title: PFC_624

status: Public on Jul 31 2014

type: RNA

city: New York

first: Jun

last: Zhu

state: NY

address: One Gustave L Levy, Box 1498

department: Genetics and Genomic Sciences

country: USA

institute: Icahn Medical School at Mount Sinai

description: Dorsolateral prefrontal cortex (DLPFC)

hyb_protocol: Microarrays were incubated at 40C for 48 hours in a rotating carousel. Hybridizations to custom Agilent microarrays were completed as previously described (Hughes et al. Nat Biotech (2001), 19(4):342-7). Microarrays were washed to remove non-specific hybridized sample. Afterwards, microarrays were dried in an ozone-free nitrogen chamber.

scan_protocol: Microarrays were scanned using the Agilent LP2 laser scanner. The scanner output is a Tiff file, which contains the quantitative hybridization data from each individual microarray. The Tiff files were then processed using Rosetta custom feature extraction software.

data_processing: Data were processed using the Rosetta Resolver system. Rosetta's custom feature extraction software performs error modeling before data are loaded into the Resolver system. The Resolver system performs a squeeze operation that combines replicates of the same sequence in an array while applying error weighting. The error weighting consists of adjusting for additive and multiplicative noise. A P-value is generated and propagated throughout the system. The P-value represents the probability that a gene is expressed. The Resolver system allows users to set thresholds, below which genes of a P-value are considered to be significantly expressed. The Resolver system also combines multiple arrays using a squeezing process. If multiple spots reference one sequence, summarization is performed using an error-weighted average as described in Roland Stoughton and Hongyue Dai, Statistical Combining of Cell Expression Profiles. US Patent #6,351,712, February 26, 2002.

molecule: total RNA

organism: Homo sapiens

label_protocol: Samples were amplified and labeled using a custom automated two-cycle version of the MessageAmp II kit from Ambion. Sample amplification, labeling, and microarray processing were performed by the Rosetta Inpharmatics Gene Expression Laboratory in Seattle, Wash.

growth_protocol: Fresh-frozen post-mortem brain tissues.

extract_protocol: Qiagen RNeasy spin columns with DNase treatment.

tag: tissue

value: prefrontal cortex brain

tag: sample type

value: reference

tag: age

value: 57 yrs

tag: gender

value: female

tag: disease status

value: Huntington's disease


title: PFC_623

description: Dorsolateral prefrontal cortex (DLPFC)

value: 38 yrs

value: male


title: PFC_611

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_622

description: Dorsolateral prefrontal cortex (DLPFC)

value: 28 yrs


title: PFC_620

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_621

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_612

description: Dorsolateral prefrontal cortex (DLPFC)

value: 45 yrs


title: PFC_607

description: Dorsolateral prefrontal cortex (DLPFC)

value: 37 yrs


title: PFC_604

description: Dorsolateral prefrontal cortex (DLPFC)

value: 52 yrs


title: PFC_608

description: Dorsolateral prefrontal cortex (DLPFC)

value: 48 yrs


title: PFC_616

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_617

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_609

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_615

description: Dorsolateral prefrontal cortex (DLPFC)

value: 49 yrs


title: PFC_613

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: PFC_600

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 65 yrs


title: PFC_619

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 69 yrs


title: PFC_603

description: Dorsolateral prefrontal cortex (DLPFC)

value: 46 yrs

value: female

value: Huntington's disease


title: PFC_605

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: PFC_618

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_601

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: PFC_614

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_599

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: PFC_610

description: Dorsolateral prefrontal cortex (DLPFC)

value: 26 yrs


title: PFC_602

description: Dorsolateral prefrontal cortex (DLPFC)

value: 50 yrs


title: PFC_606

description: Dorsolateral prefrontal cortex (DLPFC)

value: 37 yrs


title: PFC_593

description: Dorsolateral prefrontal cortex (DLPFC)

value: 45 yrs


title: PFC_597

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: PFC_588

description: Dorsolateral prefrontal cortex (DLPFC)

value: 67 yrs


title: PFC_592

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 59 yrs


title: PFC_596

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 58 yrs


title: PFC_578

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: PFC_590

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_582

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: PFC_586

description: Dorsolateral prefrontal cortex (DLPFC)

value: 57 yrs

value: female

value: Huntington's disease


title: PFC_595

description: Dorsolateral prefrontal cortex (DLPFC)

value: 18 yrs


title: PFC_589

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs

value: male


title: PFC_591

description: Dorsolateral prefrontal cortex (DLPFC)

value: 39 yrs


title: PFC_598

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_585

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_581

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_580

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: PFC_575

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_574

description: Dorsolateral prefrontal cortex (DLPFC)

value: 47 yrs


title: PFC_576

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 66 yrs


title: PFC_584

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 50 yrs


title: PFC_587

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: PFC_572

description: Dorsolateral prefrontal cortex (DLPFC)

value: 35 yrs


title: PFC_583

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_577

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_579

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs

value: female


title: PFC_594

description: Dorsolateral prefrontal cortex (DLPFC)

value: Huntington's disease


title: PFC_573

description: Dorsolateral prefrontal cortex (DLPFC)

value: 44 yrs


title: PFC_568

description: Dorsolateral prefrontal cortex (DLPFC)

value: 45 yrs

value: male


title: PFC_564

description: Dorsolateral prefrontal cortex (DLPFC)

value: 39 yrs


title: PFC_559

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_571

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: PFC_567

description: Dorsolateral prefrontal cortex (DLPFC)

value: 49 yrs


title: PFC_565

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 41 yrs


title: PFC_561

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: PFC_560

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: PFC_563

description: Dorsolateral prefrontal cortex (DLPFC)

value: 81 yrs


title: PFC_569

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: PFC_570

description: Dorsolateral prefrontal cortex (DLPFC)

value: 50 yrs


title: PFC_566

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_558

description: Dorsolateral prefrontal cortex (DLPFC)

value: 42 yrs


title: PFC_553

description: Dorsolateral prefrontal cortex (DLPFC)

value: 85 yrs

value: female

value: Huntington's disease


title: PFC_562

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs

value: male


title: PFC_554

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_551

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: PFC_555

description: Dorsolateral prefrontal cortex (DLPFC)

value: 57 yrs


title: PFC_552

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 82 yrs


title: PFC_550

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: PFC_556

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: PFC_547

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: PFC_548

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_545

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_557

description: Dorsolateral prefrontal cortex (DLPFC)

value: 68 yrs


title: PFC_549

description: Dorsolateral prefrontal cortex (DLPFC)

value: 49 yrs


title: PFC_546

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: PFC_544

description: Dorsolateral prefrontal cortex (DLPFC)

value: 42 yrs


title: PFC_540

description: Dorsolateral prefrontal cortex (DLPFC)

value: 31 yrs

value: female


title: PFC_530

description: Dorsolateral prefrontal cortex (DLPFC)

value: 48 yrs

value: Huntington's disease


title: PFC_529

description: Dorsolateral prefrontal cortex (DLPFC)

value: 37 yrs


title: PFC_543

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: PFC_521

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_539

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_532

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 67 yrs


title: PFC_541

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 47 yrs


title: PFC_527

description: Dorsolateral prefrontal cortex (DLPFC)

value: 21 yrs


title: PFC_534

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_520

description: Dorsolateral prefrontal cortex (DLPFC)

value: 39 yrs


title: PFC_537

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_533

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_538

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_517

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: PFC_522

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_526

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs

value: female


title: PFC_514

description: Dorsolateral prefrontal cortex (DLPFC)

value: Huntington's disease


title: PFC_536

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_535

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_519

description: Dorsolateral prefrontal cortex (DLPFC)

value: 59 yrs


title: PFC_518

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: PFC_531

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs


title: PFC_525

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain


title: PFC_524

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: PFC_515

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 62 yrs


title: PFC_516

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: PFC_512

description: Dorsolateral prefrontal cortex (DLPFC)

value: 42 yrs


title: PFC_507

description: Dorsolateral prefrontal cortex (DLPFC)

value: 52 yrs


title: PFC_509

description: Dorsolateral prefrontal cortex (DLPFC)

value: 46 yrs


title: PFC_510

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_506

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_501

description: Dorsolateral prefrontal cortex (DLPFC)

value: 24 yrs


title: PFC_504

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: PFC_497

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_493

description: Dorsolateral prefrontal cortex (DLPFC)

value: 48 yrs


title: PFC_498

description: Dorsolateral prefrontal cortex (DLPFC)

value: female


title: PFC_500

description: Dorsolateral prefrontal cortex (DLPFC)

value: Huntington's disease


title: PFC_491

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_494

description: Dorsolateral prefrontal cortex (DLPFC)

value: 49 yrs


title: PFC_495

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: PFC_503

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_511

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: PFC_508

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain


title: PFC_492

description: Dorsolateral prefrontal cortex (DLPFC)

value: 68 yrs


title: PFC_489

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: PFC_505

description: Dorsolateral prefrontal cortex (DLPFC)

value: 58 yrs


title: PFC_490

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_502

description: Dorsolateral prefrontal cortex (DLPFC)

value: 45 yrs


title: PFC_496

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_488

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_483

description: Dorsolateral prefrontal cortex (DLPFC)

value: 35 yrs


title: PFC_485

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: PFC_487

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: PFC_486

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_484

description: Dorsolateral prefrontal cortex (DLPFC)

value: 32 yrs


title: PFC_477

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_499

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: PFC_480

description: Dorsolateral prefrontal cortex (DLPFC)

value: 21 yrs


title: PFC_481

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_475

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: PFC_478

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs

value: Huntington's disease


title: PFC_465

description: Dorsolateral prefrontal cortex (DLPFC)

value: female

value: non-demented


title: PFC_472

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: male


title: PFC_469

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 31 yrs


title: PFC_523

description: Dorsolateral prefrontal cortex (DLPFC)

value: 44 yrs


title: PFC_471

description: Dorsolateral prefrontal cortex (DLPFC)

value: 81 yrs


title: PFC_468

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_466

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: PFC_463

description: Dorsolateral prefrontal cortex (DLPFC)

value: 52 yrs


title: PFC_474

description: Dorsolateral prefrontal cortex (DLPFC)

value: 40 yrs


title: PFC_479

description: Dorsolateral prefrontal cortex (DLPFC)

value: 47 yrs


title: PFC_476

description: Dorsolateral prefrontal cortex (DLPFC)

value: 59 yrs


title: PFC_462

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_482

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_470

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_528

description: Dorsolateral prefrontal cortex (DLPFC)

value: 67 yrs


title: PFC_542

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: PFC_464

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_467

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: PFC_461

description: Dorsolateral prefrontal cortex (DLPFC)

value: non-demented


title: PFC_459

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 72 yrs


title: PFC_460

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: male


title: PFC_458

description: Dorsolateral prefrontal cortex (DLPFC)

value: 50 yrs


title: Erythrocytes_Donor_4

city: Philadelphia

first: Paul

middle: F

last: Bray

state: PENNSYLVANIA

address: 1015 Chestnut Street

department: Hematology

institute: Thomas Jefferson University

hyb_protocol: See manufacturer's website (http://www.nanostring.com).

data_processing: miRNA expression levels were normalized to the geometric mean of the 100 highest expressed miRNAs by nSolver software (NanoString Technologies, Seattle, WA, USA).  The probe sets from platelets, T-cells, B-cells and granulocytes were filtered by calculating the background threshold, defined as the mean of the negative control probe values plus 2 standard deviations (SD).

source_name: Erythrocytes

growth_protocol: We extracted total RNA from inmunoselected hematopoietic cells (platelet, T-cell, B-cell, granulocyte and erythrocyte) from the same individuals.  A total of 100ng of total RNA were used for further protocol.

extract_protocol: Trizol

tag: cell type

value: Erythrocytes


title: PFC_455

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_473

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs

value: female

value: Huntington's disease


title: Erythrocytes_Donor_2

scan_protocol: See manufacturer's website (http://www.nanostring.com).


title: PFC_457

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_454

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_451

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: PFC_452

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_449

description: Dorsolateral prefrontal cortex (DLPFC)


title: Erythrocytes_Donor_1

label_protocol: See manufacturer's website (http://www.nanostring.com).


title: Meg01

data_processing: miRNA expression levels were normalized to the geometric mean of the 100 highest expressed miRNAs by nSolver software (NanoString Technologies, Seattle, WA, USA).  The probe sets from hematological cell lines were filtered by calculating the background threshold, defined as the mean of the negative control probe values plus 2 standard deviations (SD)

source_name: Cell Line

growth_protocol: Total RNA from hemathological cell lines (Meg-01, Jurkat, Raji, U937 and K562) was extracted and a total of 100ng of total RNA were used for further protocol.

treatment_protocol: See manufacturer's website (http://www.nanostring.com).

tag: cell line


title: Erythrocytes_Donor_5


title: PFC_448

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: Jurkat

value: Jurkat


title: Raji

value: Raji


title: U937


title: K562


title: PFC_446

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: PFC_443

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs

value: non-demented


title: Granulocytes_Donor_4

source_name: Granulocyte

value: Granulocytes


title: Erythrocytes_Donor_3


title: PFC_444

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: reference

value: 59 yrs


title: PFC_450

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs

value: male


title: PFC_447

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_442

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs

value: female


title: PFC_456

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_441

description: Dorsolateral prefrontal cortex (DLPFC)

value: 68 yrs


title: PFC_453

description: Dorsolateral prefrontal cortex (DLPFC)


title: Granulocytes_Donor_3


title: Granulocytes_Donor_1


title: B_Cell_Donor_3

source_name: B-cell


title: B_Cell_Donor_5


title: T_Cell_Donor_5

source_name: T-cell


title: B_Cell_Donor_4


title: B_Cell_Donor_2


title: PFC_439

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: PFC_440

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: Granulocytes_Donor_2


title: B_Cell_Donor_1


title: T_Cell_Donor_1


title: PFC_438

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: T_Cell_Donor_2


title: PFC_435

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: PFC_432

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: PFC_437

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_433

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_434

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs

value: non-demented


title: Platelets_Donor_5

source_name: Platelet

value: Platelet


title: T_Cell_Donor_3


title: Platelets_Donor_4


title: Platelets_Donor_1


title: Platelets_Donor_2


title: PFC_436

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: reference


title: Platelets_Donor_3


title: PFC_423

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: PFC_426

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs

value: male


title: PFC_513

description: Dorsolateral prefrontal cortex (DLPFC)

value: 49 yrs

value: Huntington's disease


title: PFC_424

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_428

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: PFC_429

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_430

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_427

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: PFC_431

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: PFC_425

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: PFC_422

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs

value: female


title: PFC_420

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs

value: non-demented


title: PFC_419

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: reference


title: PFC_421

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_418

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs


title: PFC_415

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs

value: male


title: Burkholderia cenocepacia_AU16949_3

type: genomic

city: East Lansing

first: erick

last: cardenas

state: Michigan

address: 540 Plant and Soil Sciences Building

institute: Michigan State University

description:
set3
a2391_AU16949-3_647_pmt860_analyzed.txt

hyb_protocol: Dried DNAs from two isolates labeled with each fluorophore were resuspended together in hybridization buffer (6x SSPE, 23% formamide, and 0.05% Tween 20), heated for 5 min at 95°C, and cooled on ice for 5 min before loading onto the arrays. Coverslips were rinsed with 2% SDS, followed by water and then 100% ethanol. After two more washes with water, coverslips were overlaid on the slide to cover both arrays. Covered slides were deposited in hybridization chambers and incubated in a 48°C water bath for 16-20 h. Arrays were then sequentially washed in 6X SSPE for 2 min at 48°C and 1X SSPE for 2 min at 48°C, and then quickly dipped ten times in 0.25X SSPE at room temperature before drying by centrifugation at 2000 xg for 30 s.

scan_protocol: Arrays were scanned in an Axon 4000B scanner (Molecular Devices, Inc., Sunnyvale, CA) using the Genepix v5.1 software and a 5 μm pixel size. PMT values were customized for each channel to obtain the complete range of intensities. Images were saved in TIFF format. Before extracting data, spots were reviewed and flagged as unreadable if scratches, dust or salts precipitates were present. Data were extracted from both channels, but each channel was treated independently in the final analysis

data_processing: Global background, calculated as 5% median of the intensity of all target probes, was subtracted from each spot intensity. Arrays were then normalized using a set of 159 probes from 78 genes whose sequences were exact matches in all 5 of the genomes used for the array design.  The median spot intensity for the group of conserved probes was arbitrarily set to 10,000 and applied as a correction factor to each array. Probes with adjusted signal intensities greater than 1594 units. Data from independent hybridization reactions were consolidated to a single present/absent call for each probe, with present being defined as at least 50% of all replicate spots being called present. Finally, genes were called present if at least 50% of the probes targeted to that element were called present.

label: Alexa Dye 647

molecule: genomic DNA

organism: Burkholderia cenocepacia

source_name: Pure culture

label_protocol: Four micrograms of bacterial genomic DNA were labeled with Alexa Fluor 555 or Alexa Fluor 647 ester dyes using the BioPrime Plus Array CGH Indirect Genomic Labeling System (Invitrogen Corp., Carlsbad, CA) following the manufacturer’s specifications with two modifications. In place of ethanol precipitation, DNA was dried for 2 h under medium heat after Klenow amplification using the Savant DNA 120 vacuum centrifuge (Thermo Scientific, Asheville, NC), and DNA was completely dried after dye incorporation for 2 h by vacuum centrifugation with no heat.

extract_protocol: Bacteria were recovered from frozen stock by culturing on Mueller-Hinton (MH) agar overnight at 37 oC. Bacteria removed from agar were suspended in DNase-, RNase-free water, and genomic DNA was isolated using the Puregene system (Qiagen Inc., Valencia, CA) according to the manufacturer’s instructions with the following modifications.  Proteinase K was added to a final concentration of 200 µg/ml prior to incubating cell lysates at 80oC for 5 min, the final concentration of RNAse was increased to 25 µg/ml, and precipitated proteins were removed by course filter through a 1 ml syringe packed to the 0.2 ml demarcation with glass wool prior to the clarifying centrifugation. Pelleted DNA was resuspended in DNase-, RNase-free water, and DNA quality was assessed by A260/A280 ratios and agarose gel electrophoresis.

tag: strain

tag: group

tag: replicate


title: Burkholderia cenocepacia_AU1644_31

description:
set3
2919-AU11375-30_647pmt840-AU1644-31_0555_with_SNR.txt

label: Alexa Dye 555

value: Sporadic IIIA


title: Burkholderia cenocepacia_AU1551_2

description:
set3
a2407_AU5382-2_647_pmt950_AU1551-2_555_pmt820.txt


title: PFC_414

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_417

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs


title: Burkholderia cenocepacia_AU1644_30

description:
set3
2903-AU1644-30_647pmt850-AU9277-31_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU15723_2

description:
set3
2902-AU15723-2_647pmt870-AU9096-2_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU16949_2

description:
set3
2862_AU2362-18_647_pmt939_AU16949-2_555_pmt710_with_SNR.txt


title: Burkholderia cenocepacia_AU1551_1

description:
set3
a2688_AU1551-1_647_pmt930_AU6362-10_555_pm_0610_with_SNR.txt


title: PFC_412

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_416

description: Dorsolateral prefrontal cortex (DLPFC)

value: 68 yrs


title: PFC_413

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: Burkholderia seminalis_AU1751_1

description:
set3
3284_AU1751-1_647_pmt990_AU2877-2_555_pmt850.txt

organism: Burkholderia seminalis

value: Bsem


title: Burkholderia cenocepacia_AU15723_1

description:
set3
2921-AU6699-11_647pmt760-AU15723-1_0555.txt


title: Burkholderia cenocepacia_AU1539_26

description:
set3
2954_AU0820-18_647_pmt1000_AU1539-26_555_pmt890_wiht_SNR.txt


title: PFC_409

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: PFC_411

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_408

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU1538_2

description:
set3
2415_AU1538-2+647_pmt890_AU0208-3_555_pmt710_with_SNR.txt


title: PFC_410

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: Burkholderia cenocepacia_AU1539_25

description:
set3
2952_AU1539-25_647_pmt910_AU3047-B-19_555_pmt690_with_SNR.txt


title: Burkholderia cenocepacia_AU1538_20

description:
set3
2920_HI3279-20_647_pmt770_AU1538-20_555_pmt770_with_SNR.txt


title: PFC_407

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_445

description: Dorsolateral prefrontal cortex (DLPFC)

value: 50 yrs


title: Burkholderia cenocepacia_AU1526_3

description:
set3
2727_AU14381-3_647pmt939_AU1526-3_555pm_0620_with_SNR.txt

value: Midwest


title: Burkholderia cenocepacia_AU1529_2

description:
set3
3284_AU14848-18_647_pmt960_AU1529-2_555_pmt960.txt


title: PFC_406

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs

value: non-demented


title: PFC_403

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: reference

value: 53 yrs


title: Burkholderia cenocepacia_AU1529_1

description:
set3
3282_AU1529-1_647_pmt1000_AU2765-26_555_pmt880.txt


title: PFC_404

description: Dorsolateral prefrontal cortex (DLPFC)

value: 57 yrs

value: male


title: PFC_400

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU1480_11

description:
set3
2415_AU1480-11_647_pmt960_AU9448-10_555_pmt660.txt

value: Sporadic IIIA


title: PFC_405

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: PFC_399

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: Burkholderia cenocepacia_AU1529_25

description:
set3
2957-AU1529-25_647pmt1000_555_AU9722-25_pmt930.txt


title: Burkholderia cenocepacia_AU14848_18

value: PHDC


title: PFC_398

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU1480_10

description:
set3
2727-AU1268-1_647pmt930-AU1480-10_555pmt60-620_with_SNR.txt


title: PFC_402

description: Dorsolateral prefrontal cortex (DLPFC)

value: 58 yrs

value: female


title: Burkholderia cenocepacia_AU1526_2

description:
set3
2396_AU1526-2_647_pmt810_AU0465-b-2_555_pmt740_analyzed_with_SNR.txt


title: Burkholderia cenocepacia_AU14802_11

description:
set3
2675_AU14802-11_647_pmt850_AU10094-10_555_pmt680.txt


title: PFC_401

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: Burkholderia cenocepacia_AU1463_10

description:
set3
2414_AU10137-11_647_pmt950_AU1463-10_555_pmt720.txt


title: Burkholderia cenocepacia_AU14802_18

description:
set3
2683_AU14802-18_647_pmt900_HI2701-18_555_pmt630_with_SNR.txt


title: Burkholderia cenocepacia_AU14560_12

description:
set3
2398_AU14560-12_647_pmt1000_PC184-12_555_pmt860_with_SNR.txt


title: Burkholderia cenocepacia_AU14560_10

description:
set3
2860_AU0062-18_647_pmt850_AU14560-10_555_pmt670_with_SNR.txt


title: PFC_395

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: PFC_394

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: Burkholderia cenocepacia_AU1463_11

description:
set3
a2679_AU1463-11_647_pmt939_AU0411-12_555_pm_0641_with_SNR.txt


title: PFC_396

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs


title: PFC_397

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: Burkholderia cenocepacia_AU1450_4

description:
set3
a2402_HI2629-4_647_pmt870_AU1450-4_555_pmt740_with_SNR.txt

value: Midwest


title: Burkholderia cenocepacia_AU14381_12

description:
set3
2397_AU14381-12_647+pmt850_HI3286-2_555_pmt680_wiht_SNR.txt


title: PFC_393

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: non-demented


title: PFC_391

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: Burkholderia cenocepacia_AU14381_10

description:
set3
2684_AU14381-10_647_pmt850_AU5229-12_555_pmt590.txt


title: PFC_388

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: Burkholderia cenocepacia_AU14206_20

description:
set3
2921_AU14206-20_647_pmt930_HI3278-20_555_pmt670_with_SNR.txt


title: PFC_390

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs

value: male


title: Burkholderia cenocepacia_AU14126_2

description:
set3
a2675_HI2762-1_647_pmt920_AU14126-2_555_pm_0590_with_SNR.txt

value: Sporadic IIIA


title: PFC_385

description: Dorsolateral prefrontal cortex (DLPFC)

value: 59 yrs


title: Burkholderia cenocepacia_AU14067_20

description:
set3
2903_AU14067-20_647_pmt880_AU11555-8_555_pmt880_wiht_SNR.txt


title: Burkholderia cenocepacia_AU14381_3

description:
set3
2727_AU14381-3_647pmt939_AU1526-3_555pm_0620_with_SNR.txt


title: Burkholderia cenocepacia_AU14126_3

description:
set3
2396-AU14126-3_635_pmt970-AU0649-3_532_pmt860.txt


title: PFC_383

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU1361_3

description:
set2
2398_AU1361-3_647_pmt1000_AU2615-3_555_pmt900_with_SNR.txt


title: PFC_387

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs


title: PFC_379

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: Burkholderia cenocepacia_AU1367_12

description:
set2
2688_AU1367-12_647_pmt939_AU1286-11_555_pmt670.txt


title: PFC_389

description: Dorsolateral prefrontal cortex (DLPFC)

value: 58 yrs


title: PFC_381

description: Dorsolateral prefrontal cortex (DLPFC)

value: 57 yrs


title: PFC_382

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs

value: female


title: PFC_384

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: Burkholderia cenocepacia_AU14067_21

description:
set3
2902_AU4259-B-20_647_pmt900_AU14067-21_555_pmt750_with_SNR.txt


title: Burkholderia cenocepacia_AU1367_18

description:
set2
2863_AU2002-1_647_pmt939_AU1367-18_555_pmt600_use_555_only.txt


title: Burkholderia cenocepacia_AU13051_2

description:
set2
a2682_AU13051-2_647_pmt939_AU3942-10_555_pm_0620_with_SNR.txt


title: Burkholderia cenocepacia_AU1361_0

description:
set2
a2744_AU7195-2_647_pmt910_AU1361_555_pm_0620_with_SNR.txt


title: Burkholderia cenocepacia_AU13670_2

description:
set3
3283_AU3397-36_647_pmt940_AU13670-2_555_pmt850.txt

value: PHDC


title: PFC_380

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU13051_3

description:
set2
a2412_AU0116-3_647_pmt800_AU13051-3_555_pmt800_with_SNR.txt


title: PFC_386

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: PFC_378

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 60 yrs


title: T_Cell_Donor_4


title: PFC_377

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: non-demented


title: Burkholderia cenocepacia_AU1286_11


title: PFC_376

description: Dorsolateral prefrontal cortex (DLPFC)

value: 50 yrs


title: Burkholderia cenocepacia_AU1286_10

description:
set2
2723-AU1286-10_647pmt939-AU0009-11_555pmt610_with_SNR.txt


title: PFC_372

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: PFC_373

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: Burkholderia cenocepacia_AU1268_18

description:
set2
2861_AU10094-18_647_pmt900_AU1268-18_555_pmt560_with_SNR.txt


title: PFC_392

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: PFC_374

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: Burkholderia cenocepacia_AU12848_2

description:
set2
a2409_AU0627_647_pmt950_AU12848-2_555_pmt870.txt

value: Sporadic IIIA


title: Burkholderia cenocepacia_AU12848_1

description:
set2
a2681_AU12848-1_647_pmt920_AU8830-10_555_pm_0610_with_SNR.txt


title: PFC_375

description: Dorsolateral prefrontal cortex (DLPFC)

value: 106 yrs


title: Burkholderia cenocepacia_AU1268_2

description:
set2
2723-AU0902-3_647pmt939-AU1268-2_555pmt580_with_SNR.txt


title: PFC_365

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: Burkholderia cenocepacia_AU1268_3

description:
set2
2418_AU1268-3_647_pmt920_AU3018-3_555_pmt720_with_SNR.txt


title: Burkholderia cenocepacia_AU1189_12

description:
set2
2399_AU8830-3_647_pmt800_AU1189-12_555_pmt710_analyzed_with_SNR.txt


title: Burkholderia cenocepacia_AU1189_3

description:
set2
a2694_AU1189-3_647_pmt939_HI3520-B-3_555_pmt610_with_SNR.txt


title: PFC_369

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_370

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: PFC_371

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: Burkholderia cenocepacia_AU12643_3

description:
set2
a2406_AU12643-3_647_pmt880_AU6550-3_555_pmt820.txt


title: Burkholderia cenocepacia_AU1189_11

description:
set2
2708_AU6791-11_647pmt920-AU1189-11_555pmt620_with_SNR.txt


title: PFC_368

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs

value: female


title: Burkholderia cenocepacia_AU12643_1

description:
set2
a2674_AU0208-2_647_pmt820_AU12643-1_555_pm_0630_with_SNR.txt


title: PFC_366

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 68 yrs


title: PFC_367

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: PFC_364

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs

value: non-demented


title: Burkholderia cenocepacia_AU11555_9

description:
set2
2919_AU11555-9_647_pmt770_AU9410-20_555_pmt770_with_SNR.txt


title: PFC_362

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs

value: male


title: Burkholderia cenocepacia_AU11375_31

description:
set2
2904-AU0756-30-647pmt820-AU11375-31_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU1450_1

description:
set3
2860_AU6888-1_647_pmt939_AU1450-1_555_pmt690_with_SNR.txt

value: Midwest


title: Burkholderia cenocepacia_AU11555_8

description:
set2
2903_AU14067-20_647_pmt880_AU11555-8_555_pmt880_wiht_SNR.txt


title: PFC_359

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_361

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU1138_12

description:
set2
2679_AU2348-11_647_pmt900_AU1138-12_555_pmt730.txt


title: PFC_363

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_360

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_358

description: Dorsolateral prefrontal cortex (DLPFC)

value: 55 yrs


title: Burkholderia cenocepacia_AU11230_3

description:
set2
2416_AU11230-3_647_pmt850_AU0902-2_555_pmt750_with_SNR.txt

value: Sporadic IIIA


title: Burkholderia cenocepacia_AU11364_25

description:
set2
2953_AU11364-25_647_pmt1000_AU10463-26_555_pmt1000_rescanned10-_wiht_SNR.txt


title: Burkholderia cenocepacia_AU1138_10

description:
set2
a2683_AU1138-10_647_pmt939_AU3820-15_555_pm_0620_with_SNR.txt


title: PFC_355

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs


title: PFC_353

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: Burkholderia cenocepacia_AU11364_26

description:
set2
2952_AU10463-25_647_pmt980_AU11364-26_555_pmt1000_rescanned10-2_with_SNR.txt


title: Burkholderia cenocepacia_AU11360_2

description:
set2
2673_AU2738-1_647_pmt800_AU11360-2_555_pmt660.txt


title: PFC_354

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU11230_2

description:
set2
a2673_AU5382-3_647_pmt930_AU11230-2_555_pm_0640_with_SNR.txt


title: PFC_357

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: Burkholderia cenocepacia_AU1100_3

description:
set2
2393-HI2617-3_635_pmt970-AU1100-3_532_pmt880_analyzed_with_SNR.txt


title: Burkholderia cenocepacia_AU11230_1

description:
set2
a2694_HI2629-2_555_pmt860_AU11230-1_647pmt610_with_SNR.txt


title: Burkholderia cenocepacia_AU11375_30

description:
set2
2919-AU11375-30_647pmt840-AU1644-31_0555_with_SNR.txt


title: PFC_351

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: PFC_356

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_349

description: Dorsolateral prefrontal cortex (DLPFC)

value: 52 yrs


title: PFC_352

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 66 yrs

value: female


title: Burkholderia cenocepacia_AU1054_10

description:
set2
a2681_AU1054-10_647_pmt900_AU0347-12_555_pmt580.txt

value: PHDC


title: Burkholderia cenocepacia_AU1083_4

description:
set2
a2408_AU0065-3_647_pmt900_AU1083-3_555_pmt800_with_snr.txt


title: Burkholderia cenocepacia_AU1100_1

description:
set2
2860_AU1100-1_647_pmt939_AU2615-18_555_pmt680_with_SNR.txt


title: Burkholderia cenocepacia_AU1083_18

description:
set2
2862_AU0604-18_647_pmt939_AU1083-18_555_pmt670_with_SNR.txt


title: PFC_345

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 22 yrs

value: non-demented


title: PFC_347

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs

value: male


title: PFC_350

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: Burkholderia cenocepacia_AU10463_26


title: PFC_346

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_344

description: Dorsolateral prefrontal cortex (DLPFC)

value: 51 yrs


title: PFC_348

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: Burkholderia cenocepacia_AU13032_0

description:
set2
3285_AU7320-1_647_pmt940_AU13032-0_555_pmt790.txt

value: Sporadic IIIA


title: Burkholderia cenocepacia_AU1054_2

description:
set2
2398_AU1054-2_647_pmt850_AU6791-12_555_pmt730_withSNR.txt


title: Burkholderia cenocepacia_AU13032_26

description:
set2
3278_AU13032-26_647_pmt1000_AU2029-2_555_pmt940.txt


title: PFC_340

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_343

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: PFC_339

description: Dorsolateral prefrontal cortex (DLPFC)

value: 68 yrs


title: PFC_342

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs


title: Burkholderia cenocepacia_AU10396_2

description:
set2
2724-AU10396-2_647pmt939-AU5229-15_555pmt580_with_SNR.txt


title: PFC_341

description: Dorsolateral prefrontal cortex (DLPFC)

value: 58 yrs


title: Burkholderia cenocepacia_AU10463_25


title: PFC_337

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain


title: Burkholderia cenocepacia_AU10137_11

description:
set2
2414_AU10137-11_647_pmt950_AU1463-10_555_pmt720.txt


title: PFC_338

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_333

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_336

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: PFC_330

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs

value: female


title: Burkholderia cenocepacia_AU0986_2

description:
set2
2414_AU0862-2_647_pmt820_AU0986-2_555_pmt790_with_SNR.txt


title: Burkholderia cenocepacia_AU10396_1

description:
set2
2725-AU6362-15_647pmt939-AU10396-1_555pmt580_with_SNR.txt

value: PHDC


title: PFC_335

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: non-demented


title: Burkholderia cenocepacia_AU0902_2

description:
set2
2416_AU11230-3_647_pmt850_AU0902-2_555_pmt750_with_SNR.txt


title: Burkholderia cenocepacia_AU0918_3

description:
set2
2674_HI3543-8_647_pmt939_AU0918-3_555_pmt650_with_SNR.txt

value: Midwest


title: PFC_334

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: Burkholderia cenocepacia_AU0862_1

description:
set2
2726-AU3237-15_647pmt939-AU0826-1_555pmt580_with_SNR.txt


title: Burkholderia cenocepacia_AU0820_18

description:
set2
2954_AU0820-18_647_pmt1000_AU1539-26_555_pmt890_wiht_SNR.txt


title: Burkholderia cenocepacia_AU0986_1

description:
set2
a2676_AU0986-1_647_pmt930_AU7320-2_555_pm_0610_with_SNR.txt


title: Burkholderia cenocepacia_AU0787_9

description:
set2
2904_AU0787-9_647_pmt_930_AU5951-20_555_pmt700_with_SNR.txt


title: PFC_331

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: Burkholderia cenocepacia_AU10094_18

description:
set2
2861_AU10094-18_647_pmt900_AU1268-18_555_pmt560_with_SNR.txt


title: PFC_329

description: Dorsolateral prefrontal cortex (DLPFC)

value: 57 yrs


title: PFC_332

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_328

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0820_19

description:
set2
2955_AU0204-25_647_pmt900_AU0820-19_555_pmt850_with_SNR.txt


title: Burkholderia cenocepacia_AU10094_10

description:
set2
2675_AU14802-11_647_pmt850_AU10094-10_555_pmt680.txt


title: Burkholderia cenocepacia_AU0862_2

value: Sporadic IIIA


title: PFC_325

description: Dorsolateral prefrontal cortex (DLPFC)

value: 67 yrs


title: Burkholderia cenocepacia_AU0787_8

description:
set2
2905_AU0918-8_647_pmt1000_AU0787-8_555_pmt850_wiht_SNR.txt


title: PFC_326

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_327

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs


title: Burkholderia cenocepacia_AU10137_10

description:
set2
A2689_AU3237-11_647_pmt939_AU10137-10_555_pm_0620_with_SNR.txt


title: Burkholderia cenocepacia_AU0902_3

description:
set2
2723-AU0902-3_647pmt939-AU1268-2_555pmt580_with_SNR.txt


title: Burkholderia cenocepacia_AU0918_8


title: PFC_322

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 58 yrs


title: Burkholderia cenocepacia_AU0776_10

description:
set2
2906_AU0776-10_647_pmt1000_AU0005-2_555_pmt850_with_SNR.txt


title: Burkholderia cenocepacia_AU0756_31

description:
set2
2921-AU9307-30_647pmt810-AU0756-31_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU0776_11

description:
set2
2409_AU6362-11_647_pmt980_AU0776-11_555_pmt1000_with_SNR.txt


title: Burkholderia cenocepacia_AU0756_30

description:
set2
2904-AU0756-30-647pmt820-AU11375-31_0555_with_SNR.txt


title: PFC_323

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0649_30

description:
set2
2905-AU0649-30-647pmt880-AU5417-30_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU0649_3

description:
set2
2396-AU14126-3_635_pmt970-AU0649-3_532_pmt860.txt


title: PFC_318

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0627_0

description:
set2
a2409_AU0627_647_pmt950_AU12848-2_555_pmt870.txt


title: Burkholderia cenocepacia_AU0627_1

description:
set2
2951_AU0627-1_647_pmt780_AU0065-1_555_0750.txt


title: PFC_319

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_316

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: Burkholderia cenocepacia_AU0604_12

description:
set2
a2689_AU0604-12_647_pmt920_HI2424-C-3_555_pmt610_with_SNR.txt


title: PFC_321

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: Burkholderia cenocepacia_AU0604_18

description:
set2
2862_AU0604-18_647_pmt939_AU1083-18_555_pmt670_with_SNR.txt


title: PFC_317

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0411_15

description:
set2
2728-AU0465-B-1_647pmt930-AU0411-15_555pmt60-620_with_SNR.txt


title: PFC_311

description: Dorsolateral prefrontal cortex (DLPFC)

value: 56 yrs

value: female


title: Burkholderia cenocepacia_AU0465_B1

value: PHDC


title: Burkholderia cenocepacia_AU0347_12

description:
set2
a2681_AU1054-10_647_pmt900_AU0347-12_555_pmt580.txt


title: PFC_314

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 59 yrs

value: non-demented


title: PFC_312

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs

value: male


title: PFC_313

description: Dorsolateral prefrontal cortex (DLPFC)

value: 95 yrs


title: Burkholderia cenocepacia_AU0391_18

description:
set2
2861_AU0391-18_647_AU6550-1_0555_with_SNR.txt


title: PFC_320

description: Dorsolateral prefrontal cortex (DLPFC)

value: 60 yrs


title: PFC_315

description: Dorsolateral prefrontal cortex (DLPFC)

value: 53 yrs


title: PFC_308

description: Dorsolateral prefrontal cortex (DLPFC)

value: 90 yrs

value: Alzheimer's disease


title: Burkholderia cenocepacia_AU0465_B2

description:
set2
2396_AU1526-2_647_pmt810_AU0465-b-2_555_pmt740_analyzed_with_SNR.txt


title: Burkholderia cenocepacia_AU0411_10

description:
set2
2682_AU9512-12_647_pmt939_AU0411-11_555_pmt630.txt

value: Sporadic IIIA


title: PFC_309

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 91 yrs


title: Burkholderia cenocepacia_AU0391_3

description:
set2
a2390_AU0391-3_647_pmt930_HI2631-3_555_pmt740_analyzed.txt


title: Burkholderia cenocepacia_AU0411_12

description:
set2
a2679_AU1463-11_647_pmt939_AU0411-12_555_pm_0641_with_SNR.txt


title: Burkholderia cenocepacia_AU0347_11

description:
set2
2724_AU0347-11-647pmt939-AU9512-11_555pmt630_with_SNR_1.txt


title: PFC_310

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_307

description: Dorsolateral prefrontal cortex (DLPFC)

value: 93 yrs


title: PFC_304

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs

value: female


title: PFC_306

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 79 yrs


title: PFC_303

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_300

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs


title: PFC_301

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0332_30

description:
set2
2920-AU0332-30_647pmt800-AU6690-31_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU0304_A2

description:
set2
2731_AU0304-A-2_647pmt900_AU6791-2_555pm_0620_with_SNR.txt

value: PHDC


title: Burkholderia cenocepacia_AU0332_31

description:
set2
2922-AU6880-30_647pmt840-AU0332-31_0555_with_SNR.txt


title: Burkholderia cenocepacia_AU0279_26

description:
set2
2923_AU1790-25_647_pmt1000_AU0279-26_555_pmt880_with_SNR.txt

value: Midwest


title: Burkholderia cenocepacia_AU0280_1

description:
set2
2691_AU0280-1_647_pmt939_HI3520-B-2_555_pmt690_with_SNR.txt


title: PFC_302

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs

value: male


title: PFC_298

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: Burkholderia cenocepacia_AU0243_12

description:
set2
2719-HI2767-11_647pmt939-AU0243-12_555pmt580_with_SNR.txt


title: PFC_299

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0208_3

description:
set2
2415_AU1538-2+647_pmt890_AU0208-3_555_pmt710_with_SNR.txt


title: PFC_296

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: Burkholderia cenocepacia_AU0204_26

description:
set2
2953_AU0068-25_647_pmt950_AU0204-26_555_pmt730_wiht_SNR.txt


title: Burkholderia cenocepacia_AU0243_10

description:
set2
2720-AU0243-10_647pmt939-AU0007-2_555pmt590_with_SNR.txt


title: Burkholderia cenocepacia_AU0204_25

description:
set2
2955_AU0204-25_647_pmt900_AU0820-19_555_pmt850_with_SNR.txt


title: Burkholderia cenocepacia_AU0208_2

description:
set2
a2674_AU0208-2_647_pmt820_AU12643-1_555_pm_0630_with_SNR.txt


title: Burkholderia cenocepacia_AU0279_25

description:
set2
2920_AU0279-25_647_pmt830_AU3095-19_555_pmt780_with_SNR.txt


title: PFC_294

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs

value: Alzheimer's disease


title: PFC_295

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 70 yrs


title: PFC_293

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: PFC_297

description: Dorsolateral prefrontal cortex (DLPFC)

value: 94 yrs


title: PFC_324

description: Dorsolateral prefrontal cortex (DLPFC)

value: 52 yrs

value: non-demented


title: Burkholderia cenocepacia_AU0304_3

description:
set2
a2691_HI2712-B-3_647_pmt939_AU0304-3_555_pmt630.txt


title: PFC_291

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 66 yrs


title: PFC_292

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0199_12

description:
set2
2720-AU5229-11_647pmt910-AU0199-12_555pmt620_with_SNR.txt


title: PFC_290

description: Dorsolateral prefrontal cortex (DLPFC)

value: 89 yrs


title: Burkholderia cenocepacia_AU0199_11

description:
set2
2683_AU3488-10_647_pmt900_AU0199-11_555_pmt630.txt


title: PFC_287

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: Burkholderia cenocepacia_AU0129_25

description:
set2
2958-AU0129-25_647pmt1000_AU8260-25_555pmt850.txt

value: Midwest


title: Burkholderia cenocepacia_AU0199_10

description:
set2
a2692_AU0199-10_555_pmt910_HI3550-1_647_pmt610_with_SNR.txt


title: Burkholderia cenocepacia_AU0116_3

description:
set2
a2412_AU0116-3_647_pmt800_AU13051-3_555_pmt800_with_SNR.txt

value: Sporadic IIIA


title: Burkholderia cenocepacia_AU0089_20

description:
set2
2907_AU5209-20_647_pmt930_AU0089-20_555_pmt820.txt


title: Burkholderia cenocepacia_AU0089_A3

description:
set2
a2401_AU0089-A-3_647_pmt880_AU2480-4_555_pmt710_wiht_SNR.txt


title: PFC_288

description: Dorsolateral prefrontal cortex (DLPFC)

value: female


title: Burkholderia seminalis_AU0086_2

description:
set2
3285_HI2699-18_647_pmt920_AU0086-2_555_pmt880.txt

value: Bsem


title: PFC_289

description: Dorsolateral prefrontal cortex (DLPFC)

value: 85 yrs


title: PFC_284

description: Dorsolateral prefrontal cortex (DLPFC)

value: 98 yrs

value: male


title: PFC_286

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 84 yrs

value: Alzheimer's disease


title: Burkholderia seminalis_AU0086_1

description:
set2
3279_AU0086-1_647_pmt870_AU0060-2_555_pmt820.txt


title: Burkholderia cenocepacia_AU0068_25


title: PFC_285

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: PFC_283

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: PFC_282

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: Burkholderia cenocepacia_AU0116_2

description:
set2
a2742_AU0116-2_647_pmt939_AU2367-2_555_pm_0630_with_SNR.txt


title: Burkholderia cenocepacia_AU0068_1

description:
set2
2906_AU2855-1_647_pmt930_AU0068-1_555_pmt710_with_SNR.txt


title: Burkholderia cenocepacia_AU0065_1

description:
set2
2951_AU0627-1_647_pmt780_AU0065-1_555_0750.txt


title: PFC_279

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 76 yrs


title: PFC_280

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs


title: Burkholderia cenocepacia_AU0065_3

description:
set2
a2408_AU0065-3_647_pmt900_AU1083-3_555_pmt800_with_snr.txt


title: PFC_305

description: Dorsolateral prefrontal cortex (DLPFC)

value: 89 yrs


title: PFC_277

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0062_18

description:
set2
2860_AU0062-18_647_pmt850_AU14560-10_555_pmt670_with_SNR.txt

value: Midwest


title: Burkholderia seminalis_AU0060_2


title: Burkholderia seminalis_AU0060_3

description:
set2
3281_AU0060-3_647_pmt970_HI2490_555_pmt930.txt


title: Burkholderia seminalis_AU0028_3

description:
set2
3285_AU2283-2_647_PMT990_AU0028-3_555_PMT850.txt


title: Burkholderia cenocepacia_AU0009_12

description:
set2
2680_AU0009-12_647_pmt939_AU5792-12_555_pmt610.txt


title: PFC_281

description: Dorsolateral prefrontal cortex (DLPFC)

value: 92 yrs


title: PFC_276

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_278

description: Dorsolateral prefrontal cortex (DLPFC)

value: female


title: Burkholderia seminalis_AU0028_2

description:
set2
3278_AU0028-2_647_pmt990_AU2283-3_555_pmt980.txt

value: Bsem


title: PFC_275

description: Dorsolateral prefrontal cortex (DLPFC)

value: 88 yrs


title: Burkholderia cenocepacia_AU0280_2

description:
set2
2694_AU2205-1_647_pmt939_AU0280-2_555_pmt650_with_SNR.txt


title: PFC_270

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs

value: male


title: Burkholderia cenocepacia_AU0009_11

description:
set2
2723-AU1286-10_647pmt939-AU0009-11_555pmt610_with_SNR.txt


title: PFC_274

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 69 yrs


title: PFC_269

description: Dorsolateral prefrontal cortex (DLPFC)

value: Alzheimer's disease


title: Burkholderia cenocepacia_AU0007_20

description:
set2
2901_AU0007-20_647_pmt870_AU2738-20_555_pmt810_with_SNR.txt


title: PFC_271

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: Burkholderia cenocepacia_AU0005_2

description:
set2
2906_AU0776-10_647_pmt1000_AU0005-2_555_pmt850_with_SNR.txt

value: Sporadic IIIA


title: PFC_273

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 73 yrs


title: PFC_268

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_AU0007_2

description:
set2
2720-AU0243-10_647pmt939-AU0007-2_555pmt590_with_SNR.txt


title: Aspergillus nidulans grown in suberin media, for six days, biological rep. 3

city: Lisboa

first: Cristina

middle: Silva

last: Pereira

address: Rua da Quinta Grande nº6

country: Portugal

institute: Instituto de Tecnologia Química e Biológica (ITQB)

description:
Two days in glucose media, plus six days in suberin media
Gene expression data from Aspergillus nidulans grown in glucose media for two days, biological rep. 1

hyb_protocol: A total of 200µl of the hybridisation mixture containing 10µg of fragmented cRNA was hybridised on arrays for 16 hours at 45 °C.  Standard post hybridisation washes and double-stain protocols (FS450_0001) were used on an Affymetrix GeneChip Fluidics Station 450, in conjunction with the GeneChip Hybridisation Wash and Stain Kit (Affymetrix).

scan_protocol: Arrays were scanned on an Affymetrix GeneChip scanner 3000 7G.

data_processing: Subsequent analysis was carried out with DNA-Chip Analyzer (dChip) 2010 (http://www.dchip.org) applying a probeset mask file considering only the A. nidulans probes on the array representing 9674 transcripts. The arrays were normalized to a baseline array with median CEL intensity by applying an Invariant Set Normalization Method. Normalized CEL intensities of the 12 arrays were used to obtain model-based gene expression indices based on a PM (Perfect Match)-only model.

label: biotin

organism: Aspergillus nidulans

source_name: Aspergillus nidulans mycelia after growth in suberin media for six days

label_protocol: RNA was processed for use on Affymetrix custom dual species FungiANC arrays,  according to the manufacturer’s GeneChip 3’ IVT Express kit user manual. Briefly, 100 ng of total RNA containing spiked in Poly-A RNA controls was used in a reverse transcription reaction (GeneChip 3’ IVT Express Kit; Affymetrix) to generate first-strand cDNA. After second-strand synthesis, double-stranded cDNA was used in a 16h in vitro transcription (IVT) reaction to generate aRNA (GeneChip 3’ IVT Express Kit; Affymetrix). Size distribution of the aRNA and fragmented aRNA, respectively, was assessed using an Agilent 2100 Bioanalyzer with a RNA 6000 Nano Assay.

growth_protocol: Fungal cultures with a density of A. nidulans (FGSC A4) conidia of 1.00E+5 per mL (5mL six-well plates, minimal media containing 1% w/v glucose) were incubated (27 ºC, dark, 90 rpm) for the establishment of a mycelia mat against the ground of the wells.

extract_protocol: Total RNA was isolated from fungal mycelia (grounded to powder using mortar and pestle in liquid nitrogen) using the RNeasy Plant Mini Kit (QIAGEN) and further purified following a standard ethanol precipitation.

treatment_protocol: After two days of incubation the exhausted glucose media were replaced by fresh media containing 0.1% w/v of suberin and kept for an additional period of two, four or six days.  At each time point the mycelia were recovered and preserved at -80 °C .  Cultures grown in minimal media containing glucose for two days were herein regarded as the control.

value: mycelia


title: Burkholderia cenocepacia_AU0005_1

description:
set2
2918_AU0005-1_647_pmt850_AU4259-B-21_555_pmt770_with_SNR.txt


title: Burkholderia cenocepacia_PC184_12

description:
2398_AU14560-12_647_pmt1000_PC184-12_555_pmt860_with_SNR.txt
set5


title: PFC_272

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_MC0-3_11

description:
a2690_MC0-3-10_647_pmt939_HI2424-10_555_pmt590_with_SNR__2_.txt
set5

value: Environmental


title: Burkholderia cenocepacia_PC676-P2_3

description:
2728_PC676-P2-3_647_pmt939_AU2567-1_555_pmt690_with_SNR.txt
set5


title: Aspergillus nidulans grown in suberin media, for six days, biological rep. 2


title: PFC_262

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs


title: PFC_267

description: Dorsolateral prefrontal cortex (DLPFC)


title: Aspergillus nidulans grown in suberin media, for six days, biological rep. 1


title: Aspergillus nidulans grown in suberin media, for four days, biological rep. 1

description:
Two days in glucose media, plus four days in suberin media
Gene expression data from Aspergillus nidulans grown in glucose media for two days, biological rep. 1

source_name: Aspergillus nidulans mycelia after growth in suberin media for four days


title: PFC_259

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: Burkholderia cenocepacia_HI4352_18

description:
2862_HI4352-18_647_pmt939_AU2480-18_555_pmt610_wiht_SNR.txt
set5


title: PFC_264

description: Dorsolateral prefrontal cortex (DLPFC)

value: 90 yrs


title: PFC_261

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI4352_10

description:
2682_HI2670-6_647pmt939-HI4352-10_0555_with_SNR.txt
set5


title: PFC_266

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: Aspergillus nidulans grown in suberin media, for four days, biological rep. 2


title: PFC_258

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: Aspergillus nidulans grown in suberin media, for four days, biological rep. 3


title: PFC_263

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_MC0-3_10


title: PFC_265

description: Dorsolateral prefrontal cortex (DLPFC)

value: 59 yrs

value: female


title: Burkholderia cenocepacia_HI4351_10

description:
2680_HI4351-10_647pmt939-AU3624-15_0555_with_SNR.txt
set5


title: PFC_256

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_260

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: Burkholderia cenocepacia_HI4351_0

description:
2679-AU3624-10_647pmt939-HI4351_0555_wiht_SNR.txt
set5


title: PFC_255

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 60 yrs


title: PFC_257

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs

value: Alzheimer's disease


title: PFC_254

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI4350_11

description:
2923-HI4350-11_647pmt930-AU6831-16_0555_with_SNR.txt
set5


title: PFC_253

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: Aspergillus nidulans grown in suberin media, for two days, biological rep. 1

description:
Two days in glucose media, plus two days in suberin media
Gene expression data from Aspergillus nidulans grown in glucose media for two days, biological rep. 1

source_name: Aspergillus nidulans mycelia after growth in suberin media for two days


title: Aspergillus nidulans grown in suberin media, for two days, biological rep. 3


title: Aspergillus nidulans grown in glucose media for two days, biological rep. 3

description:
Two days in glucose media
Gene expression data from Aspergillus nidulans grown in glucose media for two days, biological rep. 1

source_name: Aspergillus nidulans mycelia after growth in glucose media for two days


title: PFC_250

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 64 yrs


title: Aspergillus nidulans grown in suberin media, for two days, biological rep. 2

value: mycelia


title: Burkholderia cenocepacia_HI4350_10

description:
2924-HI3742-15_647pmt900-HI4350-10_0555_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI3942_4

description:
a2406_HI2846-4_647_pmt890_HI3942-4_555_pmt790_analyzed_EC.txt
set5


title: PFC_247

description: Dorsolateral prefrontal cortex (DLPFC)

value: 91 yrs


title: PFC_251

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: Aspergillus nidulans grown in glucose media for two days, biological rep. 2


title: PFC_245

description: Dorsolateral prefrontal cortex (DLPFC)

value: 85 yrs


title: Aspergillus nidulans grown in glucose media for two days, biological rep. 1


title: PFC_244

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs


title: PFC_243

description: Dorsolateral prefrontal cortex (DLPFC)

value: 75 yrs


title: PFC_242

description: Dorsolateral prefrontal cortex (DLPFC)

value: 90 yrs


title: PFC_239

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3942_2

description:
2735_647_HI3942-2_pmt939-555_HI2846-3_pmt670.txt
set5


title: PFC_249

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_246

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: PFC_240

description: Dorsolateral prefrontal cortex (DLPFC)

value: female


title: Burkholderia cenocepacia_HI3855_25

description:
2952_HI3855-25_647_pmt940_HI2697-2_555_pmt870_with_SNR.txt
set5

value: Environmental


title: Burkholderia cenocepacia_HI3855_2

description:
3279_HI2677-3_647_pmt820_HI3855-2_555_pmt830.txt
set5


title: PFC_241

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 87 yrs

value: male


title: PFC_248

description: Dorsolateral prefrontal cortex (DLPFC)

value: Alzheimer's disease


title: Burkholderia cenocepacia_HI3742_15


title: Burkholderia cenocepacia_HI3742_17

description:
2918-AU6831-15_647pmt-HI3742_17_0555_with_SNR.txt
set5


title: PFC_237

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_238

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 92 yrs


title: Burkholderia cenocepacia_HI3558_26

description:
2955_HI3558-26_647_pmt800_HI2771-26_555_pmt1000_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI3558_25

description:
2954_AU8714-26_647_pmt1000_HI3558-25_555_pmt880_with_SNR.txt
set5


title: PFC_235

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_233

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3557_35

description:
3279_AU9722-35_647_pmt950_HI3557-35_555_pmt860.txt
set5


title: PFC_229

description: Dorsolateral prefrontal cortex (DLPFC)

value: 88 yrs


title: PFC_236

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: Burkholderia cenocepacia_HI3557_36

description:
3281_HI3557-36_647_pmt890_AU9722-26_555_pmt790.txt
set5


title: PFC_230

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_227

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_232

description: Dorsolateral prefrontal cortex (DLPFC)

value: 94 yrs


title: (-Q) Biological replicate 1

city: Pearl River

first: Naval

last: Shanware

address: 401 North Middle Town Road

institute: Pfizer

hyb_protocol: Following fragmentation, 10 ug of cRNA was hybridized for 16 hr at 45C on the Affymetrix Human U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip Scanner 7G.

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.

label: Biotin

source_name: Cells grown without glutamine for 24h

label_protocol: Amplified RNA (aRNA) was synthesized and biotin labeled according to the Affymetrix 3'IVT labeling protocol from 200ng total RNA

growth_protocol: Briefly, 2 million U2OS cells were plated overnight.  The following day cell media was replaced with media with or without glutamine.

extract_protocol: Cells were harvested in buffer RLT (Qiagen) followed by RNA isolation using the RNeasy kit (#74104, Qiagen).

treatment_protocol: Cells were then grown for 24 h in glutamine-free medium or the same medium with added glutamine.


title: PFC_234

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_226

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_001T-2]

city: Taipei

first: Jui-Yu

last: Hsieh

address: No. 155, Sec 2, Li-Nong Street

country: Taiwan

institute: National Yang-Ming University

hyb_protocol: cRNA were hybridized, washed and stained on U133 plus 2.0 chips according to standard Affymetrix protocol.

scan_protocol: Chips are stained on Affymetrix GCS3000 scanner (scanner type M10)

data_processing: The CEL file was loaded to R/Bioconductor software and normalized by GC-RMA with default settings.

source_name: Human, Hepatocellular carcinoma

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol.

growth_protocol: The HCC samples used in this study were the original tumors obtained from the first operations of patients.

extract_protocol: Total RNA was extracted by Trizol according to the manufacturer's instructions.

treatment_protocol: Fresh HCC tissues that had been removed during surgery were snap frozen and kept in liquid nitrogen for RNA extraction.

value: Tumor


title: PFC_231

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: (-Q) Biological replicate 2


title: PFC_225

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: Burkholderia cenocepacia_HI3550_3

description:
a2393_HI2606-3_647_pmt890_HI3550-3_555_pmt820_analyzed.txt
set5


title: PFC_228

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3543_B18

description:
2951_AU3047-B-18_647_pmt910_HI3543-18_555_pmt890_with_SNR.txt
set5


title: (+Q) Biological replicate 1

source_name: Cells grown in glutamine for 24h


title: (+Q) Biological replicate 2


title: (+Q) Biological replicate 3


title: Burkholderia cenocepacia_HI3550_1

description:
a2692_AU0199-10_555_pmt910_HI3550-1_647_pmt610_with_SNR.txt
set5


title: (-Q) Biological replicate 3


title: human HCC sample [HCC_016T-2]


title: PFC_224

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: PFC_222

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3521_B2

description:
2922-HI3521-B-2_647pmt820-HI3240-2_0555_with_SNR.txt
set5


title: PFC_220

description: Dorsolateral prefrontal cortex (DLPFC)

value: 81 yrs


title: PFC_252

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs

value: female


title: human HCC sample [HCC_30T]


title: PFC_223

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 85 yrs


title: PFC_221

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs

value: male


title: Burkholderia cenocepacia_HI3543_8

description:
2674_HI3543-8_647_pmt939_AU0918-3_555_pmt650_with_SNR.txt
set5

value: Environmental


title: human HCC sample [HCC_28T]


title: Burkholderia cenocepacia_HI3521_B1

description:
2906-AU8718-1_647pmt880-HI3521-B-1_0555.txt
set5


title: human HCC sample [HCC_26T]


title: human HCC sample [HCC_25T]


title: PFC_217

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: Alzheimer's disease


title: Burkholderia cenocepacia_HI3520_B3

description:
a2694_AU1189-3_647_pmt939_HI3520-B-3_555_pmt610_with_SNR.txt
set5


title: PFC_219

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: human HCC sample [HCC_19T]


title: PFC_218

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_215

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_216

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3520_B1

description:
2690_HI3520-B-1_647_pmt939_AU2157-2_555_pmt670_with_SNR.txt
set5


title: PFC_213

description: Dorsolateral prefrontal cortex (DLPFC)

value: 88 yrs


title: PFC_210

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_21T]

value: Tumor


title: Burkholderia cenocepacia_HI3286_8

description:
2675-HI3286-8_647pmt939-AU2208-15_0555_wiht_SNR.txt
set5


title: PFC_214

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_212

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_211

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_207

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_208

description: Dorsolateral prefrontal cortex (DLPFC)

value: 93 yrs


title: human HCC sample [HCC_18T]


title: PFC_205

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_013T]


title: PFC_202

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_209

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_010T]


title: PFC_206

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_011T]


title: human HCC sample [HCC_014T]


title: Burkholderia cenocepacia_HI3286_2

description:
2397_AU14381-12_647+pmt850_HI3286-2_555_pmt680_wiht_SNR.txt
set5


title: PFC_199

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_017T]


title: PFC_203

description: Dorsolateral prefrontal cortex (DLPFC)

value: 89 yrs


title: Burkholderia cenocepacia_HI3278_3

description:
a2400_HI3278-3_647_pmt830_HI3279-2_555_pmt670_wiht_SNR.txt
set5


title: PFC_204

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample [HCC_009T]


title: human HCC sample [HCC_008T]


title: PFC_200

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_201

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: PFC_197

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3278_10

description:
2921_AU14206-20_647_pmt930_HI3278-20_555_pmt670_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI3279_2


title: PFC_198

description: Dorsolateral prefrontal cortex (DLPFC)

value: 97 yrs


title: Burkholderia cenocepacia_HI3240_2


title: PFC_196

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI3279_20

description:
2920_HI3279-20_647_pmt770_AU1538-20_555_pmt770_with_SNR.txt
set5


title: human HCC sample [HCC_007T]


title: Burkholderia cenocepacia_HI3240_3

description:
2923-HI3240-3_647pmt810-HI2763-1_0555_with_SNR.txt
set5


title: PFC_194

description: Dorsolateral prefrontal cortex (DLPFC)

value: 95 yrs


title: Burkholderia cenocepacia_HI2846_4

description:
a2406_HI2846-4_647_pmt890_HI3942-4_555_pmt790_analyzed_EC.txt
set5


title: PFC_195

description: Dorsolateral prefrontal cortex (DLPFC)

value: 66 yrs

value: female


title: Burkholderia cenocepacia_HI2846_3

description:
2735_647_HI3942-2_pmt939-555_HI2846-3_pmt670.txt
set5


title: PFC_193

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain


title: PFC_191

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: PFC_188

description: Dorsolateral prefrontal cortex (DLPFC)

value: male


title: Burkholderia cenocepacia_HI3520_B2

description:
2691_AU0280-1_647_pmt939_HI3520-B-2_555_pmt690_with_SNR.txt
set5


title: human HCC sample [HCC_005T]


title: human HCC sample [HCC_004T]


title: Burkholderia cenocepacia_HI2813_1

description:
2673_HI4352-15_BAD__647pmt939-HI2813-1_0555.txt
set5


title: Burkholderia cenocepacia_HI2813_5

description:
2684-HI2813-5_647-Hi2767-15_0555_with_SNR.txt
set5


title: human HCC sample [HCC_002T]


title: PFC_190

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_192

description: Dorsolateral prefrontal cortex (DLPFC)

value: 91 yrs


title: Burkholderia cenocepacia_HI2809_1

description:
2907-AU5757-1_647pmt870-HI2809-1_0555.txt
set5


title: human HCC sample [HCC_009_T3]

description: late HCC

tag: Stage


title: PFC_187

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 98 yrs


title: PFC_181

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs

value: Alzheimer's disease


title: PFC_186

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs


title: PFC_183

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: PFC_185

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_184

description: Dorsolateral prefrontal cortex (DLPFC)

value: 90 yrs


title: PFC_189

description: Dorsolateral prefrontal cortex (DLPFC)

value: 69 yrs


title: Burkholderia cenocepacia_HI2772_35

description:
3278_HI2771-35_647_pmt950_HI2772-35_555_pmt780.txt
set5

value: Environmental


title: Burkholderia cenocepacia_HI2811_8

description:
2681_AU6362-8_647pmt939-HI2811-8_0555_with_SNR.txt
set5


title: PFC_182

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: human HCC sample [HCC_007_T3]

description: late HCC

value: Tumor


title: Burkholderia cenocepacia_HI2811_3

description:
2683-HI2811-3_647-AU8830-6_0555_with_SNR.txt
set5


title: human HCC sample [HCC_012T]


title: human HCC sample [HCC_008_T3]

description: late HCC


title: Burkholderia cenocepacia_HI2771_26

description:
2955_HI3558-26_647_pmt800_HI2771-26_555_pmt1000_with_SNR.txt
set5


title: PFC_178

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs

value: female


title: PFC_180

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 89 yrs


title: Burkholderia cenocepacia_HI2767_15


title: PFC_177

description: Dorsolateral prefrontal cortex (DLPFC)

value: 91 yrs


title: PFC_179

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 86 yrs

value: male


title: human HCC sample [HCC_006_T3]

description: late HCC


title: human HCC sample [HCC_005_T1]

description: early HCC


title: human HCC sample [HCC_001_T1]

description: early HCC


title: PFC_173

description: Dorsolateral prefrontal cortex (DLPFC)

value: 92 yrs

value: Alzheimer's disease


title: PFC_175

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_170

description: Dorsolateral prefrontal cortex (DLPFC)

value: 88 yrs


title: PFC_171

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: PFC_168

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: human HCC sample [HCC_002_T1]

description: early HCC


title: PFC_174

description: Dorsolateral prefrontal cortex (DLPFC)

value: 93 yrs


title: human HCC sample [HCC_004_T3]

description: late HCC


title: PFC_176

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_172

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_167

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs


title: PFC_169

description: Dorsolateral prefrontal cortex (DLPFC)

value: 63 yrs


title: Burkholderia cenocepacia_HI2763_1

value: Environmental


title: Burkholderia cenocepacia_HI2765_11

description:
2684_HI2765-11_647pmt939_Au5229-10_555_with_SNR.txt
set5


title: PFC_166

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: human HCC sample [HCC_003_T3]

description: late HCC

value: Tumor


title: Burkholderia cenocepacia_HI2767_11

description:
2719-HI2767-11_647pmt939-AU0243-12_555pmt580_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI2767_12

description:
2406_HI2767-12_647_pmt1000_AU2208-10_555_pmt980.txt
set5


title: human HCC sample from young patient [HCC_254T]

description: young HCC patient

extract_protocol: Total RNA was extracted by Trizol (Invitrogen) according to the manufacturer's instructions.

value: young HCC patient


title: Burkholderia cenocepacia_HI2763_2

description:
2903_HI2763-2_647_pmt840_AU7861-1_555_pmt680_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI2765_10

description:
2676_MC0-3-11_647_pmt800_HI2765-10_555_pmt660.txt
set5


title: PFC_165

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: female


title: PFC_163

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: human HCC sample from young patient [HCC_1865T]

description: young HCC patient


title: human HCC sample from young patient [HCC_1603T]

description: young HCC patient


title: PFC_164

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI2762_1

description:
a2675_HI2762-1_647_pmt920_AU14126-2_555_pm_0590_with_SNR.txt
set5


title: PFC_157

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: human HCC sample [HCC_010_T1]

description: early HCC


title: PFC_161

description: Dorsolateral prefrontal cortex (DLPFC)

value: 98 yrs

value: male


title: PFC_162

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs

value: Alzheimer's disease


title: human HCC sample from young patient [HCC_1822T]

description: young HCC patient


title: PFC_158

description: Dorsolateral prefrontal cortex (DLPFC)

value: 65 yrs


title: PFC_159

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: human HCC sample from young patient [HCC_251T]

description: young HCC patient


title: PFC_156

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: PFC_155

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: Burkholderia cenocepacia_HI2712_B3

description:
a2691_HI2712-B-3_647_pmt939_AU0304-3_555_pmt630.txt
set5


title: Burkholderia cenocepacia_HI2718_12

description:
a2692_HI2718-12_647_pmt920_AU5792-10_555_pmt630_with_SNR.txt
set5


title: human HCC sample from young patient [HCC_319T]

description: young HCC patient


title: PFC_153

description: Dorsolateral prefrontal cortex (DLPFC)

value: 67 yrs


title: human HCC sample from young patient [HCC_1741T]

description: young HCC patient


title: PFC_160

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs


title: Burkholderia cenocepacia_HI2762_2

description:
2397_AU9410-3_647_pmt1000_HI2762-2_555_pmt830.txt
set5


title: human HCC sample from young patient [HCC_1085T]

description: young HCC patient


title: PFC_154

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: Burkholderia cenocepacia_HI2708_2

description:
2901_HI2708-2_647_pmt790_HI2677-2_555_pmt710.txt
set5

value: Environmental


title: PFC_151

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI2708_1

description:
2902_AU2071-15_647_pmt760_HI2708-1_555_pmt630.txt
set5


title: Burkholderia cenocepacia_HI2701_18

description:
2683_AU14802-18_647_pmt900_HI2701-18_555_pmt630_with_SNR.txt
set5


title: PFC_152

description: Dorsolateral prefrontal cortex (DLPFC)

value: 62 yrs


title: PFC_149

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 75 yrs


title: human HCC sample from young patient [HCC_1863T]

description: young HCC patient

value: Tumor

value: young HCC patient


title: PFC_148

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 87 yrs

value: female


title: human HCC sample from young patient [HCC_867T]

description: young HCC patient


title: human HCC sample from young patient [HCC_1622T]

description: young HCC patient


title: PFC_146

description: Dorsolateral prefrontal cortex (DLPFC)

value: male

value: Alzheimer's disease


title: Burkholderia cenocepacia_HI2699_18

description:
3285_HI2699-18_647_pmt920_AU0086-2_555_pmt880.txt
set5


title: PFC_142

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: Burkholderia cenocepacia_HI2701_3

description:
2397_AU2367-3_647_pmt1000_HI2701-3_555_pmt900_with_SNR.txt
set5


title: PFC_150

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI2677_3

description:
3279_HI2677-3_647_pmt820_HI3855-2_555_pmt830.txt
set5


title: PFC_147

description: Dorsolateral prefrontal cortex (DLPFC)

value: 54 yrs


title: PFC_144

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI2677_2


title: PFC_141

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: human HCC sample from young patient [HCC_242T]

description: young HCC patient


title: Burkholderia cenocepacia_HI2697_2

description:
2952_HI3855-25_647_pmt940_HI2697-2_555_pmt870_with_SNR.txt
set5


title: PFC_145

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: PFC_143

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample from young patient [HCC_70T]

description: young HCC patient


title: PFC_138

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample from young patient [HCC_930T]

description: young HCC patient


title: human HCC sample from young patient [HCC_1637T]

description: young HCC patient


title: PFC_135

description: Dorsolateral prefrontal cortex (DLPFC)

value: 74 yrs


title: PFC_140

description: Dorsolateral prefrontal cortex (DLPFC)

value: 79 yrs


title: Burkholderia cenocepacia_HI2670_7

description:
2674-AU2208-11_647pmt939-HI2670-7_0555_with_SNR.txt
set5

value: Environmental


title: human HCC sample from young patient [HCC_1684T]

description: young HCC patient


title: Burkholderia cenocepacia_HI2712_A3

description:
a2680_AU5792-11_647_pmt939_HI2712-A-3_555_pm_0580_with_SNR.txt
set5


title: Burkholderia cenocepacia_HI2670_6

description:
2682_HI2670-6_647pmt939-HI4352-10_0555_with_SNR.txt
set5


title: PFC_137

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs


title: PFC_132

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 78 yrs


title: human HCC sample from young patient [HCC_254T.CEL]

description: young HCC patient

source_name: human HCC sample from young patient

treatment_protocol: Fresh HCC tissues and non-tumor counter parts that had been removed during surgery were snap frozen and kept in liquid nitrogen for RNA extraction.

value: Tumor


title: Burkholderia cenocepacia_HI2631_2

description:
set4
2692_HI2631-2_647_pmt939_HI2555-3_555_pmt660_with_SNR.txt


title: PFC_131

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI2631_1

description:
set4
2721_AU2157-3_647_pmt939_HI2631-1_555_pmt630_with_SNR.txt


title: human HCC sample from young patient [HCC_1865T.CEL]

description: young HCC patient

value: young HCC patient


title: PFC_136

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference


title: PFC_134

description: Dorsolateral prefrontal cortex (DLPFC)

value: 89 yrs


title: PFC_133

description: Dorsolateral prefrontal cortex (DLPFC)

value: 61 yrs


title: PFC_129

description: Dorsolateral prefrontal cortex (DLPFC)

value: 94 yrs

value: female


title: PFC_130

description: Dorsolateral prefrontal cortex (DLPFC)

value: 85 yrs

value: male

value: Alzheimer's disease


title: Burkholderia cenocepacia_HI2629_4

description:
set4
a2402_HI2629-4_647_pmt870_AU1450-4_555_pmt740_with_SNR.txt

value: PHDC


title: PFC_127

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_128

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: Burkholderia cenocepacia_HI2629_2

description:
set4
a2694_HI2629-2_555_pmt860_AU11230-1_647pmt610_with_SNR.txt


title: PFC_125

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_126

description: Dorsolateral prefrontal cortex (DLPFC)

value: 67 yrs


title: human HCC sample from young patient [HCC_1822T.CEL]

description: young HCC patient


title: PFC_122

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: Burkholderia cenocepacia_HI2617_3

description:
set4
2393-HI2617-3_635_pmt970-AU1100-3_532_pmt880_analyzed_with_SNR.txt

value: Environmental


title: Burkholderia cenocepacia_HI2606_3

description:
set4
a2393_HI2606-3_647_pmt890_HI3550-3_555_pmt820_analyzed.txt


title: Burkholderia cenocepacia_HI2555_3


title: human HCC sample from young patient [HCC_1603T.CEL]

description: young HCC patient


title: human HCC sample from young patient [HCC_1741T.CEL]

description: young HCC patient


title: PFC_123

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 80 yrs


title: PFC_124

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_120

description: Dorsolateral prefrontal cortex (DLPFC)

value: 91 yrs


title: PFC_121

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample from young patient [HCC_319T.CEL]

description: young HCC patient

value: Tumor

value: young HCC patient


title: human HCC sample from young patient [HCC_1085T.CEL]

description: young HCC patient


title: PFC_119

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 88 yrs


title: human HCC sample from young patient [HCC_251T.CEL]

description: young HCC patient


title: Burkholderia cenocepacia_HI2617_1

description:
set4
a2691_HI2617-1_555_pmt939_AU8006.1-3_647_pmt590_with_SNR.txt


title: PFC_117

description: Dorsolateral prefrontal cortex (DLPFC)

value: 72 yrs


title: PFC_118

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_116

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: Burkholderia seminalis_HI2490_3

description:
set4
3281_AU0060-3_647_pmt970_HI2490_555_pmt930.txt

value: Bsem


title: Burkholderia cenocepacia_HI2555_1

description:
set4
2689_HI2555-1_647_pmt939_AU8831-1_555_pmt650_with_SNR.txt


title: human normal liver sample from young HCC patient [HCC_1622T.CEL]

description: young HCC patient


title: human HCC sample from young patient [HCC_1863T.CEL]

description: young HCC patient


title: PFC_115

description: Dorsolateral prefrontal cortex (DLPFC)

value: 95 yrs

value: female


title: Burkholderia seminalis_HI2490_2

description:
set4
3282_HI2490-2_647_PMT990_AU1751-2_555_PMT850.txt


title: PFC_139

description: Dorsolateral prefrontal cortex (DLPFC)

value: 73 yrs

value: Alzheimer's disease


title: Burkholderia cenocepacia_HI2424_C3

description:
set4
a2689_AU0604-12_647_pmt920_HI2424-C-3_555_pmt610_with_SNR.txt

value: PHDC


title: Burkholderia cenocepacia_HI2424_11

description:
set4
2678_AU3820-11_647_pmt870_HI2424-11_555_pmt650.txt


title: PFC_107

description: Dorsolateral prefrontal cortex (DLPFC)

value: 84 yrs


title: Burkholderia cenocepacia_HI2424_10

description:
set4
a2690_MC0-3-10_647_pmt939_HI2424-10_555_pmt590_with_SNR__2_.txt


title: PFC_108

description: Dorsolateral prefrontal cortex (DLPFC)

value: 87 yrs

value: male


title: human normal liver sample from young HCC patient [HCC_1823N.CEL]

description: young HCC patient

value: Normal


title: PFC_111

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 71 yrs


title: PFC_110

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_109

description: Dorsolateral prefrontal cortex (DLPFC)

value: 78 yrs


title: PFC_113

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 91 yrs


title: human normal liver sample from young HCC patient [HCC_1753N.CEL]

description: young HCC patient

value: young HCC patient


title: human normal liver sample from young HCC patient [HCC_434N.CEL]

description: young HCC patient


title: PFC_114

description: Dorsolateral prefrontal cortex (DLPFC)


title: Burkholderia cenocepacia_HI4281_4

description:
set4
a2408_ET128-4_647_pmt910_ET129-4_555_pmt800_analyzed_with_SNR.txt
Also_known_as_ET129.4


title: PFC_103

description: Dorsolateral prefrontal cortex (DLPFC)

value: 90 yrs


title: human normal liver sample from young HCC patient [HCC_342N.CEL]

description: young HCC patient


title: Burkholderia cenocepacia_AU16958_5

description:
set4
2726_ET124-5_647pmt939__ET128-5_555pm_0660_with_SNR2.txt
Also_known_as_ET128.5


title: PFC_112

description: Dorsolateral prefrontal cortex (DLPFC)

value: 93 yrs


title: human normal liver sample from young HCC patient [HCC_1862N.CEL]

description: young HCC patient


title: human normal liver sample from young HCC patient [HCC_1623N.CEL]

description: young HCC patient


title: PFC_105

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_106

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: Burkholderia cenocepacia_HI4281_3

description:
set4
2725_ET125-3_647pmt920_ET129-3_555pm_0680_wiht_SNR.txt
Also_known_as_ET129.3


title: PFC_101

description: Dorsolateral prefrontal cortex (DLPFC)

value: 89 yrs

value: female


title: human normal liver sample from young HCC patient [HCC_1740N.CEL]

description: young HCC patient


title: human normal liver sample from young HCC patient [HCC_1602N.CEL]

description: young HCC patient


title: PFC_104

description: Dorsolateral prefrontal cortex (DLPFC)

value: Alzheimer's disease


title: PFC_98

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_95

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: human normal liver sample from young HCC patient [HCC_1717N.CEL]

description: young HCC patient


title: human normal liver sample from young HCC patient [HCC_1716N.CEL]

description: young HCC patient


title: PFC_92

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: PFC_89

description: Dorsolateral prefrontal cortex (DLPFC)

value: 70 yrs


title: PFC_86

description: Dorsolateral prefrontal cortex (DLPFC)

value: 83 yrs


title: human normal liver sample from young HCC patient [HCC_70N.CEL]

description: young HCC patient

value: Normal


title: PFC_94

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain

value: 85 yrs


title: human normal liver sample from young HCC patient [HCC_1250N.CEL]

description: young HCC patient


title: PFC_100

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_97

description: Dorsolateral prefrontal cortex (DLPFC)

value: 88 yrs

value: male


title: PFC_91

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference

value: 67 yrs


title: PFC_88

description: Dorsolateral prefrontal cortex (DLPFC)

value: 64 yrs


title: Burkholderia cenocepacia_AU16958_3

description:
set4
2401-ET124-3_635_pmt1000-ET128-3_555_pmt850_analyzed_with_SNR.txt
Also_known_as_ET128.3


title: human HCC sample from young patient [HCC_867T.CEL]

description: young HCC patient

value: Tumor

value: young HCC patient


title: Burkholderia cenocepacia_AU16957_1

description:
set4
a2413_ET126-1_647_pmt840_ET120-1_555_pmt760_analyzed.txt
Also_known_as_ET126.1


title: PFC_102

description: Dorsolateral prefrontal cortex (DLPFC)

value: 76 yrs


title: Burkholderia cenocepacia_HI4280_3

description:
set4
2400_ET126-3_647_pmt900_ET127-3_555_pmt830_with_SNR.txt
Also_known_as_ET127.3


title: PFC_96

description: Dorsolateral prefrontal cortex (DLPFC)


title: PFC_99

description: Dorsolateral prefrontal cortex (DLPFC)

value: 81 yrs


title: Burkholderia cenocepacia_AU16958_4

description:
set4
a2408_ET128-4_647_pmt910_ET129-4_555_pmt800_analyzed_with_SNR.txt
Also_known_as_ET128.4


title: PFC_93

description: Dorsolateral prefrontal cortex (DLPFC)

value: female

value: Alzheimer's disease


title: human normal liver sample from young HCC patient [HCC_1636N.CEL]

description: young HCC patient


title: human normal liver sample from young HCC patient [HCC_1038N.CEL]

description: young HCC patient


title: PFC_90

description: Dorsolateral prefrontal cortex (DLPFC)

value: 82 yrs


title: PFC_82

description: Dorsolateral prefrontal cortex (DLPFC)

value: 71 yrs


title: PFC_83

description: Dorsolateral prefrontal cortex (DLPFC)

value: 86 yrs


title: PFC_87

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample from young patient [HCC_70T.CEL]

description: young HCC patient


title: Burkholderia cenocepacia_HI4280_2

description:
set4
a2415_ET121-2_647_pmt890_ET127-2_555_pmt790.txt
Also_known_as_ET127.2


title: PFC_85

description: Dorsolateral prefrontal cortex (DLPFC)

value: 77 yrs


title: human normal liver sample from young HCC patient [HCC_1867N.CEL]

description: young HCC patient

value: Normal


title: Burkholderia cenocepacia_HI4279_3

description:
set4
2725_ET125-3_647pmt920_ET129-3_555pm_0680_wiht_SNR.txt
Also_known_as_ET125.3


title: Burkholderia cenocepacia_AU16956_5

description:
set4
2726_ET124-5_647pmt939__ET128-5_555pm_0660_with_SNR2.txt
Also_known_as_ET124.5


title: Burkholderia cenocepacia_HI4280_1

description:
set4
a2418_ET127-1_647_pmt830_ET122-2_555_pmt770_EC_wiht_SNR.txt
Also_known_as_ET127.1


title: PFC_81

description: Dorsolateral prefrontal cortex (DLPFC)

value: prefrontal cortex brain


title: PFC_84

description: Dorsolateral prefrontal cortex (DLPFC)

value: 80 yrs


title: Burkholderia cenocepacia_AU16957_3

description:
set4
2400_ET126-3_647_pmt900_ET127-3_555_pmt830_with_SNR.txt
Also_known_as_ET126.3


title: human normal liver sample from young HCC patient [HCC_930T.CEL]

description: young HCC patient


title: Burkholderia cenocepacia_HI4279_1

description:
set4
a2414_ET121-1_647_pmt900_ET125-1_555_pmt780_EC_wiht_SNR.txt
Also_known_as_ET125.1


title: PFC_80

description: Dorsolateral prefrontal cortex (DLPFC)


title: human HCC sample from young patient [HCC_242T.CEL]

description: young HCC patient


title: Burkholderia cenocepacia_AU16956_3

description:
set4
2401-ET124-3_635_pmt1000-ET128-3_555_pmt850_analyzed_with_SNR.txt
Also_known_as_ET124.3


title: PFC_79

description: Dorsolateral prefrontal cortex (DLPFC)

value: 98 yrs


title: PFC_76

description: Dorsolateral prefrontal cortex (DLPFC)

value: reference