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 Rv1921c/lppF:

update plot	correlation	link to info on gene
Rv3538/-	(cc=0.489)	info on Rv3538/-
Rv1866/-	(cc=0.4783)	info on Rv1866/-
Rv1182/papA3	(cc=0.469)	info on Rv1182/papA3
Rv1676/-	(cc=0.4609)	info on Rv1676/-
Rv1632c/-	(cc=0.4435)	info on Rv1632c/-
Rv2105/-	(cc=0.4316)	info on Rv2105/-
Rv1115/-	(cc=0.4269)	info on Rv1115/-
Rv3335c/-	(cc=0.4265)	info on Rv3335c/-
Rv1394c/cyp132	(cc=0.4197)	info on Rv1394c/cyp132
Rv2015c/-	(cc=0.4174)	info on Rv2015c/-

Correlation of Rv1921c/lppF with Rv1182/papA3

Normalized LFCs for Rv1921c/lppF:
(description and provenance of datasets)

	Rv1921c/lppF	Rv1182/papA3
Fe_supp_jason_reseq	-0.055	0.169
low_pH_jason_reseq	1.548	0.915
NO_jason_reseq	-0.11	0.478
B6_jason_reseq	0.649	1.789
MHCII_jason_reseq	0.378	1.842
Isoniazid02	0.457	0.332
Rifampicin4	0.1	0.0
Ethambutol3	1.023	1.685
Meropenem3	0.158	-0.025
Vancomycin16	-0.241	0.212
Rv2680_day32	0.438	-0.193
H37Rv_KO_MarP	0.298	0.574
hypoxia_3wks	0.14	-0.69
hypoxia_6wks	0.459	-0.422
glycerol	0.086	-0.038
cholesterol	-0.269	0.461
AJ	0.308	0.197
Bibs02	0.017	0.356
Bibs02c	0.303	-0.136
BL6	0.036	-1.421
BL6a	-0.029	-1.221
BXD01	0.161	-1.839
BXD010	-0.363	-0.665
BXD011	-0.267	-1.4
BXD03	-0.291	-1.347
BXD04	-0.1	-1.975
BXD05	0.039	-1.256
BXD06	-0.019	-1.566
BXD07	0.281	-1.599
BXD08	-0.08	-1.241
BXD09	-0.159	-1.4
CAST	0.152	0.155
CCcont	-0.044	-1.219
DS01	0.332	0.385
DS02	0.306	0.271
DS04	0.028	0.756
DS0c	0.36	0.245
GP01	0.374	-1.394
GP02	0.016	-1.579
GP0c	0.289	-1.63
NOD	0.278	0.952
NZO	0.23	0.013
PWK	0.571	0.668
H37Rv_KO_CtpC	-0.14	-0.624
H37Rv_KO_CtpD	0.886	-1.918
H37Rv_KO_Rv1272	0.911	-0.952
H37Rv_KO_SugABC	-0.429	-0.837
H37Rv_KO_MbtN	1.082	0.122
Trans05	0.168	0.191
macrophage_unactivated	-0.543	-2.039
IL1	-0.383	-0.718
Rapamycin	-0.193	-0.967
Tcell	-0.339	-2.105
GMCSF	0.771	-1.41
IFNab	-0.571	-1.953
IFNg	-0.529	-2.793
IFNg_GMCSF1	-0.999	-1.609
Rv1432_day32	0.289	-0.508
Rv1565c_day32	-0.071	0.088
secA2_input	0.083	0.0
delta_Rv3594	0.17	0.502
delta_Rv3717	0.624	-0.268
delta_Rv3811	0.109	0.827
delta_Rv0954	-0.536	0.24
PonA1	-0.008	-0.067
EccD1_KO	0.155	0.207
EspI_KO	0.456	0.75
PE35_KO	0.484	1.21
PPE68_KO	0.435	1.011
glycerol2	0.57	0.518
lignocerate	0.609	0.728
oleate	0.586	0.071
phosphatidylcholine	0.668	0.171
acetate	0.078	-0.153
glucAc	0.163	-0.356
Rv0950ko	0.0	-1.152
Rv1096ko	0.06	-0.959
Rv3684ko	-0.023	-1.624
delta_otsA_trehalose	-0.038	-0.651