Result

Search results for the GEO ID: GSE41326

(Click on the check boxes provided under "Select for analysis", to initiate grouping)

(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down)

GSM ID

GPL ID

Select for analysis

Title

Source name

Description

Characteristics

GSM1014792

GPL570

HepG2 siNC biological rep1

HepG2 transfected with negative control siRNA

cell line: HepG2 treatment: control

Gene expression data from HepG2 cells transfected with negative control siRNA

Sample_geo_accession	GSM1014792
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014792/suppl/GSM1014792_HepG2_NC-1.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

GSM1014793

GPL570

HepG2 siNC biological rep2

HepG2 transfected with negative control siRNA

cell line: HepG2 treatment: control

Gene expression data from HepG2 cells transfected with negative control siRNA

Sample_geo_accession	GSM1014793
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014793/suppl/GSM1014793_HepG2_NC-2.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

GSM1014794

GPL570

HepG2 siNC biological rep3

HepG2 transfected with negative control siRNA

cell line: HepG2 treatment: control

Gene expression data from HepG2 cells transfected with negative control siRNA

Sample_geo_accession	GSM1014794
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014794/suppl/GSM1014794_HepG2_NC-3.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

GSM1014795

GPL570

HepG2 siRNF43 biological rep1

HepG2 transfected with RNF43 siRNA

cell line: HepG2 treatment: siRNF43

Gene expression data from HepG2 cells transfected with RNF43 siRNA

Sample_geo_accession	GSM1014795
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014795/suppl/GSM1014795_HepG2_siRNF43-1.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

GSM1014796

GPL570

HepG2 siRNF43 biological rep2

HepG2 transfected with RNF43 siRNA

cell line: HepG2 treatment: siRNF43

Gene expression data from HepG2 cells transfected with RNF43 siRNA

Sample_geo_accession	GSM1014796
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014796/suppl/GSM1014796_HepG2_siRNF43-2.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

GSM1014797

GPL570

HepG2 siRNF43 biological rep3

HepG2 transfected with RNF43 siRNA

cell line: HepG2 treatment: siRNF43

Gene expression data from HepG2 cells transfected with RNF43 siRNA

Sample_geo_accession	GSM1014797
Sample_status	Public on Oct 04 2012
Sample_submission_date	Oct 03 2012
Sample_last_update_date	Oct 04 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HepG2 cells were transfected with RNF43 siRNA or negative control siRNA using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. The sequence of siRNA: ( RNF43 siRNA: Sense 5’-CAGAACAGAAAGCUAUUAUTT -3’,Antisense 5’-AUAAUAGCUUUCUGUUCUGTT -3’. Negative control siRNA: Sense 5’-UUCUCCGAACGUGUCACGUTT -3’, Antisense 5’-ACGUGACACGUUCGGAGAATT -3’).
Sample_growth_protocol_ch1	HepG2 cells were cultured in Dulbecco's modified Eagle medium (DMEM, Gibco-Invitrogen, Carlsbad, CA, USA) supplemented with 10% fetal bovine serum (SAFC Biosciences, Lenexa, KS, USA), 100 units/mL penicillin and 100 mg/mL streptomycin (Sigma-Aldrich, St. Louis, MO, USA).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted using the RNeasy kit (Qiagen, Hilden, Germany) according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 plus 2.0 array Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Raw data were normalized by MAS 5.0 algorithm
Sample_platform_id	GPL570
Sample_contact_name	Chunyang,,Xing
Sample_contact_email	xing@zju.edu.cn
Sample_contact_institute	First Affiliated Hospital, School of Medicine, Zhejiang University
Sample_contact_address	79# Qingchun Road
Sample_contact_city	Hangzhou
Sample_contact_zip/postal_code	310000
Sample_contact_country	China
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1014nnn/GSM1014797/suppl/GSM1014797_HepG2_siRNF43-3.CEL.gz
Sample_series_id	GSE41326
Sample_data_row_count	54613

Make groups for comparisons

(2 groups will be compared at a time)

Select GSMs and click on "Add groups"

Enter the group name here:

Select expression type

Transcripts profile based on;

A. Differential status (Up/Down regulation)

B. Absolute calls (Transcribed/Not-detected)

Filter results by number of probes