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 Rv0507/mmpL2:

update plot	correlation	link to info on gene
Rv0059/-	(cc=0.5581)	info on Rv0059/-
Rv1917c/PPE34	(cc=0.5506)	info on Rv1917c/PPE34
Rv3429/PPE59	(cc=0.4979)	info on Rv3429/PPE59
Rv3879c/espK	(cc=0.4936)	info on Rv3879c/espK
Rv2777c/-	(cc=0.4909)	info on Rv2777c/-
Rv2948c/fadD22	(cc=0.4643)	info on Rv2948c/fadD22
Rv1362c/-	(cc=0.4643)	info on Rv1362c/-
Rv2513/-	(cc=0.4594)	info on Rv2513/-
Rv1926c/mpt63	(cc=0.4568)	info on Rv1926c/mpt63
Rv0755A/-	(cc=0.4542)	info on Rv0755A/-

Correlation of Rv0507/mmpL2 with Rv3879c/espK

Normalized LFCs for Rv0507/mmpL2:
(description and provenance of datasets)

	Rv0507/mmpL2	Rv3879c/espK
Fe_supp_jason_reseq	0.731	-0.15
low_pH_jason_reseq	-0.463	-0.5
NO_jason_reseq	-0.347	-1.488
B6_jason_reseq	0.217	0.2
MHCII_jason_reseq	0.273	0.537
Isoniazid02	-0.223	0.361
Rifampicin4	0.192	-0.106
Ethambutol3	1.468	1.847
Meropenem3	0.379	-0.145
Vancomycin16	0.027	-0.016
Rv2680_day32	0.33	0.156
H37Rv_KO_MarP	0.178	0.779
hypoxia_3wks	0.662	-0.227
hypoxia_6wks	0.474	-0.57
glycerol	-0.437	0.844
cholesterol	0.779	0.299
AJ	0.045	-0.257
Bibs02	0.343	0.162
Bibs02c	0.1	0.417
BL6	0.415	0.411
BL6a	0.354	0.184
BXD01	0.685	0.245
BXD010	0.186	0.255
BXD011	0.592	-0.011
BXD03	0.339	0.269
BXD04	0.512	0.362
BXD05	0.295	-0.117
BXD06	0.365	0.057
BXD07	0.449	0.018
BXD08	0.451	0.367
BXD09	0.24	-0.076
CAST	0.022	-0.03
CCcont	0.441	0.253
DS01	0.282	1.663
DS02	0.241	0.183
DS04	0.299	1.062
DS0c	0.407	0.728
GP01	0.576	0.489
GP02	0.392	0.796
GP0c	0.375	0.381
NOD	0.19	-0.02
NZO	-0.02	-0.026
PWK	0.335	0.068
H37Rv_KO_CtpC	0.515	0.035
H37Rv_KO_CtpD	0.643	0.875
H37Rv_KO_Rv1272	0.839	0.255
H37Rv_KO_SugABC	0.594	0.168
H37Rv_KO_MbtN	0.852	0.302
Trans05	0.557	0.361
macrophage_unactivated	0.467	0.167
IL1	0.243	-0.311
Rapamycin	-0.387	-0.565
Tcell	0.45	-0.365
GMCSF	0.42	-0.327
IFNab	-0.381	-0.417
IFNg	-0.032	-0.601
IFNg_GMCSF1	-0.075	-0.537
Rv1432_day32	-0.198	0.549
Rv1565c_day32	0.145	-0.447
secA2_input	0.099	0.8
delta_Rv3594	0.203	0.0
delta_Rv3717	-0.227	-0.61
delta_Rv3811	0.129	-0.178
delta_Rv0954	0.039	-0.149
PonA1	-0.461	-0.774
EccD1_KO	-0.566	0.339
EspI_KO	0.12	-0.265
PE35_KO	-0.391	-0.452
PPE68_KO	-0.429	-0.397
glycerol2	0.553	0.933
lignocerate	0.798	0.717
oleate	0.516	1.059
phosphatidylcholine	0.807	0.854
acetate	0.293	-0.063
glucAc	0.31	0.987
Rv0950ko	0.479	-0.223
Rv1096ko	-0.57	-0.866
Rv3684ko	-0.187	-0.242
delta_otsA_trehalose	1.005	-0.068