A framework for variation discovery and genotyping using next-generation DNA sequencing data.
Recent advances in sequencing technology make it possible to comprehensively catalog genetic variation in population samples, creating a foundation for understanding human disease, ancestry and evolution. The amounts of raw data produced are prodigious, and many computational steps are required to translate this output into high-quality variant calls. We present a unified analytic framework to discover and genotype variation among multiple samples simultaneously that achieves sensitive and specific results across five sequencing technologies and three distinct, canonical experimental designs.
Our process includes (i) initial read mapping; (ii) local realignment around indels; (iii) base quality score recalibration; (iv) SNP discovery and genotyping to find all potential variants; and (v) machine learning to separate true segregating variation from machine artifacts common to next-generation sequencing technologies. We here discuss the application of these tools, instantiated in the Genome Analysis Toolkit, to deep whole-genome, whole-exome capture and multi-sample low-pass (∼4×) 1000 Genomes Project datasets.
Mouse Thymus, match set of RNA, DNA, Protein |
|||
MS-702-RDP | Zyagen | 20µg/20µg/100µg | EUR 422 |
Mouse Kidney, match set of RNA, DNA, Protein |
|||
MS-901-RDP | Zyagen | 20µg/20µg/100µg | EUR 422 |
Mouse Stomach, match set of RNA, DNA, Protein |
|||
MS-302-RDP | Zyagen | 20µg/20µg/100µg | EUR 422 |
Mouse S. Muscles, match set of RNA, DNA, Protein |
|||
MS-102-RDP | Zyagen | 20µg/20µg/100µg | EUR 422 |
Mouse S. Intestine, match set of RNA, DNA, Protein |
|||
MS-306-RDP | Zyagen | 20µg/20µg/100µg | EUR 422 |
Tissue Set, BioAssay, DNA, RNA, Protein, Rat Adult Normal, Brain |
|||
MBS640997-1Set | MyBiosource | 1Set | EUR 650 |
Tissue Set, BioAssay, DNA, RNA, Protein, Rat Adult Normal, Brain |
|||
MBS640997-5x1Set | MyBiosource | 5x1Set | EUR 2970 |
Rat Brain Region Total RNA Panel, Set of any 5 Regions |
|||
RR-201-005 | Zyagen | 5X0.015mg | EUR 707 |
Rat Brain Region Total RNA Panel, Set of any 10 Regions |
|||
RR-201-010 | Zyagen | 10x0.015mg | EUR 984 |
Rat Brain Region Total RNA Panel, Set of any 15 Regions |
|||
RR-201-015 | Zyagen | 15X0.015mg | EUR 1275 |
Tissue Set, BioAssay, DNA, RNA, Protein, Human Adult Normal, Brain |
|||
MBS639448-1Kit | MyBiosource | 1Kit | EUR 730 |
Tissue Set, BioAssay, DNA, RNA, Protein, Human Adult Normal, Brain |
|||
MBS639448-5x1Kit | MyBiosource | 5x1Kit | EUR 3075 |
Tissue Set, BioAssay, DNA, RNA, Protein, Mouse Adult Normal, Brain |
|||
MBS640986-1Set | MyBiosource | 1Set | EUR 650 |
Tissue Set, BioAssay, DNA, RNA, Protein, Mouse Adult Normal, Brain |
|||
MBS640986-5x1Set | MyBiosource | 5x1Set | EUR 2970 |
Rat-WS Brain Region Total RNA Panel, Set of any 5 Regions |
|||
RR-201-005-WS | Zyagen | 5X0.015mg | EUR 707 |
Rat-WS Brain Region Total RNA Panel, Set of any 10 Regions |
|||
RR-201-010-WS | Zyagen | 10x0.015mg | EUR 984 |
Rat-WS Brain Region Total RNA Panel, Set of any 15 Regions |
|||
RR-201-015-WS | Zyagen | 15X0.015mg | EUR 1275 |
Syringe Caps (Package of 100) |
|||
T311 | RNA Medical | each | EUR 32 |
Safe-Wrap® Blood Collection Tubes (Package of 100 Tubes) |
|||
CT220 | RNA Medical | each | EUR 191 |
Rat Brain Genomic DNA |
|||
RG-201 | Zyagen | 0.1mg | EUR 177 |
End Caps for use with Safe-Wrap® Blood Collection Tubes (Package of 200) Caps) |
|||
EC220 | RNA Medical | each | EUR 78 |
Safe-Wrap® Combo Blood Collection Tubes for i•-STAT® (Package of 50 Tubes) 95μL |
|||
CT095 | RNA Medical | each | EUR 85 |
Rat Brain, whole Total RNA |
|||
RR-201 | Zyagen | 0.05mg | EUR 160 |
Mouse CD1 Brain Region Total RNA Panel, Set of any 5 Regions |
|||
MR-201-005 | Zyagen | 5X0.010mg | EUR 707 |
Mouse C57 Brain Region Total RNA Panel, Set of any 5 Regions |
|||
MR-201-005-C57 | Zyagen | 5X0.010mg | EUR 875 |
Mouse CD1 Brain Region Total RNA Panel, Set of any 10 Regions |
|||
MR-201-010 | Zyagen | 10x0.010mg | EUR 852 |
Mouse C57 Brain Region Total RNA Panel, Set of any 10 Regions |
|||
MR-201-010-C57 | Zyagen | 10x0.010mg | EUR 1092 |
Mouse CD1 Brain Region Total RNA Panel, Set of any 15 Regions |
|||
MR-201-015 | Zyagen | 15X0.010mg | EUR 1142 |
Mouse C57 Brain Region Total RNA Panel, Set of any 15 Regions |
|||
MR-201-015-C57 | Zyagen | 15X0.010mg | EUR 1384 |
Mouse Balbc Brain Region Total RNA Panel, Set of any 5 Regions |
|||
MR-201-005-BLC | Zyagen | 5X0.010mg | EUR 875 |
Mouse Balbc Brain Region Total RNA Panel, Set of any 10 Regions |
|||
MR-201-010-BLC | Zyagen | 10x0.010mg | EUR 1092 |
Mouse Balbc Brain Region Total RNA Panel, Set of any 15 Regions |
|||
MR-201-015-BLC | Zyagen | 15X0.010mg | EUR 1384 |
Rat-WS Brain, whole Total RNA |
|||
RR-201-WS | Zyagen | 0.1mg | EUR 160 |
Rat Brain Region cDNA Panel, Set of any 5 Regions |
|||
RD-201-005 | Zyagen | 5X10 reactions | EUR 655 |
Rat Brain Region cDNA Panel, Set of any 10 Regions |
|||
RD-201-010 | Zyagen | 10X10 reactions | EUR 1091 |
Rat Brain Region cDNA Panel, Set of any 15 Regions |
|||
RD-201-015 | Zyagen | 15X10 reactions | EUR 1324 |
Genomic DNA - Rat Normal Tissue: Brain |
|||
D1434035 | Biochain | 100 ug | EUR 241.5 |
ESA LEADCARE II ANALYZER KIT |
|||
706760 | RNA Medical | each | Ask for price |
ESA LEADCARE II TEST KIT |
|||
706762 | RNA Medical | each | Ask for price |
Calibration Verification Controls (BG, Electrolyte, Metabolite Analyzers) |
|||
CVC123 | RNA Medical | each | EUR 565 |
CO‐Oximeter Calibration Verification Controls |
|||
CVC223 | RNA Medical | each | EUR 396 |
Multi‐Level, 10 ampuls each level (Levels 1, 2, 3) |
|||
CC527 | RNA Medical | each | EUR 169 |
Level 1, 30 ampuls |
|||
CC527-1 | RNA Medical | each | EUR 169 |
Level 2, 30 ampuls |
|||
CC527-2 | RNA Medical | each | EUR 169 |
Level 3, 30 ampuls |
|||
CC527-3 | RNA Medical | each | EUR 169 |
Multi‐Level, 10 ampuls each level (Levels 1, 2, 3) |
|||
QC253 | RNA Medical | each | EUR 221 |
Level 1, 30 ampuls |
|||
QC253-1 | RNA Medical | each | EUR 221 |
Level 2, 30 ampuls |
|||
QC253-2 | RNA Medical | each | EUR 221 |
Level 3, 30 ampuls |
|||
QC253-3 | RNA Medical | each | EUR 221 |
Multi-Level, 10 ampuls each level (Levels 1, 2, 3) |
|||
QC623 | RNA Medical | each | EUR 150 |
Level 1, 30 ampuls |
|||
QC623-1 | RNA Medical | each | EUR 150 |
Level 2, 30 ampuls |
|||
QC623-2 | RNA Medical | each | EUR 150 |
Level 3, 30 ampuls |
|||
QC623-3 | RNA Medical | each | EUR 150 |
Multi-Level, 10 ampuls each level (Levels 1, 2, 3) |
|||
QC823 | RNA Medical | each | EUR 153 |
Level 1, 30 ampuls |
|||
QC823-1 | RNA Medical | each | EUR 153 |
Level 2, 30 ampuls |
|||
QC823-2 | RNA Medical | each | EUR 153 |
Level 3, 30 ampuls |
|||
QC823-3 | RNA Medical | each | EUR 153 |
Multi-Level, 2 bottles each level (Low, Normal, High) |
|||
QCHGB | RNA Medical | each | EUR 121 |
Low, 6 bottles |
|||
QCHGB-1 | RNA Medical | each | EUR 121 |
Normal, 6 bottles |
|||
QCHGB-2 | RNA Medical | each | EUR 121 |
High, 6 bottles |
|||
QCHGB-3 | RNA Medical | each | EUR 121 |
Pre-Treated Syringes (100 per Box) |
|||
T310 | RNA Medical | each | EUR 145 |
Rat WS Brain Region cDNA Panel, Set of any 5 Regions |
|||
RD-201-005-WS | Zyagen | 5X10 reactions | EUR 655 |
Rat WS Brain Region cDNA Panel, Set of any 10 Regions |
|||
RD-201-010-WS | Zyagen | 10X10 reactions | EUR 1091 |
Rat WS Brain Region cDNA Panel, Set of any 15 Regions |
|||
RD-201-015-WS | Zyagen | 15X10 reactions | EUR 1324 |
Rat Brain Region Total Protein Panel, Set of any 5 regions |
|||
RT-201-005 | Zyagen | 5x0.1mg | EUR 567 |
Rat Brain Region Total Protein Panel, Set of any 10 Regions |
|||
RT-201-010 | Zyagen | 10x0.1mg | EUR 858 |
Rat Brain Region Total Protein Panel, Set of any 15 Regions |
|||
RT-201-015 | Zyagen | 15x0.1mg | EUR 1149 |
Brain tumor with matched adjacent normal tissue array |
|||
GL808 | TissueArray | each | EUR 306 |
Description: Brain tumor with matched adjacent normal tissue array, including pathology grade, 80 cases/80 cores, replacing GL801 |
Rat Brain Frozen Coronal Sections Panel, Set of any 7 regions |
|||
RF-201-007 | Zyagen | 7x4 slides | EUR 720 |
Rat Brain Frozen Coronal Sections Panel, Set of any 14 regions |
|||
RF-201-014 | Zyagen | 14X4 slides | EUR 1158 |
Cross match determination (FCXM) |
|||
FCXM-100T | ImmunoStep | 100 test | EUR 806.18 |
Cross match determination (FCXM) |
|||
FCXM-25T | ImmunoStep | 25 test | EUR 412.04 |
Cross match determination (FCXM) |
|||
FCXMPU | ImmunoStep | 0,5 mg | EUR 620.04 |
Rat WS Brain Region Total Protein Panel, Set of any 5 regions |
|||
RT-201-005-WS | Zyagen | 5x0.1mg | EUR 567 |
Rat WS Brain Region Total Protein Panel, Set of any 10 Regions |
|||
RT-201-010-WS | Zyagen | 10x0.1mg | EUR 858 |
Rat WS Brain Region Total Protein Panel, Set of any 15 Regions |
|||
RT-201-015-WS | Zyagen | 15x0.1mg | EUR 1149 |
Rat Kidney and Brain Protein ELISA Kit |
|||
MBS048807-10x96StripWells | MyBiosource | 10x96-Strip-Wells | EUR 6725 |
Rat Kidney and Brain Protein ELISA Kit |
|||
MBS048807-48StripWells | MyBiosource | 48-Strip-Wells | EUR 550 |
Rat Kidney and Brain Protein ELISA Kit |
|||
MBS048807-5x96StripWells | MyBiosource | 5x96-Strip-Wells | EUR 3420 |
Rat Kidney and Brain Protein ELISA Kit |
|||
MBS048807-96StripWells | MyBiosource | 96-Strip-Wells | EUR 765 |
Rat WS Brain Frozen Coronal Sections Panel, Set of any 7 regions |
|||
RF-201-007-WS | Zyagen | 7x4 slides | EUR 720 |
Rat WS Brain Frozen Coronal Sections Panel, Set of any 14 regions |
|||
RF-201-014-WS | Zyagen | 14X4 slides | EUR 1158 |
Human Brain Total RNA |
|||
HR-201 | Zyagen | 0.05mg | EUR 172 |
Dog Brain, Cerebellum RNA |
|||
DR-202 | Zyagen | 0.1mg | EUR 195 |
Dog Brain Genomic DNA |
|||
DG-201 | Zyagen | 0.1mg | EUR 210 |
Cat Brain Genomic DNA |
|||
FG-201 | Zyagen | 0.1mg | EUR 210 |
Pig Brain Genomic DNA |
|||
PG-201 | Zyagen | 0.1mg | EUR 177 |
Tissue, Total RNA, Rat Adult Normal, Brain, BioGenomics |
|||
MBS638727-005mg | MyBiosource | 0.05mg | EUR 435 |
Tissue, Total RNA, Rat Adult Normal, Brain, BioGenomics |
|||
MBS638727-5x005mg | MyBiosource | 5x0.05mg | EUR 1735 |
Human Brain Genomic DNA |
|||
HG-201 | Zyagen | 0.05mg | EUR 210 |
Mouse Brain Genomic DNA |
|||
MG-201 | Zyagen | 0.1mg | EUR 177 |
Sheep Brain Genomic DNA |
|||
SG-201 | Zyagen | 0.1mg | EUR 177 |
Human Brain Genomic DNA |
|||
X11001 | EpiGentek |
|
|
Bovine Brain Genomic DNA |
|||
BG-201 | Zyagen | 0.1mg | EUR 177 |
Equine Brain Genomic DNA |
|||
GE-201 | Zyagen | 0.1mg | EUR 210 |
Rabbit Brain Genomic DNA |
|||
TG-201 | Zyagen | 0.1mg | EUR 177 |
Hamster Brain Genomic DNA |
|||
GA-201 | Zyagen | 0.1mg | EUR 177 |
Chicken Brain Genomic DNA |
|||
GC-201 | Zyagen | 0.1mg | EUR 177 |
Tissue, Genomic DNA, Rat Adult Normal, Brain, BioGenomics |
|||
MBS654502-01mg | MyBiosource | 0.1mg | EUR 575 |
Tissue, Genomic DNA, Rat Adult Normal, Brain, BioGenomics |
|||
MBS654502-5x01mg | MyBiosource | 5x0.1mg | EUR 2440 |
Rat Creatine kinase for muscle and brain -CKMB- |
|||
QY-E11888 | Qayee Biotechnology | 96T | EUR 420 |
Tissue, Array, Human Tumor, Different Types of Tumor, Multi, tissue I (8), brain, control, kidney, control, liver, control, lung, control (matched with Total RNA Northern Blot) (Paraffin) |
|||
MBS639557-5Arrays | MyBiosource | 5Arrays | EUR 805 |
Tissue, Array, Human Tumor, Different Types of Tumor, Multi, tissue I (8), brain, control, kidney, control, liver, control, lung, control (matched with Total RNA Northern Blot) (Paraffin) |
|||
MBS639557-5x5Arrays | MyBiosource | 5x5Arrays | EUR 3465 |
Mouse C57 Brain Total RNA |
|||
MR-201-C57 | Zyagen | 0.05mg | EUR 180 |
Bovine Brain Stem Total RNA* |
|||
BR-215 | Zyagen | 0.05mg | EUR 235 |
Mouse Balbc Brain Total RNA |
|||
MR-201-BLC | Zyagen | 0.1mg | EUR 180 |
Equine Brain, Whole Total RNA |
|||
ER-201 | Zyagen | 0.1mg | EUR 195 |
Pig Brain, Striatum Total RNA* |
|||
PR-214 | Zyagen | 0.05mg | EUR 160 |
Rabbit Brain, whole Total RNA |
|||
TR-201 | Zyagen | 0.1mg | EUR 160 |
Chicken Brain, Whole Total RNA |
|||
CR-201 | Zyagen | 0.1mg | EUR 160 |
Hamster Brain, Whole Total RNA |
|||
AR-201 | Zyagen | 0.1mg | EUR 160 |
Dog Brain, Cerebral Cortex RNA |
|||
DR-210 | Zyagen | 0.1mg | EUR 195 |
Monkey Brain Total RNA, Rhesus |
|||
UR-201 | Zyagen | 0.1mg | EUR 195 |
Mini Pig Brain Genomic DNA |
|||
GN-201 | Zyagen | 0.1mg | EUR 210 |
Brain Dissociation System 7 (Endothelial), Mouse and Rat |
|||
4-20227 | CHI Scientific | ea | EUR 144.82 |
Cat Brain, Cerebellum Total RNA |
|||
FR-202 | Zyagen | 0.1mg | EUR 195 |
Mouse C57 Brain Genomic DNA |
|||
MG-201-C57 | Zyagen | 0.05mg | EUR 210 |
Bovine Brain, Striatum Total RNA* |
|||
BR-214 | Zyagen | 0.05mg | EUR 235 |
Cat Brain, Hippocampus Total RNA* |
|||
FR-203 | Zyagen | 0.05mg | EUR 235 |
Rat Brain and muscle ARNT like 1,BMAL1 ELISA KIT |
|||
E2919Ra-1096T | Jiaxing Korain Biotech Ltd (BT Labs) | 10*96T | EUR 4122 |
Rat Brain and muscle ARNT like 1,BMAL1 ELISA KIT |
|||
E2919Ra-48wells | Jiaxing Korain Biotech Ltd (BT Labs) | 48 wells | EUR 300 |
Rat Brain and muscle ARNT like 1,BMAL1 ELISA KIT |
|||
E2919Ra-596T | Jiaxing Korain Biotech Ltd (BT Labs) | 5*96T | EUR 2061 |
Rat Brain and muscle ARNT like 1,BMAL1 ELISA KIT |
|||
E2919Ra-96wells | Jiaxing Korain Biotech Ltd (BT Labs) | 96 wells | EUR 458 |
Rat Brain and muscle ARNT like 1,BMAL1 ELISA KIT |
|||
JOT-EK2919Ra | Jotbody | 96 wells | Ask for price |
Description: Rat |
The 1982 revised criteria for the classification of systemic lupus erythematosus
The 1971 preliminary criteria for the classification of systemic lupus erythematosus (SLE) were revised and updated to incorporate new immunologic knowledge and improve disease classification. The 1982 revised criteria include fluorescence antinuclear antibody and antibody to native DNA and Sm antigen. Some criteria involving the same organ systems were aggregated into single criteria.
Raynaud’s phenomenon and alopecia were not included in the 1982 revised criteria because of low sensitivity and specificity. The new criteria were 96% sensitive and 96% specific when tested with SLE and control patient data gathered from 18 participating clinics. When compared with the 1971 criteria, the 1982 revised criteria showed gains in sensitivity and specificity.