBrowse tracks: V001.sam.gz.bam.sorted
2-18hr_embryos_non-irradiated
GEO: GSE24540


1 files Download data files
modENCODE_2608

Lai S2R+ 2rep S2R+ [ALL]
embargo expired
GBrowse tracks: S2RPlus_2rep.sam.bam.sorted
S2Rplus_2rep
GEO: GSM343832
GEO: GSM343833


2 files Download data files
modENCODE_2725

Lai S2DRSC Rubin S2-GMR [ALL]
embargo expired
GBrowse tracks: S2DRSC_submission_2725
S2_DRSC_Rubin
GEO: GSM272652
GEO: GSM361908
SRA: SRR013618
SRA: SRR069830


2 files Download data files
modENCODE_2605

Lai OvarySomaticSheet smallRNA 4replicates Ovary Somatic Sheet [ALL]
embargo expired
GBrowse tracks: OSS.sam.bam.sorted
OSS
GEO: GSM385744
GEO: GSM385748
GEO: GSM385821
GEO: GSM385822


4 files Download data files
modENCODE_2606

Lai Kc167 2rep Kc167 [ALL]
embargo expired
GBrowse tracks: KC_Lai_Kc167_2rep.sam.bam.sorted
Kc167_2rep
GEO: GSM399100
GEO: GSM399101


2 files Download data files
modENCODE_2556

Lai GSM360262 0-2day pupae 0-2 day old pupae [ALL]
embargo expired
GBrowse tracks: P02_GSM360262.sam.bam.sorted
0-2day_pupae
GEO: GSM360262


1 files Download data files
modENCODE_2744

Lai CantonS ovary Ago1IP Adult ovaries [ALL]
embargo expired
GBrowse tracks: O_V063.sam.bam.sorted
CantonS_ovaries_Ago1IP
GEO: GSM609230


1 files Download data files
modENCODE_2741

Dm Canton-S Embryo 12-24h smallRNA RNA-Seq Embryo 12-24 h [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: E12_GSM364902.sam.bam.sorted
12-24hr_embryo_CantonS
GEO: GSM364902


1 files Download data files
modENCODE_3310


Related to: modENCODE_555

Lai ML-DmD20c5 ML-DmD20-c5 [ALL]
embargo expired
GBrowse tracks: Lai_ML-DmD20c5.sorted
MLDmD20c5
GEO: GSM919260
GEO: GSM919261


2 files Download data files
modENCODE_3311


Related to: modENCODE_555

Lai S1 V032 S1 [ALL]
embargo expired
GBrowse tracks: V032.sam.gz.bam.sorted
S1
GEO: GSM919262


1 files Download data files
modENCODE_3508


Related to: modENCODE_555

2007 retrofit Lai ML-DmBG1-c1 [ALL]
embargo expired
GBrowse tracks: Lai_ML-DmBG1-C1.sorted
ML-DmBG1c1
GEO: GSM609222
GEO: GSM980233


2 files Download data files
modENCODE_2543

Lai GSM360260 0 1day pupae 0-1 day old pupae [ALL]
embargo expired
GBrowse tracks: P0_GSM360260.sam.bam.sorted
0-1day_pupae
GEO: GSM360260


1 files Download data files
modENCODE_3510


Related to: modENCODE_555

Lai ML-DmBG3-C2 ML-DmBG3-c2 [ALL]
embargo expired
GBrowse tracks: Lai_ML-DmBG3-C2.sorted
ML-DmBG3-C2
GEO: GSM609225
GEO: GSM980234


2 files Download data files
modENCODE_3309


Related to: modENCODE_555

Lai ML-DmD16c3 V034 ML-DmD16-c3 [ALL]
embargo expired
GBrowse tracks: V034.sam.gz.bam.sorted
ML-DmD16c3
GEO: GSM919259


1 files Download data files
modENCODE_3511


Related to: modENCODE_555

Lai S2-DRSC S2-DRSC [ALL]
embargo expired
GBrowse tracks: Lai_S2-DRSC.sorted
S2_DRSC
GEO: GSM609228
GEO: GSM980235


2 files Download data files
modENCODE_3193


Related to: modENCODE_555

Lai MLDmD21 V027 ML-DmD21 [ALL]
embargo expired
GBrowse tracks: MLDm21_submission_3193
ML-DmD21
GEO: GSM609220
GEO: GSM609249
SRA: SRR069256
SRA: SRR069507


2 files Download data files
modENCODE_2381

Lai GSM280086 adult ovaries AGO2IP embargo expired
GBrowse tracks: YA_GSM280086.sam.bam.sorted
Adult_ovaries_AGO2IP
GEO: GSM280086


1 files Download data files
modENCODE_3307


Related to: modENCODE_555

Lai GM2 GM2 [ALL]
embargo expired
GBrowse tracks: Lai_GM2.sorted
GM2cells
GEO: GSM609219
GEO: GSM930140


2 files Download data files
modENCODE_3514


Related to: modENCODE_555

Lai MLDmD32 ML-DmD32 [ALL]
embargo expired
GBrowse tracks: Lai_MLDmD32.sorted
ML-DmD32
GEO: GSM609250


3 files Download data files
modENCODE_3741


Related to: modENCODE_555

Lai mbn2 mbn2 [ALL]
embargo expired
GBrowse tracks: Lai_SAM_mbn2
mbn2
GEO: GSM919266
GEO: GSM919267


2 files Download data files
modENCODE_3512


Related to: modENCODE_555

Lai MLDmD9 ML-DmD9 [ALL]
embargo expired
GBrowse tracks: Lai_MLDmD9.sorted
ML-DmD9
GEO: GSM609248
GEO: GSM980236


2 files Download data files
modENCODE_3513


Related to: modENCODE_555

Lai MLDmD8 ML-DmD8 [ALL]
embargo expired
GBrowse tracks: Lai_MLDmD8.sorted
ML-DmD8
GEO: GSM919264
GEO: GSM919265


2 files Download data files
modENCODE_2555

Lai Canton-S Female Body Adult Female [ALL]
Canton-S [ALL]
embargo expired
GBrowse tracks: YAF2_GSM399106.sam.bam.sorted
CantonSAdultFemaleBody
GEO: GSM286603
GEO: GSM399106
SRA: SRR018039
SRA: SRR069837


2 files Download data files
modENCODE_3742


Related to: modENCODE_555

Lai 1182-4H 1182-4H [ALL]
embargo expired
GBrowse tracks: Lai_submission_3742
1182-4H
GEO: GSM609221
GEO: GSM980238


2 files Download data files
modENCODE_3743


Related to: modENCODE_555

Lai CMEW2 CME W2 [ALL]
embargo expired
GBrowse tracks: Lai_SAM_CMEW2
CMEW2
GEO: GSM919268
GEO: GSM919269


2 files Download data files