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 Rv0073/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.5614)	info on Rv0160c/PE4
Rv2431c/PE25	(cc=0.5486)	info on Rv2431c/PE25
Rv2352c/PPE38	(cc=0.5416)	info on Rv2352c/PPE38
Rv3045/adhC	(cc=0.53)	info on Rv3045/adhC
Rv0456B/mazE1	(cc=0.5264)	info on Rv0456B/mazE1
Rv0197/-	(cc=0.5135)	info on Rv0197/-
Rv3404c/-	(cc=0.5038)	info on Rv3404c/-
Rv3814c/-	(cc=0.4958)	info on Rv3814c/-
Rv2957/-	(cc=0.4929)	info on Rv2957/-
Rv2472/-	(cc=0.4893)	info on Rv2472/-

Correlation of Rv0073/- with Rv2957/-

Normalized LFCs for Rv0073/-:
(description and provenance of datasets)

	Rv0073/-	Rv2957/-
Fe_supp_jason_reseq	-0.133	0.507
low_pH_jason_reseq	-0.422	-0.46
NO_jason_reseq	-0.761	-0.018
B6_jason_reseq	0.152	0.052
MHCII_jason_reseq	-0.392	0.319
Isoniazid02	-1.654	-0.784
Rifampicin4	-0.801	0.417
Ethambutol3	-0.55	0.316
Meropenem3	-1.17	-0.769
Vancomycin16	-1.141	-0.17
Rv2680_day32	0.489	0.675
H37Rv_KO_MarP	0.0	0.492
hypoxia_3wks	-0.203	-0.12
hypoxia_6wks	-0.244	-0.236
glycerol	0.812	-0.018
cholesterol	0.242	-0.17
AJ	-0.076	0.171
Bibs02	0.755	-0.04
Bibs02c	0.915	0.399
BL6	0.766	0.256
BL6a	0.042	0.131
BXD01	0.451	0.434
BXD010	0.271	0.519
BXD011	-0.245	0.322
BXD03	0.36	0.536
BXD04	0.559	0.994
BXD05	0.599	0.11
BXD06	0.259	0.465
BXD07	0.015	0.422
BXD08	-0.198	0.268
BXD09	0.235	0.49
CAST	0.143	0.347
CCcont	-0.04	0.191
DS01	1.3	-0.123
DS02	0.553	0.221
DS04	0.41	-0.228
DS0c	0.903	0.358
GP01	0.275	0.782
GP02	0.285	0.576
GP0c	-0.336	0.039
NOD	0.395	0.692
NZO	0.306	-0.402
PWK	0.796	0.395
H37Rv_KO_CtpC	0.467	0.936
H37Rv_KO_CtpD	1.33	0.909
H37Rv_KO_Rv1272	0.816	1.143
H37Rv_KO_SugABC	-0.049	0.842
H37Rv_KO_MbtN	-0.225	0.76
Trans05	1.018	1.468
macrophage_unactivated	0.208	0.615
IL1	0.08	-0.329
Rapamycin	0.338	-0.307
Tcell	0.277	-0.476
GMCSF	-0.256	-0.869
IFNab	-0.187	-0.115
IFNg	-0.241	0.139
IFNg_GMCSF1	-0.512	-0.478
Rv1432_day32	-0.489	0.01
Rv1565c_day32	-0.092	0.0
secA2_input	0.269	0.114
delta_Rv3594	-0.17	0.061
delta_Rv3717	-0.341	-0.609
delta_Rv3811	-0.439	0.0
delta_Rv0954	-0.134	-0.561
PonA1	-0.008	-0.38
EccD1_KO	-0.102	0.51
EspI_KO	0.268	0.853
PE35_KO	0.257	1.103
PPE68_KO	0.531	0.745
glycerol2	0.073	0.303
lignocerate	-0.323	0.247
oleate	0.336	0.251
phosphatidylcholine	0.022	0.356
acetate	-1.034	-0.318
glucAc	-0.98	-0.209
Rv0950ko	0.271	0.666
Rv1096ko	0.305	-0.344
Rv3684ko	-0.698	0.131
delta_otsA_trehalose	-0.232	-0.462