TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0033/acpA:

update plot	correlation	link to info on gene
Rv3739c/PPE67	(cc=0.5064)	info on Rv3739c/PPE67
Rv0822c/-	(cc=0.4893)	info on Rv0822c/-
Rv0120c/fusA2	(cc=0.4868)	info on Rv0120c/fusA2
Rv3524/-	(cc=0.4791)	info on Rv3524/-
Rv2501c/accA1	(cc=0.4765)	info on Rv2501c/accA1
Rv3337/-	(cc=0.4666)	info on Rv3337/-
Rv3670/ephE	(cc=0.4655)	info on Rv3670/ephE
Rv0354c/PPE7	(cc=0.4588)	info on Rv0354c/PPE7
Rv0122/-	(cc=0.4562)	info on Rv0122/-
Rv2789c/fadE21	(cc=0.4524)	info on Rv2789c/fadE21

Correlation of Rv0033/acpA with Rv3739c/PPE67

Normalized LFCs for Rv0033/acpA:
(description and provenance of datasets)

	Rv0033/acpA	Rv3739c/PPE67
Fe_supp_jason_reseq	0.704	0.314
low_pH_jason_reseq	-1.205	-1.399
NO_jason_reseq	-1.615	0.018
B6_jason_reseq	-0.315	-0.706
MHCII_jason_reseq	-0.515	-1.017
Isoniazid02	-0.204	0.451
Rifampicin4	-1.021	0.425
Ethambutol3	-0.602	-0.071
Meropenem3	1.161	1.186
Vancomycin16	-0.456	0.088
Rv2680_day32	-1.389	-2.812
H37Rv_KO_MarP	0.394	0.052
hypoxia_3wks	1.499	0.255
hypoxia_6wks	1.14	-0.2
glycerol	0.339	0.284
cholesterol	0.644	-0.106
AJ	1.055	-0.536
Bibs02	1.15	-1.24
Bibs02c	2.413	0.702
BL6	1.225	0.241
BL6a	0.798	0.75
BXD01	1.188	1.14
BXD010	1.775	0.287
BXD011	0.887	1.579
BXD03	0.92	0.864
BXD04	1.559	-0.072
BXD05	-0.602	0.414
BXD06	1.117	0.643
BXD07	1.222	0.201
BXD08	1.085	0.381
BXD09	1.002	0.527
CAST	0.037	-1.093
CCcont	1.57	-0.065
DS01	1.051	0.263
DS02	0.666	-0.284
DS04	2.638	-0.142
DS0c	0.778	0.418
GP01	0.871	0.802
GP02	1.025	0.728
GP0c	1.651	0.694
NOD	-0.225	0.073
NZO	2.062	1.295
PWK	0.612	0.027
H37Rv_KO_CtpC	1.371	1.153
H37Rv_KO_CtpD	1.75	0.204
H37Rv_KO_Rv1272	0.936	-0.067
H37Rv_KO_SugABC	-1.026	0.067
H37Rv_KO_MbtN	0.895	-0.69
Trans05	0.685	0.995
macrophage_unactivated	1.6	0.502
IL1	0.543	0.454
Rapamycin	1.967	0.393
Tcell	0.059	0.499
GMCSF	1.191	-0.018
IFNab	0.453	0.913
IFNg	-0.42	0.457
IFNg_GMCSF1	-0.072	-0.217
Rv1432_day32	0.3	-0.224
Rv1565c_day32	-0.014	-0.305
secA2_input	-0.344	0.581
delta_Rv3594	-0.136	0.04
delta_Rv3717	-0.473	-0.19
delta_Rv3811	0.336	-0.523
delta_Rv0954	-1.286	0.071
PonA1	-0.95	-0.374
EccD1_KO	-0.454	0.135
EspI_KO	-1.637	-0.653
PE35_KO	-0.799	-1.059
PPE68_KO	-0.928	-1.069
glycerol2	0.724	0.493
lignocerate	0.426	-0.006
oleate	0.926	0.885
phosphatidylcholine	0.758	0.429
acetate	0.366	0.253
glucAc	0.108	-0.81
Rv0950ko	1.824	1.119
Rv1096ko	2.31	0.691
Rv3684ko	1.886	1.706
delta_otsA_trehalose	0.975	1.334