TCGA -- How To Order

How to order

Use the following forms and product guide to avail the respective services.

Oligonucleotide Synthesis
Samples are processed on a first come, first serve basis. We are generally able to provide results within 1 to 2 weeks. Please inquire about expected turnaround times when submitting samples. Please use the following forms for the purpose.
--Service Request Form for Oligonucleotide synthesis Spreadsheet

Custom Sequencing
Samples are processed on a first come, first serve basis. We are generally able to provide results within 5-7working days. Please inquire about expected turnaround times when submitting samples. Please use the following forms for the purpose.
--Service Request Form for Sequencing Spreadsheet

Fragment Analysis
If you want to submit genomic DNA or RNA, please ensure the extracted template is of sufficient quantity and of quality good enough for PCR or RT-PCR. If you plan to use whole blood or blood component for template extraction, please collect blood in BD lavender top vacutainers or ensure that blood is collected in EDTA. Do not use Heparin for blood collection. For nay other tissue, please ensure the samples are of sufficient quality and quantity for DNA or RNA extraction suitable for PCR. Please consult Technical Support for any further details with your specific query
--Service Request Form for Fragment analysis

Genotyping by Massarray
Samples are processed on a first come, first serve basis.Please inquire about expected turnaround times when submitting samples. Please use the Sample Submission Form available on this website.
--Service Request Form for Massarray SNP Genotyping Spreadsheet

Microarray Facility
--Data analysis and report generation form Spreadsheet
--Real time PCR Submission form Spreadsheet

Proteomics
Samples are processed on a first come, first serve basis. We are generally able to provide results within 2 to 3 weeks. Please inquire about expected turnaround times when submitting samples. Please use the following forms for the purpose.
--Service Request Form for 2 D electrophoresis and Mass Spectrometry Spreadsheet

Directory of Service

Sl. No.	Service Code	Description	Units	Turn Around Time	Sample Requirement
Oligonucleotide Synthesis Facility
1	TCGA-O001	Desalted oligo 50 nmol synthesis scale, OD 4 to 12, QC by MALDI-ToF (17-32 mer)	Base	5 working Days
2	TCGA-O002	Degenerate oligo 50 nmol synthesis scale,QC by MALDI-ToF(17-32 mer)	Base	7 working Days
3	TCGA-O003	PAGE purified oligo 50 nmol synthesis scale, OD 2 to 8, QC by MALDI-ToF (17-32 mer)	Base+Oligo	10 Working Days
4	TCGA-O004	Desalted oligo 200 nmol synthesis scale, OD 8 to 20,QC by MALDI-ToF (17-32 mer)	Base	5 Working Days
5	TCGA-O005	Degenerate oligo 200 nmol synthesis scale, QC by MALDI-ToF(17-32 mer)	Base
6	TCGA-O006	PAGE purified oligo 200 nmol synthesis scale, OD 4 to 12, QC by MALDI-ToF (17-32 mer)	Base+Oligo	10 Working Days
7	TCGA-O007	5' Fluorescent labeled oligo ( HEX,6-FAM, or TET labeled), QC by MALDI-ToF (17-32 mer)	Base+Oligo	15 Working Days
Proteomics Facility
1	TCGA-P001	2-D gel electrophoresis of protein samples	Sample	3-4 weeks/depends upon project nature	500ug to 1mg(to be discussed prior to sending the sample)
2	TCGA-P002	Peptide mass fingerprinting (PMF) by MALDI-TOF of Tryptic digests of protein	Sample	10Working Days	Tryptic digest in lyophillized/liquid form
3	TCGA-P003	Peptide mass fingerprinting and MS /MS of 2-3 peptides from PMF by MALDI-TOF/TOF	Sample	10Working Days	Tryptic digest in lyophillized/liquid form
4	TCGA-P004	MS/MS of Tryptic digests of proteins using nano LC-MS	Sample	10Working Days	Tryptic digest in lyophillized/liquid form
5	TCGA-P005	Alkylation, Reduction ,Tryptic Digestion & peptide mass fingerprinting by MALDI-TOF	Sample	10-15 Working Days	Coomassie /silver stained band (preferably coomassie)
6	TCGA-P006	Alkylation ,Reduction,Tryptic Digestion & MS /MS of 2-3 peptides from PMF for by MALDI-TOF/TOF	Sample	10-15 Working Days	Coomassie /silver stained band (preferably coomassie)
7	TCGA-P007	Alkylation ,Reduction,Tryptic Digestion and MS /MS using nano LC-MS	Sample	10-15 Working Days	Coomassie /silver stained band
8	TCGA-P008	Molecular Weight of Intact Protein	Sample	5 Working Days	lyophillized powder, Protein (5-60KD)- 30-50 pmol,Protein (60KD and above)- 80-100pmol
9	TCGA-P009	Molecular Weight of Peptide	Sample	5 Working Days	lyophillized powde , Peptides- 5pmol/ µl (above 700Da)
10	TCGA-P010	1-D-Gel Electrophoresis	Sample	7 Working Days	100ug
11	TCGA-P011	Insolution digestion, Peptide mass fingerprinting and MS/MS by MALDI-TOF/TOF	Sample	10-15 Working Days	10-20ug
12	TCGA-P012	Insolution digestion and MS/MS of Tryptic digests using nano LC-MS	Sample	10-15 Working Days	10-20ug
13	TCGA-P013	Sample preparation for 2-D gel electrophoresis of Bacterial samples	Sample	To be done prior to 2D gel electrophoresis(TCGA-P001)	lyophillized powder
14	TCGA-P014	Sample preparation for 2-D gel electrophoresis of Plant samples	Sample	To be done prior to 2D gel electrophoresis(TCGA-P001)	lyophillized powder
15	TCGA-P015	Sample preparation for 2-D gel electrophoresis of Plasma samples	Sample	To be done prior to 2D gel electrophoresis(TCGA-P001)	lyophillized powder
16	TCGA-P016	Sample preparation for 2-D gel electrophoresis of Tissue samples	Sample	To be done prior to 2D gel electrophoresis(TCGA-P001)	lyophillized powder
17	TCGA-P017	Zip Tip Clean-up	Tip	To be done prior to MALDI	from service no. (TCGA-P002/P003/ P005/P006)
18	TCGA-P018	Analysis of 2-D gels using PD Quest	Sample	To be done after 2 D gel electrophoresis(TCGA-P001)	Gel pictures
19	TCGA-P019	MUD PIT Analysis using 2D nano LC-MS	Sample
20	TCGA-P020	MS /MS of additional peptides from PMF data using MALDI-TOF/TOF ( per peptide) for sequencing	Sample	To be done along with TCGA- P003/P006	from service no. (TCGA-P003/ P006)
21	TCGA-P021	Iso electric focusing	Sample	10 Working Days	100-200ug
22	TCGA-P022	Transfer of protein from 1D/2D Gel to PVDF membrane	Sample	7-10 Working Days
Genotyping Facility
1	TCGA-G001	Mass Array Sequenom High Throughput Genotyping	Genotype	Depends on project	Depends on project
2	TCGA-G002	Assay Design and Optimization	Locus	Depends on project	Not Required
3	TCGA-G003	Assay Design, Optimization and Validation (48 samples)	Locus	Depends on project	Not Required
4	TCGA-G004	Picogreen DNA quantification	Sample	5 Working Days	Approximately 50 ng Genomic DNA
5	TCGA-G005	Affymetrix Genechip Genotyping (End to End)	Sample	Depends on project	Depends on project(500-1000ng genomic DNA)
6	TCGA-G006	Affymetrix Genechip Genotyping Hybridization and Scanning Service	Sample	Depends on project	Depends on project(500-1000ng genomic DNA)
7	TCGA-G007	Illumina Goldengate Genotyping (384, 768 and 1536 Plex)	Genotype	Depends on project	500 ng Genomic DNA
8	TCGA-G008	Illumina Whole Genome Infinium Assays	Sample	Depends on project	Depends on project(500-1000ng genomic DNA)
Microarray Facility
1	TCGA-M001	RNA isolation (Blood , Tissue culture cells & lymphocytes)	Blood or tissue or culture cells or lymphocytes	**	This service is only available with TCGA-M004 , TCGA-M005, TCGA-M006, TCGA-M007, TCGA-M008 and TCGA-M009
2	TCGA-M002	RNA Quality check on Agilent Bioanalyser 2100	RNA sample	2 Working Days	Depends upon the Assay
3	TCGA-M003	DNA Quality Check on Agilent Bioanalyser 2100	DNA sample	2 Working Days	Depends upon the Assay
4	TCGA-M004	Affymetrix GeneChip Eukaryotic Expression Standard Protocol	RNA sample	Depends upon project	Total RNA atleast 6ug in 10 ul
5	TCGA-M005	Affymetrix GeneChip Eukaryotic Expression small sample protocol	RNA sample	Depends upon project	Total RNA atleast 150ng in 10 ul
6	TCGA-M006	Illumina BeadChip Expression protocol	RNA sample	Depends upon project	Total RNA atleast 500ng in 11 ul
7	TCGA-M007	Illumina BeadChip miRNA Gene Expression	RNA sample	Depends upon project	Total RNA atleast 200ng in 11ul
8	TCGA-M008	mRNA quantification by Real time PCR using SYBR Green	RNA sample	Depends upon project	Consultation recommended prior to assay design
9	TCGA-M009	mRNA quantification by Real time PCR using probes	RNA sample	Depends upon project	Consultation recommended prior to assay design
10	TCGA-M010	Premium Analysis Service (PAS)	Data	Depends upon project	Consultation essential prior to analysis
11	TCGA-M011	Full Analysis Service (FAS)	Data	Depends upon project	Consultation essential prior to analysis
Sequencing Facility
1	TCGA-S001	Custom DNA Sequencing (Single/Double pass)	Reaction	5 Working Days	1ug Plasmid,500ng PCR Product
2	TCGA-S002	Consolidated DNA Sequencing	Reaction	Depends upon project	Genomic DNA
3	TCGA-S003	High Throughput DNA Sequencing	Reaction	5 working Days	96 or more DNA samples in plates
4	TCGA-S004	24Hour DNA Sequencing	Reaction	24 hours (1 working day)	1ug Plasmid,500ng PCR Product
5	TCGA-S005	Primer Walking	Kb	15 working Days	1ug DNA
6	TCGA-S006	Microbial Identification-(using 16S, 18S & 28S rDNA)	Sample	7 working Days	5 ml culture
7	TCGA-S007	TA cloning	Sample	Depends upon project	Genomic DNA
8	TCGA-S008	Custom cloning	Sample	Depends upon project	Genomic DNA
9	TCGA-S009	Custom Fragment Analysis	Sample	7 working Days	200ng genomic DNA