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 Rv3765c/tcrX:

update plot	correlation	link to info on gene
Rv0267/narU	(cc=0.5266)	info on Rv0267/narU
Rv0264c/-	(cc=0.5252)	info on Rv0264c/-
Rv1927/-	(cc=0.4678)	info on Rv1927/-
Rv0166/fadD5	(cc=0.4672)	info on Rv0166/fadD5
Rv3532/PPE61	(cc=0.4604)	info on Rv3532/PPE61
Rv3858c/gltD	(cc=0.4463)	info on Rv3858c/gltD
Rv0536/galE3	(cc=0.4357)	info on Rv0536/galE3
Rv2402/-	(cc=0.4308)	info on Rv2402/-
Rv1350/fabG2	(cc=0.4306)	info on Rv1350/fabG2
Rv3435c/-	(cc=0.4302)	info on Rv3435c/-

Correlation of Rv3765c/tcrX with Rv3532/PPE61

Normalized LFCs for Rv3765c/tcrX:
(description and provenance of datasets)

	Rv3765c/tcrX	Rv3532/PPE61
Fe_supp_jason_reseq	0.309	-0.058
low_pH_jason_reseq	-0.256	-0.79
NO_jason_reseq	-0.276	-0.194
B6_jason_reseq	0.547	0.706
MHCII_jason_reseq	0.536	0.622
Isoniazid02	0.166	0.501
Rifampicin4	-0.108	0.019
Ethambutol3	0.463	0.798
Meropenem3	0.056	0.187
Vancomycin16	0.674	0.204
Rv2680_day32	-0.121	-0.116
H37Rv_KO_MarP	0.282	0.203
hypoxia_3wks	0.247	0.096
hypoxia_6wks	0.875	-0.129
glycerol	0.372	0.334
cholesterol	0.151	0.284
AJ	0.776	0.05
Bibs02	-0.287	0.313
Bibs02c	0.84	0.371
BL6	0.725	0.12
BL6a	0.327	-0.014
BXD01	-0.104	-0.209
BXD010	0.636	-0.409
BXD011	-0.211	0.005
BXD03	0.176	0.054
BXD04	-0.185	-0.004
BXD05	-0.118	0.371
BXD06	0.278	-0.348
BXD07	0.233	-0.241
BXD08	-0.436	-0.537
BXD09	0.09	-0.257
CAST	0.315	0.452
CCcont	-0.072	-0.011
DS01	0.785	0.435
DS02	0.857	0.317
DS04	0.533	0.357
DS0c	0.668	0.731
GP01	1.007	0.479
GP02	1.229	0.504
GP0c	-0.772	-0.254
NOD	0.264	0.049
NZO	1.123	0.238
PWK	0.698	0.267
H37Rv_KO_CtpC	-0.591	0.344
H37Rv_KO_CtpD	0.573	0.176
H37Rv_KO_Rv1272	0.237	0.169
H37Rv_KO_SugABC	0.324	0.239
H37Rv_KO_MbtN	-1.647	-0.361
Trans05	0.789	-0.31
macrophage_unactivated	-0.489	-0.417
IL1	-0.104	-0.427
Rapamycin	0.015	-0.282
Tcell	-0.557	-0.156
GMCSF	0.214	-0.259
IFNab	-0.26	0.203
IFNg	0.925	-0.086
IFNg_GMCSF1	-0.336	0.132
Rv1432_day32	0.49	1.514
Rv1565c_day32	-0.338	0.286
secA2_input	-1.263	-0.291
delta_Rv3594	-0.115	-0.427
delta_Rv3717	-0.398	-0.205
delta_Rv3811	0.064	-0.346
delta_Rv0954	-0.019	-0.275
PonA1	0.335	-0.441
EccD1_KO	-0.71	-0.145
EspI_KO	-0.85	-0.465
PE35_KO	-0.449	-0.23
PPE68_KO	-0.953	-0.221
glycerol2	0.44	0.907
lignocerate	0.852	0.6
oleate	0.363	0.818
phosphatidylcholine	0.517	0.605
acetate	1.39	0.038
glucAc	1.109	0.0
Rv0950ko	-0.277	0.317
Rv1096ko	-0.262	0.015
Rv3684ko	-0.301	-0.046
delta_otsA_trehalose	0.911	1.375