To date, we have generated 246 RNA-Seq Datasets and 238 GeneChip Datasets which are submitted to GEO. Click on the "GEO Series Accessions" listed in the tables to see the detail.

Transcriptome Profiling During Seed Development Using RNA-Seq

Study Sample No. Datasets GEO Series Accessions
Soybean
Soybean Seed Compartments at Globular Stage Using Laser Capture Microdissection (LCM) Embryo Proper 25 GSE57349
Suspensor
Endosperm
Seed Coat Endothelium
Seed Coat Epidermis
Seed Coat Hilium
Seed Coat Inner Integument
Seed Coat Outer Integument
Soybean Seed Compartments at Heart Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 24 GSE57350
Suspensor
Endosperm
Seed Coat Endothelium
Seed Coat Epidermis
Seed Coat Hilium
Seed Coat Inner Integument
Seed Coat Outer Integument
Soybean Seed Compartments at Cotyledon Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 30 GSE57606
Suspensor
Cotyledon
Axis
Endosperm
Seed Coat Endothelium
Seed Coat Inner Integument
Seed Coat Outer Integument
Seed Coat Hilum
Seed Coat Epidermis
Soybean Seed Compartments at Early Maturation Stage Using Laser Capture Microdissection (LCM)
Axis Epidermis 51 GSE46906
Axis Stele
Axis Vascular
Axis Parenchyma
Axis Plumule
Root Tip
Shoot Meristem
Cotyledon Abaxial Parenchyma
Cotyledon Adaxial Parenchyma
Cotyledon Abaxial Epidermis
Cotyledon Adaxial Epidermis
Cotyledon Vascular Bundle
Endosperm
Seed Coat Hilum
Seed Coat Parenchyma
Seed Coat Hourglass
Seed Coat Palisade
Profiling of the Soybean Life Cycle Globular Stage Seeds 12 GSE29163
Heart Stage Seeds
Cotyledon Stage Seeds
Early Maturation Stage Seeds
Mid-Maturation Stage Seeds
Late Maturation Stage Seeds
Dry Seeds
Trifoliate leaves
Roots
Stems
Floral Buds
Whole seedlings six days after imbibition
Soybean Seed Compartments Using Laser Capture Microdissection (LCM)
Globular Stage Embryo Proper 3 GSE29162
Globular Stage Suspensor
Early Maturation Seed Coat Parenchyma
Soybean Embryonic Cotyledon Before and After Germination
Mid-Maturation Cotyledon 3 GSE29134
Late-Maturation Cotyledon
Seedling Cotyledon
Soybean Early Maturation Seed Parts
Embryonic Cotyledons 3 GSE37895
Embryonic Axis
Seed Coat
Arabidopsis
Arabidopsis Post Mature Green Seeds of ddcc Mutant and wild-type
ddcc Mutant Seeds at Post Mature Green Stage 4 GSE76447
wild-type Seeds at Post Mature Green Stage
Arabidopsis Globular Embryo Regions Using Laser Capture Microdissection (LCM)
Embryo Proper 2 GSE135393
Suspensor
Scarlet Runner Bean
Scarlet Runner Bean Globular Embryo Regions Using Laser Capture Microdissection (LCM)
Embryo Proper 4 GSE57537
Suspensor
Common Bean
Common Bean Globular Embryo Regions Using Laser Capture Microdissection (LCM)
Embryo Proper 4 GSE57537
Suspensor


Transcriptional Profiling of Soybean and Arabidopsis Seed Development Using GeneChip Arrays

Study Seed Compartment No. Datasets GEO Series Accessions
Soybean
Soybean Seed Compartments at Globular Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 28 GSE6414
Suspensor
Endosperm
Seed Coat Endothelium
Seed Coat Epidermis
Seed Coat Hilium
Seed Coat Inner Integument
Seed Coat Outer Integument
Soybean Seed Compartments at Heart Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 23 GSE7511
Suspensor
Endosperm
Seed Coat Endothelium
Seed Coat Epidermis
Seed Coat Hilium
Seed Coat Inner Integument
Seed Coat Outer Integument
Soybean Seed Compartments at Cotyledon Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 18 GSE7881
Suspensor
Endosperm
Seed Coat Endothelium
Seed Coat Epidermis
Seed Coat Hilium
Seed Coat Inner Integument
Seed Coat Outer Integument
Soybean Seed Compartments at Early Maturation Stage Using Laser Capture Microdissection (LCM)
Axis Epidermis 34 GSE8112
Axis Vascular Bundle
Axis Parenchyma
Axis Plumule
Root Meristem
Shoot Meristem
Cotyledon Abaxial Parenchyma
Cotyledon Adaxial Parenchyma
Cotyledon Abaxial Epidermis
Cotyledon Adaxial Epidermis
Cotyledon Vascular Bundle
Endosperm
Seed Coat Hilum
Seed Coat Parenchyma
Seed Coat Hourglass
Seed Coat Palisade
Arabidopsis
Arabidopsis Seed Compartments at Pre-globular Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 14 GSE12402
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Arabidopsis Seed Compartments at Globular Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 17 GSE11262
Suspensor
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Arabidopsis Seed Compartments at Heart Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 16 GSE15160
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Arabidopsis Seed Compartments at Linear Cotyledon Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 14 GSE12403
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Arabidopsis Seed Compartments at Bending Cotyledon Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 14 GSE20039
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Arabidopsis Seed Compartments at Mature Green Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 14 GSE15165
Micropylar Endosperm
Peripheral Endosperm
Chalazal Endosperm
Chalazal Seed Coat
General Seed Coat
Whole Seed
Transcript Profiling of Arabidopsis Plant Life Cycle
wild-type Ovule 30 GSE680
wild-type 24-hr Seed
wild-type Globular Stage Seed
wild-type Linear Cotyledon Stage Seed
wild-type Mature Green Stage Seed
wild-type Post-Mature Green Stage Seed
wild-type Mid-Maturation Stage Seed
wild-type Late-Maturation Stage Seed
wild-type Seedling
wild-type Floral Bud
wild-type Rosette Leaf
wild-type Root
wild-type Stem
lec1 Floral Bud
lec1 Rosette Leaf
lec1 Root
lec1 Stem
Transcript Profiling of Arabidopsis Seed Development in LEAFY COTYLEDON1 (LEC1) Mutants
lec1 24-hr Seed 14 GSE1051
lec1 Globular Stage Seed
lec1 Linear Cotyledon Stage Seed
lec1 Mature Green Stage Seed
lec1 Post-Mature Green Stage Seed
lec1 Mid-Maturation Stage Seed
mRNA Changes Following Induction of LEC1 Activity in Arabidopsis Seedlings
lec1 8-days Seedling with Induction 4 GSE99528
lec1 8-days Seedling without Induction


Small RNA Profiling During Soybean Seed Development Using Small RNA-Seq

Study Sample No. Datasets GEO Series Accessions
Small RNA Profiling of Soybean Seed Compartments at Globular Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 12 GSE57845
Endosperm
Inner Integument
Outer Integument
Hilum
Epidermis
Small RNA Profiling of Soybean Seed Compartments at Heart Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 16 GSE57874
Suspensor
Endosperm
Endothelium
Inner Integument
Outer Integument
Hilum
Seed Coat Epidermis
Small RNA Profiling of Soybean Seed Compartments at Cotyledon Stage Using Laser Capture Microdissection (LCM)
Embryo Proper 16 GSE57883
Embryonic Axis
Embryonic Cotyledon
Endosperm
Inner Integument
Outer Integument
Hilum
Seed Coat Epidermis
Small RNA Profiling of Soybean Seed Compartments at Early Maturation Stage Using Laser Capture Microdissection (LCM)
Axis Epidermis 34 GSE57906
Axis Stele
Axis Vascular
Axis Parenchyma
Plumule
Root Tip
Shoot Meristem
Cotyledon Abaxial Parenchyma
Cotyledon Adaxial Parenchyma
Cotyledon Abaxial Epidermis
Cotyledon Adaxial Epidermis
Cotyledon Vascular Bundle
Endosperm
Seed Coat Hilum
Seed Coat Parenchyma
Seed Coat Hourglass
Seed Coat Palisade
Small RNA Profiling of Soybean Early Maturation Seed Parts Embryonic Cotyledons 3 GSE37895
Embryonic Axis
Seed Coat

To date, we have generated 52 BS-Seq Datasets which are submitted to GEO. Click on the "GEO Series Accessions" listed in the table to see the detail.

Methylome Profiling of Soybean and Arabidopsis Seed Development Using Bisulfite Sequencing (BS-Seq)

Study Sample No. Datasets GEO Series Accessions
Soybean
Methylation Changes During Soybean Seed Development
Globular Stage Seeds 1 GSE34637
Cotyledon Stage Seeds 1
Early Maturation Stage Seeds 1
Mid-Maturation Stage Seeds 2
Late-Maturation Stage Seeds (BR1) 3
Pre-dormancy Stage 1 Seeds 1
Pre-dormancy Stage 2 Seeds 1
Dry Seeds 2
6DAI Cotyledon 3
6DAI Seedling 3
Methylation Changes in Soybean Early Maturation Seed Compartments Using Laser Microdissection (LCM)
Seed Coat Parenchyma 10 GSE37893
Seed Coat Palisade
Cotyledon Abaxial Parenchyma
Cotyledon Adaxial Parenchyma
Axis Parenchyma
Axis Plumule
Axis Root Tip
Axis Vascular
Seed Coat
Embryonic Cotyledon
Methylation Changes in Soybean Early Maturation Seed Parts
Embryonic Cotyledons 4 GSE37895
Embryonic Axis
Seed Coat
Methylation Changes in Soybean Mid-Maturation Seed Parts
Embryonic Cotyledons 3 GSE41601
Embryonic Axis
Seed Coat
Methylation Changes in Soybean Cotyledons Seed Parts
Embryonic Cotyledons 3 GSE57762
Embryonic Axis
Seed Coat
Arabidopsis
Methylation Changes in Arabidopsis Mature Green Stage Seed Parts Embryo 2 GSE57755
Seed Coat
Methylation Changes in Arabidopsis Seed Development Globular Stage Seeds 6 GSE68132
Linear Cotyledon Stage Seeds
Mature Green Stage Seeds
Post Mature Green Stage Seeds
Dry Seeds
Leaf
Methylation Profile of post mature green stage seed and dry seed from Arabidopsis ddcc mutant ddcc mutant dry seeds 6 GSE68131
ddcc mutant post mature green seeds
ddcc mutant leaf
wild type dry seeds
wild type post mature green seeds
wild type leaf

To date, we have generated 126 ChIP-Seq Datasets and submitted all to GEO. Click on the "GEO Series Accessions" listed in the table to see the detail.

DNA-Protein Interaction Profiling Using Chromatin Immunoprecipitation (ChIP) Assays with Sequencing (ChIP-Seq)

Transcription Factor or Histone Marker Seed Stage Seed Region or Subregion No. Datasets GEO Series Accessions
Soybean
LEC1 Cotyledon Embryo 4 GSE99882
Early-Maturation Embryo 8
Mid-Maturation Embryo 4
ABI3 Early-Maturation Embryo 4 GSE101649
Mid-Maturation Embryo 12 GSE101648, GSE140700
AREB3 Early-Maturation Embryo 10 GSE140699, GSE101672
bZIP67 Early-Maturation Embryo 6 GSE140701, GSE101672
Mid-Maturation Embryo 4 GSE101663
AGL62 Globular Endosperm 2 GSE135265
WOX9 Globular Suspensor 4 GSE135267
Heart Suspensor 4
YAB1 Globular Embryo Proper 4 GSE135278
GRF5 Early-Maturation Embryo 4 GSE152313
HB22 Early-Maturation Embryo 6 GSE152314
WRI1 Early-Maturation Embryo 4 GSE152310
H3K4me3 & H3K27me3 Cotyledon Embryo 6 GSE114879
Early-Maturation Embryo 6
Mid-Maturation Embryo 6
Late-Maturation Embryo 6
Seedling Seedling 6
Scarlet Runner Bean
WOX9 Globular Suspensor 4 GSE153644
Arabidopsis
LEC1 Bent Cotyledon Embryo 4 GSE99587
Seedling Seedling 8 GSE99529