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 Rv2948c/fadD22

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

	Rv0507/mmpL2	Rv2948c/fadD22
Fe_supp_jason_reseq	0.731	0.32
low_pH_jason_reseq	-0.463	-0.775
NO_jason_reseq	-0.347	-0.496
B6_jason_reseq	0.217	-0.193
MHCII_jason_reseq	0.273	-0.17
Isoniazid02	-0.223	0.084
Rifampicin4	0.192	-0.301
Ethambutol3	1.468	0.681
Meropenem3	0.379	-0.079
Vancomycin16	0.027	0.687
Rv2680_day32	0.33	-0.943
H37Rv_KO_MarP	0.178	0.358
hypoxia_3wks	0.662	0.658
hypoxia_6wks	0.474	0.47
glycerol	-0.437	-0.728
cholesterol	0.779	-0.354
AJ	0.045	-0.803
Bibs02	0.343	-0.085
Bibs02c	0.1	0.346
BL6	0.415	0.039
BL6a	0.354	0.344
BXD01	0.685	0.062
BXD010	0.186	0.521
BXD011	0.592	0.856
BXD03	0.339	0.629
BXD04	0.512	0.204
BXD05	0.295	0.386
BXD06	0.365	0.302
BXD07	0.449	0.521
BXD08	0.451	0.187
BXD09	0.24	0.377
CAST	0.022	-0.025
CCcont	0.441	-0.274
DS01	0.282	-0.041
DS02	0.241	-0.301
DS04	0.299	0.176
DS0c	0.407	-0.24
GP01	0.576	0.215
GP02	0.392	0.356
GP0c	0.375	-0.476
NOD	0.19	-0.223
NZO	-0.02	-0.67
PWK	0.335	-0.041
H37Rv_KO_CtpC	0.515	0.495
H37Rv_KO_CtpD	0.643	0.356
H37Rv_KO_Rv1272	0.839	0.748
H37Rv_KO_SugABC	0.594	0.901
H37Rv_KO_MbtN	0.852	0.323
Trans05	0.557	0.532
macrophage_unactivated	0.467	-0.035
IL1	0.243	0.208
Rapamycin	-0.387	-0.117
Tcell	0.45	0.085
GMCSF	0.42	0.193
IFNab	-0.381	0.263
IFNg	-0.032	-0.011
IFNg_GMCSF1	-0.075	0.503
Rv1432_day32	-0.198	-0.935
Rv1565c_day32	0.145	-1.224
secA2_input	0.099	-0.518
delta_Rv3594	0.203	0.05
delta_Rv3717	-0.227	0.101
delta_Rv3811	0.129	0.158
delta_Rv0954	0.039	0.13
PonA1	-0.461	0.006
EccD1_KO	-0.566	-0.227
EspI_KO	0.12	0.245
PE35_KO	-0.391	0.178
PPE68_KO	-0.429	0.259
glycerol2	0.553	0.282
lignocerate	0.798	0.104
oleate	0.516	0.702
phosphatidylcholine	0.807	0.253
acetate	0.293	-0.436
glucAc	0.31	-0.557
Rv0950ko	0.479	0.335
Rv1096ko	-0.57	-0.633
Rv3684ko	-0.187	-0.2
delta_otsA_trehalose	1.005	0.902