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 Rv0267/narU

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

	Rv3765c/tcrX	Rv0267/narU
Fe_supp_jason_reseq	0.309	0.129
low_pH_jason_reseq	-0.256	0.0
NO_jason_reseq	-0.276	0.176
B6_jason_reseq	0.547	-0.212
MHCII_jason_reseq	0.536	-0.112
Isoniazid02	0.166	0.842
Rifampicin4	-0.108	0.282
Ethambutol3	0.463	0.531
Meropenem3	0.056	1.015
Vancomycin16	0.674	0.061
Rv2680_day32	-0.121	0.264
H37Rv_KO_MarP	0.282	0.779
hypoxia_3wks	0.247	-0.024
hypoxia_6wks	0.875	0.115
glycerol	0.372	0.222
cholesterol	0.151	0.229
AJ	0.776	0.64
Bibs02	-0.287	-0.013
Bibs02c	0.84	-0.318
BL6	0.725	0.393
BL6a	0.327	0.063
BXD01	-0.104	-0.373
BXD010	0.636	0.019
BXD011	-0.211	-0.005
BXD03	0.176	-0.02
BXD04	-0.185	0.018
BXD05	-0.118	0.039
BXD06	0.278	0.029
BXD07	0.233	0.152
BXD08	-0.436	-0.111
BXD09	0.09	0.113
CAST	0.315	0.269
CCcont	-0.072	-0.055
DS01	0.785	0.026
DS02	0.857	0.296
DS04	0.533	0.103
DS0c	0.668	0.259
GP01	1.007	0.749
GP02	1.229	1.154
GP0c	-0.772	-0.429
NOD	0.264	-0.143
NZO	1.123	0.419
PWK	0.698	-0.242
H37Rv_KO_CtpC	-0.591	0.205
H37Rv_KO_CtpD	0.573	0.474
H37Rv_KO_Rv1272	0.237	0.655
H37Rv_KO_SugABC	0.324	0.24
H37Rv_KO_MbtN	-1.647	-1.302
Trans05	0.789	0.669
macrophage_unactivated	-0.489	-0.054
IL1	-0.104	0.027
Rapamycin	0.015	-0.175
Tcell	-0.557	-0.349
GMCSF	0.214	-0.269
IFNab	-0.26	0.127
IFNg	0.925	-0.104
IFNg_GMCSF1	-0.336	-0.364
Rv1432_day32	0.49	0.701
Rv1565c_day32	-0.338	0.212
secA2_input	-1.263	0.208
delta_Rv3594	-0.115	0.098
delta_Rv3717	-0.398	-0.497
delta_Rv3811	0.064	-0.196
delta_Rv0954	-0.019	0.116
PonA1	0.335	0.418
EccD1_KO	-0.71	-0.556
EspI_KO	-0.85	-1.232
PE35_KO	-0.449	-0.776
PPE68_KO	-0.953	-1.273
glycerol2	0.44	0.263
lignocerate	0.852	0.01
oleate	0.363	1.021
phosphatidylcholine	0.517	0.364
acetate	1.39	0.432
glucAc	1.109	-0.187
Rv0950ko	-0.277	0.636
Rv1096ko	-0.262	0.296
Rv3684ko	-0.301	-0.409
delta_otsA_trehalose	0.911	-0.139