HiSeq2500 (the upgraded version of Illumina HiSeq2000 sequencing instrument) was launched in 2012. There are 20 Hsieq2500 in BGI and distributed around the world. Compared with HiSeq2000, HiSeq2500 has two sequencing modes: High Output mode and Rapid mode. High Output mode has the same pattern as HiSeq2000 sequencing instrument; there is no change in sequencing reagents and Flow Cell. Rapid mode uses the new Flow Cell and sequencing reagents, shortening sequencing time, sequencing read lengths up to 150bp.

Performance Parameters

Read Length

High Output Mode*

Rapid Mode*

Dual Flow Cell

Single Flow Cell

Dual Flow Cell Run Time

Dual Flow Cell

Single Flow Cell

Dual Flow Cell Run Time

1×36

95-105Gb

47-52Gb

2 days

18-22Gb

9-11Gb

7 hours

2×50

270-300Gb

135-150Gb

5.5 days

50-60Gb

25-30Gb

16 hours

2×100

540-600Gb

270-300Gb

11 days

100-120Gb

50-60Gb

27 hours

2×150

--

--

--

150-180Gb

75-90Gb

40 hours

Performance

2×50bp Q30≥85%

2×100bp Q30≥80%

2×50bp Q30≥85%

2×100bp Q30≥80%

2×150bp Q30≥75%

*Install specifications based on Illumina PhiX control library at supported cluster densities (between 610-678 K clusters/mm2 passing filter using TruSeq v3 or 700-820 K clusters/mm2 passing filter using TruSeq Rapid kits). Run times for rapid run mode correspond to onboard cluster generation(1.5 hours) and sequencing; for high-output mode, run times correspond to sequencing only, not include Flow Cell Preparation time(4-5hours). Performance may vary based on sample quality, cluster density, and other experimental factors. HiSeq2000 instruments prior to serial number 700895, rapid mode to extend the running time of approximately 15 hours when upgraded.

Technical Features

1. Rapid mode uses 2 lane Flow Cell and new sequencing reagents, sequencing time is shortened to a few hours, the sequencing read lengths up to 150bp;

2. Dual flow path, supporting high output and rapid sequencing modes;

3. Deselect lanes to bypass image process, reduce scan time

4. Complete 1 human genome sequencing in one day.  

Sequencing Process

High Output mode:

 Rapid mode:


Field of application

1. Genomics

(1) De novo whole genome sequencing: high-output, high accuracy and low cost;

(2) Whole genome resequencing;

(3) Exome & target regions capture sequencing;

2. Transcriptomics

(1) Transcriptome sequencing

(2) Digital Gene Expression sequencing

(3) Small RNA Sequencing

(4) Degradation sequencing

3. The apparent genomics

(1) Methylation Sequencing

(2) RRBS Sequencing

(3) MeDIP Sequencing

(4) ChIP sequencing