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 Rv1362c/-

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

	Rv0507/mmpL2	Rv1362c/-
Fe_supp_jason_reseq	0.731	0.167
low_pH_jason_reseq	-0.463	-0.726
NO_jason_reseq	-0.347	0.142
B6_jason_reseq	0.217	-0.81
MHCII_jason_reseq	0.273	-0.066
Isoniazid02	-0.223	0.162
Rifampicin4	0.192	-0.141
Ethambutol3	1.468	1.469
Meropenem3	0.379	-0.062
Vancomycin16	0.027	0.164
Rv2680_day32	0.33	0.58
H37Rv_KO_MarP	0.178	0.244
hypoxia_3wks	0.662	0.486
hypoxia_6wks	0.474	0.528
glycerol	-0.437	0.426
cholesterol	0.779	0.353
AJ	0.045	0.602
Bibs02	0.343	0.126
Bibs02c	0.1	0.559
BL6	0.415	0.992
BL6a	0.354	0.65
BXD01	0.685	0.658
BXD010	0.186	0.966
BXD011	0.592	1.5
BXD03	0.339	0.587
BXD04	0.512	0.176
BXD05	0.295	0.411
BXD06	0.365	0.542
BXD07	0.449	0.233
BXD08	0.451	0.514
BXD09	0.24	0.296
CAST	0.022	-0.023
CCcont	0.441	0.726
DS01	0.282	-0.85
DS02	0.241	-0.751
DS04	0.299	0.472
DS0c	0.407	-0.184
GP01	0.576	0.192
GP02	0.392	0.739
GP0c	0.375	-0.026
NOD	0.19	-0.841
NZO	-0.02	0.387
PWK	0.335	0.445
H37Rv_KO_CtpC	0.515	0.368
H37Rv_KO_CtpD	0.643	0.993
H37Rv_KO_Rv1272	0.839	1.098
H37Rv_KO_SugABC	0.594	0.99
H37Rv_KO_MbtN	0.852	-0.582
Trans05	0.557	0.732
macrophage_unactivated	0.467	0.338
IL1	0.243	0.866
Rapamycin	-0.387	0.193
Tcell	0.45	-0.186
GMCSF	0.42	0.502
IFNab	-0.381	0.296
IFNg	-0.032	-0.203
IFNg_GMCSF1	-0.075	0.415
Rv1432_day32	-0.198	-1.027
Rv1565c_day32	0.145	0.352
secA2_input	0.099	-0.041
delta_Rv3594	0.203	-0.858
delta_Rv3717	-0.227	-1.19
delta_Rv3811	0.129	-0.483
delta_Rv0954	0.039	-0.647
PonA1	-0.461	-0.822
EccD1_KO	-0.566	-0.303
EspI_KO	0.12	-0.103
PE35_KO	-0.391	0.694
PPE68_KO	-0.429	0.538
glycerol2	0.553	0.918
lignocerate	0.798	0.838
oleate	0.516	0.753
phosphatidylcholine	0.807	0.881
acetate	0.293	0.866
glucAc	0.31	0.842
Rv0950ko	0.479	-0.169
Rv1096ko	-0.57	-1.071
Rv3684ko	-0.187	-1.706
delta_otsA_trehalose	1.005	-0.163